-- dump date 20140620_020952 -- class Genbank::misc_feature -- table misc_feature_note -- id note 313595000001 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 313595000002 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 313595000003 putative active site [active] 313595000004 putative NTP binding site [chemical binding]; other site 313595000005 putative nucleic acid binding site [nucleotide binding]; other site 313595000006 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 313595000007 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 313595000008 active site 313595000009 DNA binding site [nucleotide binding] 313595000010 Int/Topo IB signature motif; other site 313595000011 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 313595000012 Putative transposase; Region: Y2_Tnp; pfam04986 313595000013 Uncharacterized protein containing a Zn-ribbon (DUF2116); Region: DUF2116; cl01683 313595000014 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 313595000015 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313595000016 putative substrate translocation pore; other site 313595000017 Transposase domain (DUF772); Region: DUF772; pfam05598 313595000018 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 313595000019 DDE superfamily endonuclease; Region: DDE_4; cl17710 313595000020 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 313595000021 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 313595000022 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 313595000023 dihydroorotase; Reviewed; Region: PRK09236 313595000024 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 313595000025 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 313595000026 active site 313595000027 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 313595000028 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 313595000029 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 313595000030 Winged helix-turn helix; Region: HTH_29; pfam13551 313595000031 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595000032 Homeodomain-like domain; Region: HTH_32; pfam13565 313595000033 Winged helix-turn helix; Region: HTH_33; pfam13592 313595000034 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595000035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595000036 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595000037 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595000038 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 313595000039 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 313595000040 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313595000041 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 313595000042 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 313595000043 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595000044 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 313595000045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595000046 Coenzyme A binding pocket [chemical binding]; other site 313595000047 Predicted flavoprotein [General function prediction only]; Region: COG0431 313595000048 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 313595000049 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 313595000050 active site 313595000051 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595000052 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 313595000053 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 313595000054 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 313595000055 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 313595000056 dimerization interface [polypeptide binding]; other site 313595000057 substrate binding site [chemical binding]; other site 313595000058 active site 313595000059 calcium binding site [ion binding]; other site 313595000060 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 313595000061 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 313595000062 ATP binding site [chemical binding]; other site 313595000063 Mg++ binding site [ion binding]; other site 313595000064 motif III; other site 313595000065 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 313595000066 nucleotide binding region [chemical binding]; other site 313595000067 ATP-binding site [chemical binding]; other site 313595000068 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 313595000069 DinB superfamily; Region: DinB_2; pfam12867 313595000070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 313595000071 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 313595000072 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 313595000073 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595000074 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 313595000075 ligand binding site [chemical binding]; other site 313595000076 flexible hinge region; other site 313595000077 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 313595000078 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 313595000079 potential catalytic triad [active] 313595000080 conserved cys residue [active] 313595000081 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 313595000082 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313595000083 asparagine synthase (glutamine-hydrolyzing); Region: PLN02549 313595000084 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 313595000085 active site 313595000086 dimer interface [polypeptide binding]; other site 313595000087 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 313595000088 Ligand Binding Site [chemical binding]; other site 313595000089 Molecular Tunnel; other site 313595000090 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 313595000091 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 313595000092 putative DNA binding site [nucleotide binding]; other site 313595000093 putative Zn2+ binding site [ion binding]; other site 313595000094 AsnC family; Region: AsnC_trans_reg; pfam01037 313595000095 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 313595000096 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 313595000097 active site 313595000098 catalytic residues [active] 313595000099 metal binding site [ion binding]; metal-binding site 313595000100 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 313595000101 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 313595000102 substrate binding site [chemical binding]; other site 313595000103 ligand binding site [chemical binding]; other site 313595000104 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 313595000105 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 313595000106 substrate binding site [chemical binding]; other site 313595000107 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 313595000108 tartrate dehydrogenase; Region: TTC; TIGR02089 313595000109 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 313595000110 active sites [active] 313595000111 Lyase; Region: Lyase_1; pfam00206 313595000112 tetramer interface [polypeptide binding]; other site 313595000113 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 313595000114 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 313595000115 metal binding site [ion binding]; metal-binding site 313595000116 dimer interface [polypeptide binding]; other site 313595000117 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 313595000118 nucleotide binding site [chemical binding]; other site 313595000119 N-acetyl-L-glutamate binding site [chemical binding]; other site 313595000120 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 313595000121 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 313595000122 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 313595000123 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 313595000124 inhibitor-cofactor binding pocket; inhibition site 313595000125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595000126 catalytic residue [active] 313595000127 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 313595000128 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 313595000129 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 313595000130 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 313595000131 argininosuccinate synthase; Provisional; Region: PRK13820 313595000132 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 313595000133 Ligand Binding Site [chemical binding]; other site 313595000134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595000135 Coenzyme A binding pocket [chemical binding]; other site 313595000136 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 313595000137 tetramer interface [polypeptide binding]; other site 313595000138 threonine dehydratase; Validated; Region: PRK08639 313595000139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595000140 catalytic residue [active] 313595000141 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 313595000142 putative Ile/Val binding site [chemical binding]; other site 313595000143 ketol-acid reductoisomerase; Validated; Region: PRK05225 313595000144 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 313595000145 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 313595000146 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 313595000147 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 313595000148 acetolactate synthase, small subunit; Region: acolac_sm; TIGR00119 313595000149 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 313595000150 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 313595000151 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 313595000152 PYR/PP interface [polypeptide binding]; other site 313595000153 dimer interface [polypeptide binding]; other site 313595000154 TPP binding site [chemical binding]; other site 313595000155 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 313595000156 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 313595000157 TPP-binding site [chemical binding]; other site 313595000158 dimer interface [polypeptide binding]; other site 313595000159 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 313595000160 threonine synthase; Validated; Region: PRK09225 313595000161 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 313595000162 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595000163 catalytic residue [active] 313595000164 homoserine kinase; Provisional; Region: PRK01212 313595000165 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 313595000166 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 313595000167 putative catalytic residues [active] 313595000168 putative nucleotide binding site [chemical binding]; other site 313595000169 putative aspartate binding site [chemical binding]; other site 313595000170 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 313595000171 dimer interface [polypeptide binding]; other site 313595000172 putative threonine allosteric regulatory site; other site 313595000173 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 313595000174 putative threonine allosteric regulatory site; other site 313595000175 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 313595000176 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 313595000177 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 313595000178 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595000179 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595000180 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595000181 Cytochrome c; Region: Cytochrom_C; pfam00034 313595000182 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 313595000183 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 313595000184 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 313595000185 putative hydrolase; Provisional; Region: PRK02113 313595000186 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 313595000187 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595000188 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 313595000189 Cation transport protein; Region: TrkH; cl17365 313595000190 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 313595000191 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 313595000192 TrkA-N domain; Region: TrkA_N; pfam02254 313595000193 TrkA-C domain; Region: TrkA_C; pfam02080 313595000194 TrkA-N domain; Region: TrkA_N; pfam02254 313595000195 TrkA-C domain; Region: TrkA_C; pfam02080 313595000196 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 313595000197 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 313595000198 S-adenosylmethionine binding site [chemical binding]; other site 313595000199 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313595000200 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313595000201 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313595000202 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 313595000203 Surface antigen; Region: Bac_surface_Ag; pfam01103 313595000204 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 313595000205 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 313595000206 active site 313595000207 intersubunit interface [polypeptide binding]; other site 313595000208 zinc binding site [ion binding]; other site 313595000209 Na+ binding site [ion binding]; other site 313595000210 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 313595000211 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 313595000212 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 313595000213 active site 313595000214 Ap6A binding site [chemical binding]; other site 313595000215 nudix motif; other site 313595000216 metal binding site [ion binding]; metal-binding site 313595000217 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313595000218 active site 313595000219 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313595000220 GAF domain; Region: GAF; pfam01590 313595000221 PAS domain S-box; Region: sensory_box; TIGR00229 313595000222 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 313595000223 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595000224 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 313595000225 putative active site [active] 313595000226 heme pocket [chemical binding]; other site 313595000227 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 313595000228 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595000229 putative active site [active] 313595000230 heme pocket [chemical binding]; other site 313595000231 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 313595000232 dimer interface [polypeptide binding]; other site 313595000233 phosphorylation site [posttranslational modification] 313595000234 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595000235 ATP binding site [chemical binding]; other site 313595000236 Mg2+ binding site [ion binding]; other site 313595000237 G-X-G motif; other site 313595000238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595000239 Response regulator receiver domain; Region: Response_reg; pfam00072 313595000240 active site 313595000241 phosphorylation site [posttranslational modification] 313595000242 intermolecular recognition site; other site 313595000243 dimerization interface [polypeptide binding]; other site 313595000244 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 313595000245 putative binding surface; other site 313595000246 active site 313595000247 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 313595000248 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 313595000249 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595000250 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595000251 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 313595000252 putative active site [active] 313595000253 Zn binding site [ion binding]; other site 313595000254 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1; cd01653 313595000255 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313595000256 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595000257 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 313595000258 DNA binding residues [nucleotide binding] 313595000259 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 313595000260 NADH(P)-binding; Region: NAD_binding_10; pfam13460 313595000261 NAD(P) binding site [chemical binding]; other site 313595000262 putative active site [active] 313595000263 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 313595000264 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313595000265 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313595000266 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313595000267 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 313595000268 Haemolysin-III related; Region: HlyIII; cl03831 313595000269 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 313595000270 lipoyl synthase; Provisional; Region: PRK05481 313595000271 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 313595000272 FeS/SAM binding site; other site 313595000273 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 313595000274 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 313595000275 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 313595000276 cytidylate kinase; Provisional; Region: cmk; PRK00023 313595000277 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 313595000278 CMP-binding site; other site 313595000279 The sites determining sugar specificity; other site 313595000280 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 313595000281 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313595000282 Zn2+ binding site [ion binding]; other site 313595000283 Mg2+ binding site [ion binding]; other site 313595000284 acetyl-CoA C-acetyltransferase; Region: PLN02644 313595000285 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 313595000286 dimer interface [polypeptide binding]; other site 313595000287 active site 313595000288 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 313595000289 NlpC/P60 family; Region: NLPC_P60; pfam00877 313595000290 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 313595000291 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313595000292 active site 313595000293 metal binding site [ion binding]; metal-binding site 313595000294 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 313595000295 Surface antigen; Region: Bac_surface_Ag; pfam01103 313595000296 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313595000297 Zn2+ binding site [ion binding]; other site 313595000298 Mg2+ binding site [ion binding]; other site 313595000299 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 313595000300 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 313595000301 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595000302 catalytic residues [active] 313595000303 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 313595000304 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313595000305 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313595000306 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595000307 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 313595000308 DNA binding residues [nucleotide binding] 313595000309 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 313595000310 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 313595000311 active site 313595000312 DNA binding site [nucleotide binding] 313595000313 Int/Topo IB signature motif; other site 313595000314 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 313595000315 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 313595000316 catalytic triad [active] 313595000317 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 313595000318 endonuclease III; Region: ENDO3c; smart00478 313595000319 minor groove reading motif; other site 313595000320 helix-hairpin-helix signature motif; other site 313595000321 substrate binding pocket [chemical binding]; other site 313595000322 active site 313595000323 RNA polymerase sigma factor; Provisional; Region: PRK12513 313595000324 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595000325 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 313595000326 DNA binding residues [nucleotide binding] 313595000327 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 313595000328 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313595000329 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313595000330 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 313595000331 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313595000332 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 313595000333 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 313595000334 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 313595000335 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 313595000336 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 313595000337 16S/18S rRNA binding site [nucleotide binding]; other site 313595000338 S13e-L30e interaction site [polypeptide binding]; other site 313595000339 25S rRNA binding site [nucleotide binding]; other site 313595000340 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 313595000341 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 313595000342 oligomer interface [polypeptide binding]; other site 313595000343 RNA binding site [nucleotide binding]; other site 313595000344 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 313595000345 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 313595000346 RNase E interface [polypeptide binding]; other site 313595000347 trimer interface [polypeptide binding]; other site 313595000348 active site 313595000349 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 313595000350 putative nucleic acid binding region [nucleotide binding]; other site 313595000351 G-X-X-G motif; other site 313595000352 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 313595000353 RNA binding site [nucleotide binding]; other site 313595000354 domain interface; other site 313595000355 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 313595000356 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 313595000357 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 313595000358 nucleotide binding site [chemical binding]; other site 313595000359 homotetrameric interface [polypeptide binding]; other site 313595000360 putative phosphate binding site [ion binding]; other site 313595000361 putative allosteric binding site; other site 313595000362 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 313595000363 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 313595000364 NAD(P) binding site [chemical binding]; other site 313595000365 catalytic residues [active] 313595000366 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 313595000367 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 313595000368 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595000369 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 313595000370 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 313595000371 DNA binding residues [nucleotide binding] 313595000372 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 313595000373 TPR motif; other site 313595000374 binding surface 313595000375 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 313595000376 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 313595000377 Tetratricopeptide repeat; Region: TPR_6; pfam13174 313595000378 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 313595000379 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 313595000380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595000381 Walker A/P-loop; other site 313595000382 ATP binding site [chemical binding]; other site 313595000383 Q-loop/lid; other site 313595000384 ABC transporter signature motif; other site 313595000385 Walker B; other site 313595000386 D-loop; other site 313595000387 H-loop/switch region; other site 313595000388 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 313595000389 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 313595000390 active site 313595000391 Zn binding site [ion binding]; other site 313595000392 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 313595000393 active site 313595000394 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313595000395 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 313595000396 active site 313595000397 Sulfatase; Region: Sulfatase; pfam00884 313595000398 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313595000399 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 313595000400 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 313595000401 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 313595000402 Uncharacterized conserved protein [Function unknown]; Region: COG3391 313595000403 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 313595000404 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 313595000405 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 313595000406 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 313595000407 putative ligand binding site [chemical binding]; other site 313595000408 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 313595000409 ABC-ATPase subunit interface; other site 313595000410 dimer interface [polypeptide binding]; other site 313595000411 putative PBP binding regions; other site 313595000412 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 313595000413 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 313595000414 Walker A/P-loop; other site 313595000415 ATP binding site [chemical binding]; other site 313595000416 Q-loop/lid; other site 313595000417 ABC transporter signature motif; other site 313595000418 Walker B; other site 313595000419 D-loop; other site 313595000420 H-loop/switch region; other site 313595000421 beta-carotene 15,15'-monooxygenase, Brp/Blh family; Region: blh_monoox; TIGR03753 313595000422 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 313595000423 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; pfam01036 313595000424 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 313595000425 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 313595000426 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595000427 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 313595000428 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595000429 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595000430 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 313595000431 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595000432 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 313595000433 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 313595000434 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 313595000435 Active Sites [active] 313595000436 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313595000437 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 313595000438 active site residue [active] 313595000439 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 313595000440 active site residue [active] 313595000441 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 313595000442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595000443 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313595000444 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595000445 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 313595000446 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 313595000447 NAD(P) binding site [chemical binding]; other site 313595000448 catalytic residues [active] 313595000449 Protein of unknown function (DUF779); Region: DUF779; pfam05610 313595000450 hypothetical protein; Validated; Region: PRK02101 313595000451 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313595000452 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 313595000453 RNA binding surface [nucleotide binding]; other site 313595000454 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313595000455 active site 313595000456 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 313595000457 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 313595000458 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 313595000459 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 313595000460 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 313595000461 putative acyl-acceptor binding pocket; other site 313595000462 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 313595000463 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-phosphohexomutase...; Region: PGM_like4; cd05803 313595000464 active site 313595000465 substrate binding site [chemical binding]; other site 313595000466 metal binding site [ion binding]; metal-binding site 313595000467 Protein of unknown function, DUF479; Region: DUF479; pfam04336 313595000468 DoxX-like family; Region: DoxX_2; pfam13564 313595000469 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 313595000470 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 313595000471 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 313595000472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595000473 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 313595000474 DNA binding residues [nucleotide binding] 313595000475 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313595000476 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 313595000477 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 313595000478 Catalytic dyad [active] 313595000479 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 313595000480 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313595000481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595000482 active site 313595000483 phosphorylation site [posttranslational modification] 313595000484 intermolecular recognition site; other site 313595000485 dimerization interface [polypeptide binding]; other site 313595000486 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 313595000487 DNA binding residues [nucleotide binding] 313595000488 dimerization interface [polypeptide binding]; other site 313595000489 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 313595000490 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 313595000491 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 313595000492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595000493 NAD(P) binding site [chemical binding]; other site 313595000494 active site 313595000495 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 313595000496 aromatic arch; other site 313595000497 DCoH dimer interaction site [polypeptide binding]; other site 313595000498 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 313595000499 DCoH tetramer interaction site [polypeptide binding]; other site 313595000500 substrate binding site [chemical binding]; other site 313595000501 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 313595000502 dimer interface [polypeptide binding]; other site 313595000503 FMN binding site [chemical binding]; other site 313595000504 Saccharopine Dehydrogenase like proteins; Region: SDH_like; cd05199 313595000505 active site 313595000506 ligand binding site [chemical binding]; other site 313595000507 NAD(P) binding site [chemical binding]; other site 313595000508 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 313595000509 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 313595000510 tetramer interface [polypeptide binding]; other site 313595000511 active site 313595000512 Mg2+/Mn2+ binding site [ion binding]; other site 313595000513 active site 313595000514 metal binding site [ion binding]; metal-binding site 313595000515 isocitrate lyase; Region: PLN02892 313595000516 malate synthase A; Region: malate_syn_A; TIGR01344 313595000517 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 313595000518 active site 313595000519 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 313595000520 non-specific DNA binding site [nucleotide binding]; other site 313595000521 salt bridge; other site 313595000522 sequence-specific DNA binding site [nucleotide binding]; other site 313595000523 Protein of unknown function DUF45; Region: DUF45; pfam01863 313595000524 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 313595000525 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 313595000526 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 313595000527 ATP binding site [chemical binding]; other site 313595000528 putative Mg++ binding site [ion binding]; other site 313595000529 Transposase IS200 like; Region: Y1_Tnp; cl00848 313595000530 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 313595000531 metal binding triad [ion binding]; metal-binding site 313595000532 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 313595000533 active site 313595000534 nucleophile elbow; other site 313595000535 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595000536 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 313595000537 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595000538 Virulence protein [General function prediction only]; Region: COG3943 313595000539 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 313595000540 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 313595000541 HsdM N-terminal domain; Region: HsdM_N; pfam12161 313595000542 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313595000543 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 313595000544 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595000545 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313595000546 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 313595000547 non-specific DNA binding site [nucleotide binding]; other site 313595000548 salt bridge; other site 313595000549 sequence-specific DNA binding site [nucleotide binding]; other site 313595000550 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 313595000551 Catalytic site [active] 313595000552 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 313595000553 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 313595000554 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 313595000555 Predicted membrane protein [Function unknown]; Region: COG3766 313595000556 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 313595000557 spermidine synthase; Provisional; Region: PRK03612 313595000558 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 313595000559 S-adenosylmethionine binding site [chemical binding]; other site 313595000560 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 313595000561 Transposase domain (DUF772); Region: DUF772; pfam05598 313595000562 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 313595000563 Rhomboid family; Region: Rhomboid; pfam01694 313595000564 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 313595000565 Fungalysin metallopeptidase (M36); Region: Peptidase_M36; pfam02128 313595000566 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 313595000567 Zn binding site [ion binding]; other site 313595000568 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 313595000569 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595000570 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313595000571 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 313595000572 active site 313595000573 metal binding site [ion binding]; metal-binding site 313595000574 Predicted transcriptional regulators [Transcription]; Region: COG1733 313595000575 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 313595000576 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 313595000577 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 313595000578 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 313595000579 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 313595000580 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 313595000581 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 313595000582 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 313595000583 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 313595000584 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 313595000585 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 313595000586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595000587 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 313595000588 NAD(P) binding site [chemical binding]; other site 313595000589 active site 313595000590 YcfA-like protein; Region: YcfA; pfam07927 313595000591 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 313595000592 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 313595000593 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 313595000594 non-specific DNA binding site [nucleotide binding]; other site 313595000595 salt bridge; other site 313595000596 sequence-specific DNA binding site [nucleotide binding]; other site 313595000597 HipA N-terminal domain; Region: couple_hipA; TIGR03071 313595000598 HipA-like N-terminal domain; Region: HipA_N; pfam07805 313595000599 HipA-like C-terminal domain; Region: HipA_C; pfam07804 313595000600 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 313595000601 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 313595000602 metal binding site [ion binding]; metal-binding site 313595000603 dimer interface [polypeptide binding]; other site 313595000604 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 313595000605 GIY-YIG motif/motif A; other site 313595000606 putative active site [active] 313595000607 putative metal binding site [ion binding]; other site 313595000608 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313595000609 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595000610 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 313595000611 DNA binding residues [nucleotide binding] 313595000612 Erythromycin esterase; Region: Erythro_esteras; cl17110 313595000613 Erythromycin esterase; Region: Erythro_esteras; cl17110 313595000614 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 313595000615 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 313595000616 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 313595000617 active site 313595000618 catalytic site [active] 313595000619 metal binding site [ion binding]; metal-binding site 313595000620 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595000621 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 313595000622 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 313595000623 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 313595000624 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 313595000625 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 313595000626 active site 313595000627 trimer interface [polypeptide binding]; other site 313595000628 allosteric site; other site 313595000629 active site lid [active] 313595000630 hexamer (dimer of trimers) interface [polypeptide binding]; other site 313595000631 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 313595000632 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 313595000633 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 313595000634 putative active site [active] 313595000635 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 313595000636 Na binding site [ion binding]; other site 313595000637 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 313595000638 starch binding outer membrane protein SusD; Region: SusD; cl17845 313595000639 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313595000640 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595000641 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313595000642 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 313595000643 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 313595000644 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 313595000645 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 313595000646 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 313595000647 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 313595000648 hexamer interface [polypeptide binding]; other site 313595000649 ligand binding site [chemical binding]; other site 313595000650 putative active site [active] 313595000651 NAD(P) binding site [chemical binding]; other site 313595000652 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 313595000653 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 313595000654 dimer interface [polypeptide binding]; other site 313595000655 active site 313595000656 heme binding site [chemical binding]; other site 313595000657 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 313595000658 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 313595000659 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313595000660 PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to...; Region: PA_GCPII_like; cd02121 313595000661 apical/protease domain interface [polypeptide binding]; other site 313595000662 substrate binding [chemical binding]; other site 313595000663 dimer interface [polypeptide binding]; other site 313595000664 M28 Zn-peptidase prostate-specific membrane antigen; Region: M28_PSMA_like; cd08022 313595000665 dimer interface [polypeptide binding]; other site 313595000666 Peptidase family M28; Region: Peptidase_M28; pfam04389 313595000667 active site 313595000668 metal binding site [ion binding]; metal-binding site 313595000669 Transferrin receptor-like dimerisation domain; Region: TFR_dimer; pfam04253 313595000670 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 313595000671 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 313595000672 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 313595000673 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 313595000674 Transposase domain (DUF772); Region: DUF772; pfam05598 313595000675 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595000676 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 313595000677 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 313595000678 putative homodimer interface [polypeptide binding]; other site 313595000679 putative active site [active] 313595000680 catalytic site [active] 313595000681 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 313595000682 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 313595000683 non-specific DNA binding site [nucleotide binding]; other site 313595000684 salt bridge; other site 313595000685 sequence-specific DNA binding site [nucleotide binding]; other site 313595000686 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 313595000687 active site 313595000688 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 313595000689 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595000690 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 313595000691 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 313595000692 active site 313595000693 motif I; other site 313595000694 motif II; other site 313595000695 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 313595000696 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313595000697 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313595000698 Protein of unknown function (DUF808); Region: DUF808; cl01002 313595000699 putative glycosyltransferase, exosortase G-associated; Region: glyc2_xrt_Gpos1; TIGR03111 313595000700 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 313595000701 active site 313595000702 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595000703 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 313595000704 Winged helix-turn helix; Region: HTH_29; pfam13551 313595000705 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595000706 Homeodomain-like domain; Region: HTH_32; pfam13565 313595000707 Winged helix-turn helix; Region: HTH_33; pfam13592 313595000708 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595000709 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595000710 Histidine kinase; Region: His_kinase; pfam06580 313595000711 Transposase IS200 like; Region: Y1_Tnp; pfam01797 313595000712 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313595000713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595000714 active site 313595000715 phosphorylation site [posttranslational modification] 313595000716 intermolecular recognition site; other site 313595000717 dimerization interface [polypeptide binding]; other site 313595000718 LytTr DNA-binding domain; Region: LytTR; pfam04397 313595000719 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 313595000720 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 313595000721 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 313595000722 active site clefts [active] 313595000723 zinc binding site [ion binding]; other site 313595000724 dimer interface [polypeptide binding]; other site 313595000725 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 313595000726 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595000727 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595000728 ABC transporter; Region: ABC_tran_2; pfam12848 313595000729 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595000730 YceG-like family; Region: YceG; pfam02618 313595000731 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 313595000732 dimerization interface [polypeptide binding]; other site 313595000733 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 313595000734 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595000735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 313595000736 Coenzyme A binding pocket [chemical binding]; other site 313595000737 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 313595000738 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 313595000739 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 313595000740 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 313595000741 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 313595000742 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 313595000743 protein binding site [polypeptide binding]; other site 313595000744 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 313595000745 protein binding site [polypeptide binding]; other site 313595000746 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313595000747 active site 313595000748 adenylate kinase; Reviewed; Region: adk; PRK00279 313595000749 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 313595000750 AMP-binding site [chemical binding]; other site 313595000751 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 313595000752 GTPase CgtA; Reviewed; Region: obgE; PRK12299 313595000753 GTP1/OBG; Region: GTP1_OBG; pfam01018 313595000754 Obg GTPase; Region: Obg; cd01898 313595000755 G1 box; other site 313595000756 GTP/Mg2+ binding site [chemical binding]; other site 313595000757 Switch I region; other site 313595000758 G2 box; other site 313595000759 G3 box; other site 313595000760 Switch II region; other site 313595000761 G4 box; other site 313595000762 G5 box; other site 313595000763 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595000764 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 313595000765 phosphorylation site [posttranslational modification] 313595000766 dimer interface [polypeptide binding]; other site 313595000767 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595000768 ATP binding site [chemical binding]; other site 313595000769 Mg2+ binding site [ion binding]; other site 313595000770 G-X-G motif; other site 313595000771 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 313595000772 ATP-grasp domain; Region: ATP-grasp; pfam02222 313595000773 AIR carboxylase; Region: AIRC; pfam00731 313595000774 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 313595000775 exopolyphosphatase; Region: exo_poly_only; TIGR03706 313595000776 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 313595000777 polyphosphate kinase; Provisional; Region: PRK05443 313595000778 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 313595000779 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 313595000780 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 313595000781 domain interface [polypeptide binding]; other site 313595000782 active site 313595000783 catalytic site [active] 313595000784 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 313595000785 domain interface [polypeptide binding]; other site 313595000786 active site 313595000787 catalytic site [active] 313595000788 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 313595000789 catalytic core [active] 313595000790 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 313595000791 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 313595000792 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 313595000793 ribonuclease Z; Region: RNase_Z; TIGR02651 313595000794 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 313595000795 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 313595000796 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 313595000797 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 313595000798 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313595000799 active site 313595000800 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 313595000801 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 313595000802 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 313595000803 nucleotide binding site [chemical binding]; other site 313595000804 NEF interaction site [polypeptide binding]; other site 313595000805 SBD interface [polypeptide binding]; other site 313595000806 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 313595000807 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 313595000808 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 313595000809 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 313595000810 active site 313595000811 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 313595000812 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313595000813 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595000814 Smr domain; Region: Smr; cl02619 313595000815 Acyltransferase family; Region: Acyl_transf_3; pfam01757 313595000816 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 313595000817 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 313595000818 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313595000819 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313595000820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595000821 Predicted integral membrane protein [Function unknown]; Region: COG5616 313595000822 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 313595000823 TPR motif; other site 313595000824 binding surface 313595000825 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 313595000826 binding surface 313595000827 TPR motif; other site 313595000828 Smr domain; Region: Smr; pfam01713 313595000829 GH3 auxin-responsive promoter; Region: GH3; pfam03321 313595000830 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 313595000831 Ribosomal protein S21; Region: Ribosomal_S21; pfam01165 313595000832 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 313595000833 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 313595000834 Oligomerisation domain; Region: Oligomerisation; pfam02410 313595000835 FtsH Extracellular; Region: FtsH_ext; pfam06480 313595000836 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 313595000837 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 313595000838 Walker A motif; other site 313595000839 ATP binding site [chemical binding]; other site 313595000840 Walker B motif; other site 313595000841 arginine finger; other site 313595000842 Peptidase family M41; Region: Peptidase_M41; pfam01434 313595000843 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 313595000844 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 313595000845 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 313595000846 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 313595000847 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 313595000848 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 313595000849 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595000850 active site 313595000851 HIGH motif; other site 313595000852 nucleotide binding site [chemical binding]; other site 313595000853 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 313595000854 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 313595000855 active site 313595000856 KMSKS motif; other site 313595000857 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 313595000858 tRNA binding surface [nucleotide binding]; other site 313595000859 anticodon binding site; other site 313595000860 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 313595000861 Aspartyl protease; Region: Asp_protease_2; pfam13650 313595000862 inhibitor binding site; inhibition site 313595000863 catalytic motif [active] 313595000864 Catalytic residue [active] 313595000865 Active site flap [active] 313595000866 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 313595000867 aspartate aminotransferase; Provisional; Region: PRK07568 313595000868 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 313595000869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595000870 homodimer interface [polypeptide binding]; other site 313595000871 catalytic residue [active] 313595000872 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 313595000873 FAD binding domain; Region: FAD_binding_4; pfam01565 313595000874 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 313595000875 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595000876 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 313595000877 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 313595000878 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 313595000879 ATP binding site [chemical binding]; other site 313595000880 active site 313595000881 substrate binding site [chemical binding]; other site 313595000882 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 313595000883 PhoH-like protein; Region: PhoH; pfam02562 313595000884 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 313595000885 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 313595000886 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 313595000887 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 313595000888 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 313595000889 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 313595000890 dihydropteroate synthase; Region: DHPS; TIGR01496 313595000891 substrate binding pocket [chemical binding]; other site 313595000892 dimer interface [polypeptide binding]; other site 313595000893 inhibitor binding site; inhibition site 313595000894 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 313595000895 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313595000896 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313595000897 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595000898 Walker A/P-loop; other site 313595000899 ATP binding site [chemical binding]; other site 313595000900 Q-loop/lid; other site 313595000901 ABC transporter signature motif; other site 313595000902 Walker B; other site 313595000903 D-loop; other site 313595000904 H-loop/switch region; other site 313595000905 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 313595000906 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 313595000907 dimerization interface 3.5A [polypeptide binding]; other site 313595000908 active site 313595000909 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 313595000910 active site 313595000911 metal binding site [ion binding]; metal-binding site 313595000912 homotetramer interface [polypeptide binding]; other site 313595000913 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 313595000914 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 313595000915 transcription termination factor Rho; Provisional; Region: PRK12608 313595000916 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 313595000917 RNA binding site [nucleotide binding]; other site 313595000918 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 313595000919 multimer interface [polypeptide binding]; other site 313595000920 Walker A motif; other site 313595000921 ATP binding site [chemical binding]; other site 313595000922 Walker B motif; other site 313595000923 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 313595000924 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 313595000925 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313595000926 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 313595000927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 313595000928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 313595000929 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 313595000930 dimerization interface [polypeptide binding]; other site 313595000931 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 313595000932 primosomal protein N' Region: priA; TIGR00595 313595000933 ATP binding site [chemical binding]; other site 313595000934 putative Mg++ binding site [ion binding]; other site 313595000935 helicase superfamily c-terminal domain; Region: HELICc; smart00490 313595000936 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 313595000937 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 313595000938 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 313595000939 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 313595000940 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 313595000941 dimerization interface [polypeptide binding]; other site 313595000942 active site 313595000943 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 313595000944 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 313595000945 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 313595000946 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 313595000947 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 313595000948 hinge; other site 313595000949 active site 313595000950 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 313595000951 homodimer interface [polypeptide binding]; other site 313595000952 metal binding site [ion binding]; metal-binding site 313595000953 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 313595000954 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 313595000955 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 313595000956 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 313595000957 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 313595000958 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 313595000959 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 313595000960 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 313595000961 putative active site [active] 313595000962 dimerization interface [polypeptide binding]; other site 313595000963 putative tRNAtyr binding site [nucleotide binding]; other site 313595000964 GTPase RsgA; Reviewed; Region: PRK00098 313595000965 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 313595000966 RNA binding site [nucleotide binding]; other site 313595000967 homodimer interface [polypeptide binding]; other site 313595000968 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 313595000969 GTPase/Zn-binding domain interface [polypeptide binding]; other site 313595000970 GTP/Mg2+ binding site [chemical binding]; other site 313595000971 G4 box; other site 313595000972 G5 box; other site 313595000973 G1 box; other site 313595000974 Switch I region; other site 313595000975 G2 box; other site 313595000976 G3 box; other site 313595000977 Switch II region; other site 313595000978 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 313595000979 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 313595000980 Chorismate mutase type II; Region: CM_2; smart00830 313595000981 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 313595000982 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 313595000983 Walker A/P-loop; other site 313595000984 ATP binding site [chemical binding]; other site 313595000985 Q-loop/lid; other site 313595000986 ABC transporter signature motif; other site 313595000987 Walker B; other site 313595000988 D-loop; other site 313595000989 H-loop/switch region; other site 313595000990 Domain of unknown function (DUF368); Region: DUF368; pfam04018 313595000991 Domain of unknown function (DUF368); Region: DUF368; pfam04018 313595000992 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 313595000993 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 313595000994 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 313595000995 shikimate binding site; other site 313595000996 NAD(P) binding site [chemical binding]; other site 313595000997 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 313595000998 putative substrate translocation pore; other site 313595000999 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 313595001000 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 313595001001 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 313595001002 active site 313595001003 motif I; other site 313595001004 motif II; other site 313595001005 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 313595001006 UbiA prenyltransferase family; Region: UbiA; pfam01040 313595001007 Maf-like protein; Region: Maf; pfam02545 313595001008 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 313595001009 active site 313595001010 dimer interface [polypeptide binding]; other site 313595001011 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 313595001012 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313595001013 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 313595001014 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 313595001015 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 313595001016 Na binding site [ion binding]; other site 313595001017 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313595001018 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 313595001019 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 313595001020 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 313595001021 generic binding surface II; other site 313595001022 generic binding surface I; other site 313595001023 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 313595001024 DinB superfamily; Region: DinB_2; pfam12867 313595001025 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 313595001026 Proline dehydrogenase; Region: Pro_dh; cl03282 313595001027 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 313595001028 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 313595001029 active site 313595001030 dimer interface [polypeptide binding]; other site 313595001031 metal binding site [ion binding]; metal-binding site 313595001032 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 313595001033 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313595001034 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313595001035 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 313595001036 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 313595001037 S1 domain; Region: S1_2; pfam13509 313595001038 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 313595001039 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 313595001040 dimer interface [polypeptide binding]; other site 313595001041 tetramer interface [polypeptide binding]; other site 313595001042 PYR/PP interface [polypeptide binding]; other site 313595001043 TPP binding site [chemical binding]; other site 313595001044 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 313595001045 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 313595001046 TPP-binding site; other site 313595001047 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 313595001048 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 313595001049 CoenzymeA binding site [chemical binding]; other site 313595001050 subunit interaction site [polypeptide binding]; other site 313595001051 PHB binding site; other site 313595001052 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 313595001053 Predicted esterase [General function prediction only]; Region: COG0400 313595001054 Serine hydrolase (FSH1); Region: FSH1; pfam03959 313595001055 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 313595001056 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 313595001057 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 313595001058 urocanate hydratase; Provisional; Region: PRK05414 313595001059 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 313595001060 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 313595001061 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595001062 catalytic residue [active] 313595001063 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 313595001064 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313595001065 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 313595001066 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 313595001067 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 313595001068 inhibitor-cofactor binding pocket; inhibition site 313595001069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595001070 catalytic residue [active] 313595001071 Interferon-induced transmembrane protein; Region: CD225; pfam04505 313595001072 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 313595001073 DoxX-like family; Region: DoxX_2; pfam13564 313595001074 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 313595001075 transmembrane helices; other site 313595001076 TrkA-C domain; Region: TrkA_C; pfam02080 313595001077 TrkA-C domain; Region: TrkA_C; pfam02080 313595001078 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 313595001079 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 313595001080 Rrf2 family protein; Region: rrf2_super; TIGR00738 313595001081 Transcriptional regulator; Region: Rrf2; pfam02082 313595001082 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 313595001083 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 313595001084 ATP binding site [chemical binding]; other site 313595001085 putative Mg++ binding site [ion binding]; other site 313595001086 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 313595001087 nucleotide binding region [chemical binding]; other site 313595001088 ATP-binding site [chemical binding]; other site 313595001089 RQC domain; Region: RQC; pfam09382 313595001090 HRDC domain; Region: HRDC; pfam00570 313595001091 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 313595001092 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 313595001093 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 313595001094 dimer interface [polypeptide binding]; other site 313595001095 active site 313595001096 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 313595001097 active site 2 [active] 313595001098 dimer interface [polypeptide binding]; other site 313595001099 active site 1 [active] 313595001100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595001101 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 313595001102 NAD(P) binding site [chemical binding]; other site 313595001103 active site 313595001104 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 313595001105 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 313595001106 malonyl-CoA binding site [chemical binding]; other site 313595001107 dimer interface [polypeptide binding]; other site 313595001108 active site 313595001109 product binding site; other site 313595001110 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313595001111 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 313595001112 S-adenosylmethionine binding site [chemical binding]; other site 313595001113 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 313595001114 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 313595001115 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313595001116 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313595001117 ligand binding site [chemical binding]; other site 313595001118 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 313595001119 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 313595001120 tetramer interface [polypeptide binding]; other site 313595001121 TPP-binding site [chemical binding]; other site 313595001122 heterodimer interface [polypeptide binding]; other site 313595001123 phosphorylation loop region [posttranslational modification] 313595001124 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313595001125 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 313595001126 alpha subunit interface [polypeptide binding]; other site 313595001127 TPP binding site [chemical binding]; other site 313595001128 heterodimer interface [polypeptide binding]; other site 313595001129 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313595001130 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 313595001131 Helix-turn-helix domain; Region: HTH_38; pfam13936 313595001132 Integrase core domain; Region: rve; pfam00665 313595001133 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 313595001134 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 313595001135 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 313595001136 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 313595001137 putative rRNA binding site [nucleotide binding]; other site 313595001138 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 313595001139 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 313595001140 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 313595001141 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 313595001142 ligand binding site [chemical binding]; other site 313595001143 active site 313595001144 UGI interface [polypeptide binding]; other site 313595001145 catalytic site [active] 313595001146 MutS domain III; Region: MutS_III; pfam05192 313595001147 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595001148 Walker A/P-loop; other site 313595001149 ATP binding site [chemical binding]; other site 313595001150 Q-loop/lid; other site 313595001151 ABC transporter signature motif; other site 313595001152 Walker B; other site 313595001153 D-loop; other site 313595001154 H-loop/switch region; other site 313595001155 Protein of unknown function, DUF393; Region: DUF393; pfam04134 313595001156 fumarylacetoacetase; Region: PLN02856 313595001157 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 313595001158 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 313595001159 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 313595001160 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 313595001161 dimer interface [polypeptide binding]; other site 313595001162 active site 313595001163 glycine-pyridoxal phosphate binding site [chemical binding]; other site 313595001164 folate binding site [chemical binding]; other site 313595001165 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 313595001166 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 313595001167 short chain dehydrogenase; Provisional; Region: PRK06179 313595001168 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 313595001169 NADP binding site [chemical binding]; other site 313595001170 active site 313595001171 steroid binding site; other site 313595001172 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 313595001173 active site 313595001174 intersubunit interactions; other site 313595001175 catalytic residue [active] 313595001176 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 313595001177 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 313595001178 tetramer interface [polypeptide binding]; other site 313595001179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595001180 catalytic residue [active] 313595001181 This domain is found in peptide chain release factors; Region: PCRF; smart00937 313595001182 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 313595001183 RF-1 domain; Region: RF-1; pfam00472 313595001184 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 313595001185 ArsC family; Region: ArsC; pfam03960 313595001186 catalytic residues [active] 313595001187 Phosphorylated CTD interacting factor 1 WW domain; Region: PCIF1_WW; pfam12237 313595001188 fumarate hydratase; Reviewed; Region: fumC; PRK00485 313595001189 Class II fumarases; Region: Fumarase_classII; cd01362 313595001190 active site 313595001191 tetramer interface [polypeptide binding]; other site 313595001192 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313595001193 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 313595001194 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 313595001195 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313595001196 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313595001197 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313595001198 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313595001199 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 313595001200 binding surface 313595001201 TPR motif; other site 313595001202 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 313595001203 binding surface 313595001204 TPR motif; other site 313595001205 TPR repeat; Region: TPR_11; pfam13414 313595001206 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 313595001207 binding surface 313595001208 TPR repeat; Region: TPR_11; pfam13414 313595001209 TPR motif; other site 313595001210 TPR repeat; Region: TPR_11; pfam13414 313595001211 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 313595001212 binding surface 313595001213 TPR motif; other site 313595001214 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 313595001215 binding surface 313595001216 TPR motif; other site 313595001217 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 313595001218 acetylornithine aminotransferase; Provisional; Region: PRK02627 313595001219 inhibitor-cofactor binding pocket; inhibition site 313595001220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595001221 catalytic residue [active] 313595001222 OstA-like protein; Region: OstA_2; pfam13100 313595001223 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 313595001224 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 313595001225 tetrameric interface [polypeptide binding]; other site 313595001226 activator binding site; other site 313595001227 NADP binding site [chemical binding]; other site 313595001228 substrate binding site [chemical binding]; other site 313595001229 catalytic residues [active] 313595001230 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313595001231 Outer membrane efflux protein; Region: OEP; pfam02321 313595001232 Outer membrane efflux protein; Region: OEP; pfam02321 313595001233 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 313595001234 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595001235 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313595001236 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595001237 active site 313595001238 phosphorylation site [posttranslational modification] 313595001239 intermolecular recognition site; other site 313595001240 dimerization interface [polypeptide binding]; other site 313595001241 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 313595001242 DNA binding site [nucleotide binding] 313595001243 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595001244 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 313595001245 dimerization interface [polypeptide binding]; other site 313595001246 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 313595001247 dimer interface [polypeptide binding]; other site 313595001248 phosphorylation site [posttranslational modification] 313595001249 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595001250 ATP binding site [chemical binding]; other site 313595001251 Mg2+ binding site [ion binding]; other site 313595001252 G-X-G motif; other site 313595001253 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 313595001254 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 313595001255 ApbE family; Region: ApbE; pfam02424 313595001256 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 313595001257 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 313595001258 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313595001259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595001260 NAD(P) binding site [chemical binding]; other site 313595001261 active site 313595001262 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 313595001263 Ligand binding site; other site 313595001264 Putative Catalytic site; other site 313595001265 DXD motif; other site 313595001266 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 313595001267 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 313595001268 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 313595001269 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 313595001270 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 313595001271 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 313595001272 GDP-binding site [chemical binding]; other site 313595001273 ACT binding site; other site 313595001274 IMP binding site; other site 313595001275 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 313595001276 metal binding site 2 [ion binding]; metal-binding site 313595001277 putative DNA binding helix; other site 313595001278 metal binding site 1 [ion binding]; metal-binding site 313595001279 dimer interface [polypeptide binding]; other site 313595001280 structural Zn2+ binding site [ion binding]; other site 313595001281 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 313595001282 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313595001283 Zn2+ binding site [ion binding]; other site 313595001284 Mg2+ binding site [ion binding]; other site 313595001285 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 313595001286 synthetase active site [active] 313595001287 NTP binding site [chemical binding]; other site 313595001288 metal binding site [ion binding]; metal-binding site 313595001289 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 313595001290 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 313595001291 Peptidase family M48; Region: Peptidase_M48; pfam01435 313595001292 Cell division protein ZapA; Region: ZapA; pfam05164 313595001293 ribonuclease Y; Region: RNase_Y; TIGR03319 313595001294 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313595001295 Zn2+ binding site [ion binding]; other site 313595001296 Mg2+ binding site [ion binding]; other site 313595001297 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 313595001298 active site 313595001299 multimer interface [polypeptide binding]; other site 313595001300 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 313595001301 putative active site [active] 313595001302 putative metal binding site [ion binding]; other site 313595001303 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 313595001304 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 313595001305 DHH family; Region: DHH; pfam01368 313595001306 DHHA1 domain; Region: DHHA1; pfam02272 313595001307 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 313595001308 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313595001309 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 313595001310 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 313595001311 active site 313595001312 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 313595001313 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313595001314 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 313595001315 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 313595001316 catalytic core [active] 313595001317 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 313595001318 SmpB-tmRNA interface; other site 313595001319 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595001320 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 313595001321 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 313595001322 S-adenosylmethionine binding site [chemical binding]; other site 313595001323 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313595001324 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313595001325 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313595001326 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 313595001327 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 313595001328 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313595001329 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 313595001330 Uncharacterized conserved protein [Function unknown]; Region: COG4198 313595001331 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 313595001332 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313595001333 catalytic residue [active] 313595001334 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313595001335 active site 313595001336 catalytic site [active] 313595001337 substrate binding site [chemical binding]; other site 313595001338 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 313595001339 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 313595001340 GIY-YIG motif/motif A; other site 313595001341 active site 313595001342 catalytic site [active] 313595001343 putative DNA binding site [nucleotide binding]; other site 313595001344 metal binding site [ion binding]; metal-binding site 313595001345 Ion transport protein; Region: Ion_trans; pfam00520 313595001346 Ion channel; Region: Ion_trans_2; pfam07885 313595001347 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 313595001348 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 313595001349 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 313595001350 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313595001351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595001352 active site 313595001353 phosphorylation site [posttranslational modification] 313595001354 intermolecular recognition site; other site 313595001355 dimerization interface [polypeptide binding]; other site 313595001356 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 313595001357 DNA binding site [nucleotide binding] 313595001358 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595001359 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 313595001360 dimer interface [polypeptide binding]; other site 313595001361 phosphorylation site [posttranslational modification] 313595001362 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595001363 ATP binding site [chemical binding]; other site 313595001364 Mg2+ binding site [ion binding]; other site 313595001365 G-X-G motif; other site 313595001366 dephospho-CoA kinase; Region: TIGR00152 313595001367 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 313595001368 CoA-binding site [chemical binding]; other site 313595001369 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 313595001370 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 313595001371 active site 313595001372 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 313595001373 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 313595001374 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595001375 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 313595001376 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 313595001377 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595001378 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 313595001379 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 313595001380 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595001381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595001382 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 313595001383 NAD(P) binding site [chemical binding]; other site 313595001384 active site 313595001385 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 313595001386 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 313595001387 Walker A/P-loop; other site 313595001388 ATP binding site [chemical binding]; other site 313595001389 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 313595001390 Q-loop/lid; other site 313595001391 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 313595001392 ABC transporter signature motif; other site 313595001393 Walker B; other site 313595001394 D-loop; other site 313595001395 H-loop/switch region; other site 313595001396 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 313595001397 Flavoprotein; Region: Flavoprotein; pfam02441 313595001398 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 313595001399 Outer membrane lipoprotein; Region: YfiO; pfam13525 313595001400 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 313595001401 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 313595001402 dimer interface [polypeptide binding]; other site 313595001403 active site 313595001404 catalytic residue [active] 313595001405 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 313595001406 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 313595001407 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 313595001408 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 313595001409 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 313595001410 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 313595001411 TrkA-N domain; Region: TrkA_N; pfam02254 313595001412 TrkA-C domain; Region: TrkA_C; pfam02080 313595001413 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 313595001414 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 313595001415 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313595001416 active site 313595001417 metal binding site [ion binding]; metal-binding site 313595001418 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 313595001419 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 313595001420 nucleotide binding pocket [chemical binding]; other site 313595001421 K-X-D-G motif; other site 313595001422 catalytic site [active] 313595001423 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 313595001424 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 313595001425 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 313595001426 Dimer interface [polypeptide binding]; other site 313595001427 BRCT sequence motif; other site 313595001428 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 313595001429 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 313595001430 S-adenosylmethionine binding site [chemical binding]; other site 313595001431 Uncharacterized conserved protein [Function unknown]; Region: COG1739 313595001432 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 313595001433 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 313595001434 putative SAM binding site [chemical binding]; other site 313595001435 homodimer interface [polypeptide binding]; other site 313595001436 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 313595001437 Low molecular weight phosphatase family; Region: LMWPc; cd00115 313595001438 active site 313595001439 DnaA N-terminal domain; Region: DnaA_N; pfam11638 313595001440 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 313595001441 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 313595001442 Walker A motif; other site 313595001443 ATP binding site [chemical binding]; other site 313595001444 Walker B motif; other site 313595001445 arginine finger; other site 313595001446 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 313595001447 DnaA box-binding interface [nucleotide binding]; other site 313595001448 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 313595001449 active site 313595001450 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 313595001451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595001452 Coenzyme A binding pocket [chemical binding]; other site 313595001453 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 313595001454 catalytic motif [active] 313595001455 Zn binding site [ion binding]; other site 313595001456 RibD C-terminal domain; Region: RibD_C; pfam01872 313595001457 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 313595001458 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 313595001459 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 313595001460 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 313595001461 active site 313595001462 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 313595001463 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 313595001464 glutaminase; Provisional; Region: PRK00971 313595001465 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 313595001466 active site pocket [active] 313595001467 oxyanion hole [active] 313595001468 catalytic triad [active] 313595001469 active site nucleophile [active] 313595001470 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595001471 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595001472 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 313595001473 Zn binding site [ion binding]; other site 313595001474 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 313595001475 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 313595001476 Uncharacterized conserved protein [Function unknown]; Region: COG4850 313595001477 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 313595001478 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 313595001479 Peptidase family M48; Region: Peptidase_M48; pfam01435 313595001480 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 313595001481 SelR domain; Region: SelR; pfam01641 313595001482 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 313595001483 SelR domain; Region: SelR; pfam01641 313595001484 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 313595001485 Clp protease; Region: CLP_protease; pfam00574 313595001486 oligomer interface [polypeptide binding]; other site 313595001487 active site residues [active] 313595001488 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595001489 Coenzyme A binding pocket [chemical binding]; other site 313595001490 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 313595001491 phosphoglyceromutase; Provisional; Region: PRK05434 313595001492 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 313595001493 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 313595001494 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 313595001495 active site 313595001496 motif I; other site 313595001497 motif II; other site 313595001498 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 313595001499 active site 313595001500 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 313595001501 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 313595001502 DNA binding residues [nucleotide binding] 313595001503 B12 binding domain; Region: B12-binding_2; pfam02607 313595001504 phytoene desaturase; Region: crtI_fam; TIGR02734 313595001505 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313595001506 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 313595001507 active site lid residues [active] 313595001508 substrate binding pocket [chemical binding]; other site 313595001509 catalytic residues [active] 313595001510 substrate-Mg2+ binding site; other site 313595001511 aspartate-rich region 1; other site 313595001512 aspartate-rich region 2; other site 313595001513 phytoene desaturase; Region: crtI_fam; TIGR02734 313595001514 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313595001515 Protein of unknown function (DUF422); Region: DUF422; cl00991 313595001516 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 313595001517 lycopene cyclase; Region: lycopene_cycl; TIGR01789 313595001518 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 313595001519 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 313595001520 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313595001521 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595001522 amidase; Provisional; Region: PRK06707 313595001523 Amidase; Region: Amidase; cl11426 313595001524 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595001525 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595001526 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 313595001527 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 313595001528 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595001529 Walker A/P-loop; other site 313595001530 ATP binding site [chemical binding]; other site 313595001531 Domain of unknown function (DUF1832); Region: DUF1832; cl07463 313595001532 AAA-like domain; Region: AAA_10; pfam12846 313595001533 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 313595001534 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 313595001535 active site 313595001536 catalytic residues [active] 313595001537 metal binding site [ion binding]; metal-binding site 313595001538 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 313595001539 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 313595001540 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 313595001541 trimer interface [polypeptide binding]; other site 313595001542 active site 313595001543 substrate binding site [chemical binding]; other site 313595001544 CoA binding site [chemical binding]; other site 313595001545 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 313595001546 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 313595001547 putative active site [active] 313595001548 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313595001549 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 313595001550 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 313595001551 putative metal binding site; other site 313595001552 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 313595001553 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 313595001554 Substrate binding site; other site 313595001555 metal-binding site 313595001556 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 313595001557 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 313595001558 Probable Catalytic site; other site 313595001559 metal-binding site 313595001560 Methyltransferase domain; Region: Methyltransf_23; pfam13489 313595001561 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 313595001562 S-adenosylmethionine binding site [chemical binding]; other site 313595001563 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 313595001564 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 313595001565 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 313595001566 active site 313595001567 NTP binding site [chemical binding]; other site 313595001568 metal binding triad [ion binding]; metal-binding site 313595001569 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 313595001570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313595001571 Zn2+ binding site [ion binding]; other site 313595001572 Mg2+ binding site [ion binding]; other site 313595001573 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 313595001574 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 313595001575 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 313595001576 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 313595001577 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 313595001578 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 313595001579 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 313595001580 active site 313595001581 Zn binding site [ion binding]; other site 313595001582 Predicted membrane protein [Function unknown]; Region: COG4270 313595001583 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 313595001584 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 313595001585 active site 313595001586 Zn binding site [ion binding]; other site 313595001587 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 313595001588 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 313595001589 active site 313595001590 motif I; other site 313595001591 motif II; other site 313595001592 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 313595001593 Protein of unknown function (DUF819); Region: DUF819; cl02317 313595001594 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 313595001595 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 313595001596 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 313595001597 ligand binding site [chemical binding]; other site 313595001598 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 313595001599 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595001600 catalytic triad [active] 313595001601 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 313595001602 active site 313595001603 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 313595001604 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 313595001605 active site 313595001606 metal binding site [ion binding]; metal-binding site 313595001607 nudix motif; other site 313595001608 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313595001609 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313595001610 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313595001611 ligand binding site [chemical binding]; other site 313595001612 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313595001613 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313595001614 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 313595001615 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 313595001616 G1 box; other site 313595001617 putative GEF interaction site [polypeptide binding]; other site 313595001618 GTP/Mg2+ binding site [chemical binding]; other site 313595001619 Switch I region; other site 313595001620 G2 box; other site 313595001621 G3 box; other site 313595001622 Switch II region; other site 313595001623 G4 box; other site 313595001624 G5 box; other site 313595001625 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 313595001626 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 313595001627 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 313595001628 dimer interface [polypeptide binding]; other site 313595001629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595001630 catalytic residue [active] 313595001631 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313595001632 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595001633 FtsX-like permease family; Region: FtsX; pfam02687 313595001634 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 313595001635 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 313595001636 S-adenosylmethionine synthetase; Validated; Region: PRK05250 313595001637 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 313595001638 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 313595001639 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 313595001640 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 313595001641 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 313595001642 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 313595001643 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 313595001644 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313595001645 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313595001646 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 313595001647 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313595001648 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 313595001649 protein binding site [polypeptide binding]; other site 313595001650 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 313595001651 Domain interface; other site 313595001652 Peptide binding site; other site 313595001653 Active site tetrad [active] 313595001654 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 313595001655 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 313595001656 Amidohydrolase; Region: Amidohydro_4; pfam13147 313595001657 active site 313595001658 Protein of unknown function DUF58; Region: DUF58; pfam01882 313595001659 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 313595001660 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 313595001661 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595001662 catalytic residues [active] 313595001663 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 313595001664 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595001665 putative catalytic residue [active] 313595001666 Preprotein translocase subunit; Region: YajC; pfam02699 313595001667 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 313595001668 transcription antitermination factor NusB; Region: nusB; TIGR01951 313595001669 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313595001670 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 313595001671 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595001672 Walker A/P-loop; other site 313595001673 ATP binding site [chemical binding]; other site 313595001674 Q-loop/lid; other site 313595001675 ABC transporter signature motif; other site 313595001676 Walker B; other site 313595001677 D-loop; other site 313595001678 H-loop/switch region; other site 313595001679 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 313595001680 Gram-negative bacterial tonB protein; Region: TonB; cl10048 313595001681 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 313595001682 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 313595001683 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 313595001684 Cytochrome c; Region: Cytochrom_C; pfam00034 313595001685 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 313595001686 Fasciclin domain; Region: Fasciclin; pfam02469 313595001687 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 313595001688 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 313595001689 NosL; Region: NosL; cl01769 313595001690 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 313595001691 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 313595001692 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 313595001693 Walker A/P-loop; other site 313595001694 ATP binding site [chemical binding]; other site 313595001695 Q-loop/lid; other site 313595001696 ABC transporter signature motif; other site 313595001697 Walker B; other site 313595001698 D-loop; other site 313595001699 H-loop/switch region; other site 313595001700 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 313595001701 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 313595001702 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 313595001703 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 313595001704 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 313595001705 heme-binding site [chemical binding]; other site 313595001706 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595001707 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 313595001708 ligand binding site [chemical binding]; other site 313595001709 flexible hinge region; other site 313595001710 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 313595001711 putative switch regulator; other site 313595001712 non-specific DNA interactions [nucleotide binding]; other site 313595001713 DNA binding site [nucleotide binding] 313595001714 sequence specific DNA binding site [nucleotide binding]; other site 313595001715 putative cAMP binding site [chemical binding]; other site 313595001716 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 313595001717 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 313595001718 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 313595001719 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 313595001720 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 313595001721 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313595001722 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313595001723 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595001724 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313595001725 Protein export membrane protein; Region: SecD_SecF; cl14618 313595001726 Protein export membrane protein; Region: SecD_SecF; cl14618 313595001727 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 313595001728 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595001729 catalytic residues [active] 313595001730 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 313595001731 active site 313595001732 nucleophile elbow; other site 313595001733 MG2 domain; Region: A2M_N; pfam01835 313595001734 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595001735 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313595001736 Alpha-2-macroglobulin family; Region: A2M; pfam00207 313595001737 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 313595001738 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 313595001739 putative active site [active] 313595001740 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595001741 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595001742 TPR repeat; Region: TPR_11; pfam13414 313595001743 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 313595001744 TPR motif; other site 313595001745 binding surface 313595001746 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 313595001747 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 313595001748 Domain of unknown function (DUF4184); Region: DUF4184; pfam13803 313595001749 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 313595001750 Catalytic site [active] 313595001751 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 313595001752 mobile mystery protein B; Region: mob_myst_B; TIGR02613 313595001753 Fic/DOC family; Region: Fic; pfam02661 313595001754 mobile mystery protein A; Region: mob_myst_A; TIGR02612 313595001755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313595001756 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313595001757 CAAX protease self-immunity; Region: Abi; pfam02517 313595001758 LytTr DNA-binding domain; Region: LytTR; smart00850 313595001759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313595001760 GIY-YIG catalytic domain; Region: GIY-YIG; pfam01541 313595001761 GIY-YIG motif/motif A; other site 313595001762 active site 313595001763 catalytic site [active] 313595001764 metal binding site [ion binding]; metal-binding site 313595001765 PemK-like protein; Region: PemK; pfam02452 313595001766 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 313595001767 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 313595001768 Family description; Region: UvrD_C_2; pfam13538 313595001769 portal vertex protein; Provisional; Region: 20; PHA02531 313595001770 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 313595001771 polymerase nucleotide-binding site; other site 313595001772 DNA-binding residues [nucleotide binding]; DNA binding site 313595001773 nucleotide binding site [chemical binding]; other site 313595001774 primase nucleotide-binding site [nucleotide binding]; other site 313595001775 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313595001776 active site 313595001777 catalytic site [active] 313595001778 substrate binding site [chemical binding]; other site 313595001779 MG2 domain; Region: A2M_N; pfam01835 313595001780 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 313595001781 Alpha-2-macroglobulin family; Region: A2M; pfam00207 313595001782 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 313595001783 surface patch; other site 313595001784 thioester region; other site 313595001785 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 313595001786 Transglycosylase; Region: Transgly; pfam00912 313595001787 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 313595001788 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 313595001789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595001790 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 313595001791 NAD(P) binding site [chemical binding]; other site 313595001792 active site 313595001793 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595001794 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 313595001795 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595001796 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595001797 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 313595001798 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313595001799 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 313595001800 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 313595001801 Na binding site [ion binding]; other site 313595001802 Predicted acyl esterases [General function prediction only]; Region: COG2936 313595001803 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 313595001804 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 313595001805 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 313595001806 PhnA protein; Region: PhnA; pfam03831 313595001807 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 313595001808 peroxiredoxin; Provisional; Region: PRK13189 313595001809 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 313595001810 dimer interface [polypeptide binding]; other site 313595001811 decamer (pentamer of dimers) interface [polypeptide binding]; other site 313595001812 catalytic triad [active] 313595001813 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 313595001814 Yqey-like protein; Region: YqeY; pfam09424 313595001815 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313595001816 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595001817 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 313595001818 DNA binding residues [nucleotide binding] 313595001819 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 313595001820 EamA-like transporter family; Region: EamA; pfam00892 313595001821 EamA-like transporter family; Region: EamA; pfam00892 313595001822 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595001823 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 313595001824 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595001825 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region...; Region: FNR_like_1; cd06196 313595001826 FAD binding pocket [chemical binding]; other site 313595001827 FAD binding motif [chemical binding]; other site 313595001828 phosphate binding motif [ion binding]; other site 313595001829 beta-alpha-beta structure motif; other site 313595001830 NAD binding pocket [chemical binding]; other site 313595001831 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 313595001832 TPP-binding site [chemical binding]; other site 313595001833 tetramer interface [polypeptide binding]; other site 313595001834 heterodimer interface [polypeptide binding]; other site 313595001835 phosphorylation loop region [posttranslational modification] 313595001836 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 313595001837 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313595001838 alpha subunit interface [polypeptide binding]; other site 313595001839 TPP binding site [chemical binding]; other site 313595001840 heterodimer interface [polypeptide binding]; other site 313595001841 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313595001842 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 313595001843 four helix bundle protein; Region: TIGR02436 313595001844 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 313595001845 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 313595001846 E3 interaction surface; other site 313595001847 lipoyl attachment site [posttranslational modification]; other site 313595001848 e3 binding domain; Region: E3_binding; pfam02817 313595001849 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313595001850 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 313595001851 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 313595001852 putative trimer interface [polypeptide binding]; other site 313595001853 putative metal binding site [ion binding]; other site 313595001854 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 313595001855 GIY-YIG motif/motif A; other site 313595001856 putative active site [active] 313595001857 putative metal binding site [ion binding]; other site 313595001858 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 313595001859 GIY-YIG motif/motif A; other site 313595001860 putative active site [active] 313595001861 putative metal binding site [ion binding]; other site 313595001862 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 313595001863 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 313595001864 substrate binding site [chemical binding]; other site 313595001865 oxyanion hole (OAH) forming residues; other site 313595001866 trimer interface [polypeptide binding]; other site 313595001867 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 313595001868 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 313595001869 substrate binding site [chemical binding]; other site 313595001870 dimer interface [polypeptide binding]; other site 313595001871 NADP binding site [chemical binding]; other site 313595001872 catalytic residues [active] 313595001873 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 313595001874 active site 2 [active] 313595001875 active site 1 [active] 313595001876 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 313595001877 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 313595001878 dimer interface [polypeptide binding]; other site 313595001879 active site 313595001880 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 313595001881 CoenzymeA binding site [chemical binding]; other site 313595001882 subunit interaction site [polypeptide binding]; other site 313595001883 PHB binding site; other site 313595001884 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 313595001885 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 313595001886 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313595001887 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313595001888 four helix bundle protein; Region: TIGR02436 313595001889 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 313595001890 enoyl-CoA hydratase; Provisional; Region: PRK08140 313595001891 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 313595001892 substrate binding site [chemical binding]; other site 313595001893 oxyanion hole (OAH) forming residues; other site 313595001894 trimer interface [polypeptide binding]; other site 313595001895 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 313595001896 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 313595001897 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 313595001898 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 313595001899 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 313595001900 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 313595001901 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 313595001902 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 313595001903 FAD binding pocket [chemical binding]; other site 313595001904 FAD binding motif [chemical binding]; other site 313595001905 phosphate binding motif [ion binding]; other site 313595001906 beta-alpha-beta structure motif; other site 313595001907 NAD(p) ribose binding residues [chemical binding]; other site 313595001908 NAD binding pocket [chemical binding]; other site 313595001909 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 313595001910 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 313595001911 catalytic loop [active] 313595001912 iron binding site [ion binding]; other site 313595001913 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 313595001914 putative FMN binding site [chemical binding]; other site 313595001915 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 313595001916 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 313595001917 inhibitor-cofactor binding pocket; inhibition site 313595001918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595001919 catalytic residue [active] 313595001920 Bacterial sugar transferase; Region: Bac_transf; cl00939 313595001921 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313595001922 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313595001923 GSCFA family; Region: GSCFA; pfam08885 313595001924 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 313595001925 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 313595001926 motif 1; other site 313595001927 active site 313595001928 motif 2; other site 313595001929 motif 3; other site 313595001930 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 313595001931 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313595001932 Peptidase family M23; Region: Peptidase_M23; pfam01551 313595001933 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 313595001934 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 313595001935 DNA binding residues [nucleotide binding] 313595001936 LemA family; Region: LemA; cl00742 313595001937 Repair protein; Region: Repair_PSII; pfam04536 313595001938 Repair protein; Region: Repair_PSII; pfam04536 313595001939 GTP-binding protein Der; Reviewed; Region: PRK00093 313595001940 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 313595001941 G1 box; other site 313595001942 GTP/Mg2+ binding site [chemical binding]; other site 313595001943 Switch I region; other site 313595001944 G2 box; other site 313595001945 Switch II region; other site 313595001946 G3 box; other site 313595001947 G4 box; other site 313595001948 G5 box; other site 313595001949 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 313595001950 G1 box; other site 313595001951 GTP/Mg2+ binding site [chemical binding]; other site 313595001952 Switch I region; other site 313595001953 G2 box; other site 313595001954 G3 box; other site 313595001955 Switch II region; other site 313595001956 G4 box; other site 313595001957 G5 box; other site 313595001958 GTPase Era; Reviewed; Region: era; PRK00089 313595001959 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 313595001960 Switch I region; other site 313595001961 GTP/Mg2+ binding site [chemical binding]; other site 313595001962 G2 box; other site 313595001963 Switch II region; other site 313595001964 G3 box; other site 313595001965 G4 box; other site 313595001966 G5 box; other site 313595001967 KH domain; Region: KH_2; pfam07650 313595001968 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595001969 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595001970 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595001971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 313595001972 Sm and related proteins; Region: Sm_like; cl00259 313595001973 heptamer interface [polypeptide binding]; other site 313595001974 Sm1 motif; other site 313595001975 hexamer interface [polypeptide binding]; other site 313595001976 RNA binding site [nucleotide binding]; other site 313595001977 Sm2 motif; other site 313595001978 transcription termination factor NusA; Region: NusA; TIGR01953 313595001979 NusA N-terminal domain; Region: NusA_N; pfam08529 313595001980 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 313595001981 RNA binding site [nucleotide binding]; other site 313595001982 homodimer interface [polypeptide binding]; other site 313595001983 NusA-like KH domain; Region: KH_5; pfam13184 313595001984 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 313595001985 G-X-X-G motif; other site 313595001986 translation initiation factor IF-2; Region: IF-2; TIGR00487 313595001987 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 313595001988 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 313595001989 G1 box; other site 313595001990 putative GEF interaction site [polypeptide binding]; other site 313595001991 GTP/Mg2+ binding site [chemical binding]; other site 313595001992 Switch I region; other site 313595001993 G2 box; other site 313595001994 G3 box; other site 313595001995 Switch II region; other site 313595001996 G4 box; other site 313595001997 G5 box; other site 313595001998 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 313595001999 Translation-initiation factor 2; Region: IF-2; pfam11987 313595002000 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 313595002001 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 313595002002 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 313595002003 TM-ABC transporter signature motif; other site 313595002004 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 313595002005 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 313595002006 NodB motif; other site 313595002007 putative active site [active] 313595002008 putative catalytic site [active] 313595002009 putative Zn binding site [ion binding]; other site 313595002010 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 313595002011 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 313595002012 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 313595002013 dimer interface [polypeptide binding]; other site 313595002014 putative anticodon binding site; other site 313595002015 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 313595002016 motif 1; other site 313595002017 active site 313595002018 motif 2; other site 313595002019 motif 3; other site 313595002020 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 313595002021 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595002022 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595002023 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595002024 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595002025 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313595002026 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313595002027 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313595002028 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313595002029 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313595002030 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313595002031 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595002032 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 313595002033 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 313595002034 RNA/DNA hybrid binding site [nucleotide binding]; other site 313595002035 active site 313595002036 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 313595002037 RNA polymerase sigma factor; Provisional; Region: PRK11924 313595002038 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595002039 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 313595002040 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313595002041 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 313595002042 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 313595002043 active site 313595002044 putative DNA-binding cleft [nucleotide binding]; other site 313595002045 dimer interface [polypeptide binding]; other site 313595002046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595002047 Walker A/P-loop; other site 313595002048 ATP binding site [chemical binding]; other site 313595002049 Q-loop/lid; other site 313595002050 ABC transporter signature motif; other site 313595002051 Walker B; other site 313595002052 D-loop; other site 313595002053 H-loop/switch region; other site 313595002054 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 313595002055 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 313595002056 FeS/SAM binding site; other site 313595002057 HemN C-terminal domain; Region: HemN_C; pfam06969 313595002058 Protein of unknown function (DUF456); Region: DUF456; pfam04306 313595002059 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 313595002060 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 313595002061 Probable Catalytic site; other site 313595002062 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313595002063 ligand binding site [chemical binding]; other site 313595002064 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 313595002065 cyclase homology domain; Region: CHD; cd07302 313595002066 nucleotidyl binding site; other site 313595002067 metal binding site [ion binding]; metal-binding site 313595002068 dimer interface [polypeptide binding]; other site 313595002069 envelope glycoprotein D; Provisional; Region: PHA03264 313595002070 Uncharacterized conserved protein [Function unknown]; Region: COG4938 313595002071 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 313595002072 Protein of unknown function DUF262; Region: DUF262; pfam03235 313595002073 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 313595002074 non-specific DNA binding site [nucleotide binding]; other site 313595002075 salt bridge; other site 313595002076 sequence-specific DNA binding site [nucleotide binding]; other site 313595002077 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 313595002078 non-specific DNA binding site [nucleotide binding]; other site 313595002079 salt bridge; other site 313595002080 sequence-specific DNA binding site [nucleotide binding]; other site 313595002081 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 313595002082 S-adenosylmethionine binding site [chemical binding]; other site 313595002083 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313595002084 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 313595002085 HipA N-terminal domain; Region: Couple_hipA; cl11853 313595002086 HipA-like N-terminal domain; Region: HipA_N; pfam07805 313595002087 HipA-like C-terminal domain; Region: HipA_C; pfam07804 313595002088 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 313595002089 sequence-specific DNA binding site [nucleotide binding]; other site 313595002090 salt bridge; other site 313595002091 HsdM N-terminal domain; Region: HsdM_N; pfam12161 313595002092 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 313595002093 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313595002094 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313595002095 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 313595002096 non-specific DNA binding site [nucleotide binding]; other site 313595002097 salt bridge; other site 313595002098 sequence-specific DNA binding site [nucleotide binding]; other site 313595002099 Domain of unknown function (DUF955); Region: DUF955; cl01076 313595002100 Cell division protein ZapA; Region: ZapA; cl01146 313595002101 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595002102 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 313595002103 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595002104 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 313595002105 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 313595002106 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 313595002107 ATP binding site [chemical binding]; other site 313595002108 putative Mg++ binding site [ion binding]; other site 313595002109 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 313595002110 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 313595002111 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 313595002112 Divergent AAA domain; Region: AAA_4; pfam04326 313595002113 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 313595002114 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 313595002115 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 313595002116 GIY-YIG motif/motif A; other site 313595002117 active site 313595002118 catalytic site [active] 313595002119 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 313595002120 NTP binding site [chemical binding]; other site 313595002121 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 313595002122 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 313595002123 putative active site [active] 313595002124 putative nucleic acid binding site [nucleotide binding]; other site 313595002125 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595002126 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 313595002127 ligand binding site [chemical binding]; other site 313595002128 flexible hinge region; other site 313595002129 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 313595002130 putative switch regulator; other site 313595002131 non-specific DNA interactions [nucleotide binding]; other site 313595002132 DNA binding site [nucleotide binding] 313595002133 sequence specific DNA binding site [nucleotide binding]; other site 313595002134 putative cAMP binding site [chemical binding]; other site 313595002135 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595002136 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 313595002137 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 313595002138 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 313595002139 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 313595002140 high affinity sulphate transporter 1; Region: sulP; TIGR00815 313595002141 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313595002142 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 313595002143 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 313595002144 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313595002145 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 313595002146 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 313595002147 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595002148 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595002149 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595002150 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 313595002151 WYL domain; Region: WYL; pfam13280 313595002152 Predicted transcriptional regulator [Transcription]; Region: COG2378 313595002153 WYL domain; Region: WYL; pfam13280 313595002154 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 313595002155 Predicted transcriptional regulator [Transcription]; Region: COG2378 313595002156 WYL domain; Region: WYL; pfam13280 313595002157 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313595002158 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 313595002159 Walker A motif; other site 313595002160 ATP binding site [chemical binding]; other site 313595002161 Walker B motif; other site 313595002162 arginine finger; other site 313595002163 HipA N-terminal domain; Region: Couple_hipA; pfam13657 313595002164 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 313595002165 HipA-like N-terminal domain; Region: HipA_N; pfam07805 313595002166 HipA-like C-terminal domain; Region: HipA_C; pfam07804 313595002167 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313595002168 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 313595002169 non-specific DNA binding site [nucleotide binding]; other site 313595002170 salt bridge; other site 313595002171 sequence-specific DNA binding site [nucleotide binding]; other site 313595002172 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 313595002173 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 313595002174 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313595002175 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595002176 Domain of unknown function DUF87; Region: DUF87; pfam01935 313595002177 AAA-like domain; Region: AAA_10; pfam12846 313595002178 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 313595002179 Dynamin family; Region: Dynamin_N; pfam00350 313595002180 G1 box; other site 313595002181 GTP/Mg2+ binding site [chemical binding]; other site 313595002182 G2 box; other site 313595002183 Switch I region; other site 313595002184 G3 box; other site 313595002185 Switch II region; other site 313595002186 G4 box; other site 313595002187 G5 box; other site 313595002188 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 313595002189 tellurium resistance terB-like protein; Region: terB_like; cl11965 313595002190 metal binding site [ion binding]; metal-binding site 313595002191 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 313595002192 Catalytic domain of Protein Kinases; Region: PKc; cd00180 313595002193 active site 313595002194 ATP binding site [chemical binding]; other site 313595002195 substrate binding site [chemical binding]; other site 313595002196 activation loop (A-loop); other site 313595002197 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 313595002198 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313595002199 Walker A motif; other site 313595002200 ATP binding site [chemical binding]; other site 313595002201 Walker B motif; other site 313595002202 arginine finger; other site 313595002203 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 313595002204 Actin-like ATPase involved in cell morphogenesis [Cell division and chromosome partitioning]; Region: MreB; COG1077 313595002205 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 313595002206 nucleotide binding site [chemical binding]; other site 313595002207 putative NEF/HSP70 interaction site [polypeptide binding]; other site 313595002208 SBD interface [polypeptide binding]; other site 313595002209 RmuC family; Region: RmuC; pfam02646 313595002210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595002211 Walker A/P-loop; other site 313595002212 ATP binding site [chemical binding]; other site 313595002213 AAA domain; Region: AAA_21; pfam13304 313595002214 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595002215 ABC transporter signature motif; other site 313595002216 Walker B; other site 313595002217 D-loop; other site 313595002218 H-loop/switch region; other site 313595002219 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 313595002220 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 313595002221 catalytic residues [active] 313595002222 catalytic nucleophile [active] 313595002223 Recombinase; Region: Recombinase; pfam07508 313595002224 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 313595002225 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 313595002226 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313595002227 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313595002228 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595002229 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 313595002230 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595002231 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595002232 ABC transporter; Region: ABC_tran_2; pfam12848 313595002233 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595002234 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 313595002235 gliding motility associated protien GldN; Region: GldN; TIGR03523 313595002236 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 313595002237 GldM N-terminal domain; Region: GldM_N; pfam12081 313595002238 GldM C-terminal domain; Region: GldM_C; pfam12080 313595002239 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 313595002240 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 313595002241 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 313595002242 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 313595002243 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 313595002244 putative active site [active] 313595002245 putative metal binding site [ion binding]; other site 313595002246 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 313595002247 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 313595002248 active site 313595002249 interdomain interaction site; other site 313595002250 putative metal-binding site [ion binding]; other site 313595002251 nucleotide binding site [chemical binding]; other site 313595002252 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 313595002253 domain I; other site 313595002254 DNA binding groove [nucleotide binding] 313595002255 phosphate binding site [ion binding]; other site 313595002256 domain II; other site 313595002257 domain III; other site 313595002258 nucleotide binding site [chemical binding]; other site 313595002259 catalytic site [active] 313595002260 domain IV; other site 313595002261 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 313595002262 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 313595002263 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 313595002264 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 313595002265 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 313595002266 FeS/SAM binding site; other site 313595002267 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 313595002268 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313595002269 Walker A motif; other site 313595002270 ATP binding site [chemical binding]; other site 313595002271 Walker B motif; other site 313595002272 arginine finger; other site 313595002273 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 313595002274 Lipopolysaccharide-assembly; Region: LptE; pfam04390 313595002275 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 313595002276 oligomerisation interface [polypeptide binding]; other site 313595002277 mobile loop; other site 313595002278 roof hairpin; other site 313595002279 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 313595002280 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 313595002281 ring oligomerisation interface [polypeptide binding]; other site 313595002282 ATP/Mg binding site [chemical binding]; other site 313595002283 stacking interactions; other site 313595002284 hinge regions; other site 313595002285 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 313595002286 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 313595002287 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 313595002288 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 313595002289 dimer interface [polypeptide binding]; other site 313595002290 Citrate synthase; Region: Citrate_synt; pfam00285 313595002291 active site 313595002292 citrylCoA binding site [chemical binding]; other site 313595002293 NADH binding [chemical binding]; other site 313595002294 cationic pore residues; other site 313595002295 oxalacetate/citrate binding site [chemical binding]; other site 313595002296 coenzyme A binding site [chemical binding]; other site 313595002297 catalytic triad [active] 313595002298 enolase; Provisional; Region: eno; PRK00077 313595002299 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 313595002300 dimer interface [polypeptide binding]; other site 313595002301 metal binding site [ion binding]; metal-binding site 313595002302 substrate binding pocket [chemical binding]; other site 313595002303 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 313595002304 Fasciclin domain; Region: Fasciclin; pfam02469 313595002305 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 313595002306 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 313595002307 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 313595002308 catalytic site [active] 313595002309 subunit interface [polypeptide binding]; other site 313595002310 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 313595002311 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 313595002312 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 313595002313 alphaNTD homodimer interface [polypeptide binding]; other site 313595002314 alphaNTD - beta interaction site [polypeptide binding]; other site 313595002315 alphaNTD - beta' interaction site [polypeptide binding]; other site 313595002316 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 313595002317 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 313595002318 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 313595002319 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 313595002320 RNA binding surface [nucleotide binding]; other site 313595002321 30S ribosomal protein S11; Validated; Region: PRK05309 313595002322 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 313595002323 30S ribosomal protein S13; Region: bact_S13; TIGR03631 313595002324 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 313595002325 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 313595002326 rRNA binding site [nucleotide binding]; other site 313595002327 predicted 30S ribosome binding site; other site 313595002328 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 313595002329 SecY translocase; Region: SecY; pfam00344 313595002330 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 313595002331 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 313595002332 23S rRNA binding site [nucleotide binding]; other site 313595002333 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 313595002334 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 313595002335 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 313595002336 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 313595002337 5S rRNA interface [nucleotide binding]; other site 313595002338 23S rRNA interface [nucleotide binding]; other site 313595002339 L5 interface [polypeptide binding]; other site 313595002340 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 313595002341 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 313595002342 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 313595002343 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 313595002344 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 313595002345 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 313595002346 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 313595002347 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 313595002348 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 313595002349 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 313595002350 RNA binding site [nucleotide binding]; other site 313595002351 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 313595002352 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 313595002353 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 313595002354 23S rRNA interface [nucleotide binding]; other site 313595002355 putative translocon interaction site; other site 313595002356 signal recognition particle (SRP54) interaction site; other site 313595002357 L23 interface [polypeptide binding]; other site 313595002358 trigger factor interaction site; other site 313595002359 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 313595002360 23S rRNA interface [nucleotide binding]; other site 313595002361 5S rRNA interface [nucleotide binding]; other site 313595002362 putative antibiotic binding site [chemical binding]; other site 313595002363 L25 interface [polypeptide binding]; other site 313595002364 L27 interface [polypeptide binding]; other site 313595002365 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 313595002366 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 313595002367 G-X-X-G motif; other site 313595002368 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 313595002369 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 313595002370 putative translocon binding site; other site 313595002371 protein-rRNA interface [nucleotide binding]; other site 313595002372 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 313595002373 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 313595002374 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 313595002375 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 313595002376 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 313595002377 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 313595002378 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 313595002379 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 313595002380 elongation factor G; Reviewed; Region: PRK12739 313595002381 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 313595002382 G1 box; other site 313595002383 putative GEF interaction site [polypeptide binding]; other site 313595002384 GTP/Mg2+ binding site [chemical binding]; other site 313595002385 Switch I region; other site 313595002386 G2 box; other site 313595002387 G3 box; other site 313595002388 Switch II region; other site 313595002389 G4 box; other site 313595002390 G5 box; other site 313595002391 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 313595002392 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 313595002393 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 313595002394 30S ribosomal protein S7; Validated; Region: PRK05302 313595002395 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 313595002396 S17 interaction site [polypeptide binding]; other site 313595002397 S8 interaction site; other site 313595002398 16S rRNA interaction site [nucleotide binding]; other site 313595002399 streptomycin interaction site [chemical binding]; other site 313595002400 23S rRNA interaction site [nucleotide binding]; other site 313595002401 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 313595002402 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313595002403 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595002404 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 313595002405 starch binding outer membrane protein SusD; Region: SusD; cd08977 313595002406 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313595002407 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 313595002408 active site 313595002409 catalytic triad [active] 313595002410 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595002411 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 313595002412 active site 313595002413 catalytic triad [active] 313595002414 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595002415 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595002416 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313595002417 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 313595002418 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313595002419 Rhomboid family; Region: Rhomboid; cl11446 313595002420 recombination factor protein RarA; Reviewed; Region: PRK13342 313595002421 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 313595002422 Walker A motif; other site 313595002423 ATP binding site [chemical binding]; other site 313595002424 Walker B motif; other site 313595002425 arginine finger; other site 313595002426 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 313595002427 dUMP phosphatase; Provisional; Region: PRK09449 313595002428 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 313595002429 motif II; other site 313595002430 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 313595002431 putative active site [active] 313595002432 hypothetical protein; Reviewed; Region: PRK00024 313595002433 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 313595002434 MPN+ (JAMM) motif; other site 313595002435 Zinc-binding site [ion binding]; other site 313595002436 Putative FMN-binding domain; Region: FMN_bind_2; cl17803 313595002437 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 313595002438 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313595002439 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313595002440 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313595002441 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 313595002442 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 313595002443 homotetramer interface [polypeptide binding]; other site 313595002444 ligand binding site [chemical binding]; other site 313595002445 catalytic site [active] 313595002446 NAD binding site [chemical binding]; other site 313595002447 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 313595002448 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 313595002449 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 313595002450 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313595002451 Protein of unknown function (DUF423); Region: DUF423; pfam04241 313595002452 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 313595002453 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 313595002454 active site 313595002455 substrate-binding site [chemical binding]; other site 313595002456 metal-binding site [ion binding] 313595002457 ATP binding site [chemical binding]; other site 313595002458 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 313595002459 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 313595002460 active site 313595002461 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 313595002462 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 313595002463 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 313595002464 Ligand binding site; other site 313595002465 Putative Catalytic site; other site 313595002466 DXD motif; other site 313595002467 dihydroorotase; Reviewed; Region: PRK09236 313595002468 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 313595002469 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 313595002470 active site 313595002471 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 313595002472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595002473 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 313595002474 NAD(P) binding site [chemical binding]; other site 313595002475 active site 313595002476 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 313595002477 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 313595002478 active site 313595002479 HIGH motif; other site 313595002480 dimer interface [polypeptide binding]; other site 313595002481 KMSKS motif; other site 313595002482 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 313595002483 putative active site [active] 313595002484 putative catalytic site [active] 313595002485 putative DNA binding site [nucleotide binding]; other site 313595002486 putative phosphate binding site [ion binding]; other site 313595002487 metal binding site A [ion binding]; metal-binding site 313595002488 putative AP binding site [nucleotide binding]; other site 313595002489 putative metal binding site B [ion binding]; other site 313595002490 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 313595002491 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 313595002492 linker region; other site 313595002493 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313595002494 ligand binding site [chemical binding]; other site 313595002495 Response regulator receiver domain; Region: Response_reg; pfam00072 313595002496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595002497 active site 313595002498 phosphorylation site [posttranslational modification] 313595002499 intermolecular recognition site; other site 313595002500 dimerization interface [polypeptide binding]; other site 313595002501 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 313595002502 binding surface 313595002503 TPR motif; other site 313595002504 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 313595002505 binding surface 313595002506 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002507 TPR motif; other site 313595002508 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 313595002510 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595002511 ATP binding site [chemical binding]; other site 313595002512 Mg2+ binding site [ion binding]; other site 313595002513 G-X-G motif; other site 313595002514 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 313595002515 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 313595002516 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 313595002517 dimer interface [polypeptide binding]; other site 313595002518 ssDNA binding site [nucleotide binding]; other site 313595002519 tetramer (dimer of dimers) interface [polypeptide binding]; other site 313595002520 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313595002521 GLPGLI family protein; Region: GLPGLI; TIGR01200 313595002522 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595002523 GLPGLI family protein; Region: GLPGLI; TIGR01200 313595002524 GLPGLI family protein; Region: GLPGLI; TIGR01200 313595002525 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 313595002526 GLPGLI family protein; Region: GLPGLI; TIGR01200 313595002527 Transposase IS200 like; Region: Y1_Tnp; pfam01797 313595002528 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 313595002529 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 313595002530 putative ligand binding site [chemical binding]; other site 313595002531 putative NAD binding site [chemical binding]; other site 313595002532 catalytic site [active] 313595002533 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 313595002534 active site 313595002535 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 313595002536 MgtE intracellular N domain; Region: MgtE_N; pfam03448 313595002537 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 313595002538 Divalent cation transporter; Region: MgtE; pfam01769 313595002539 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 313595002540 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 313595002541 S-adenosylmethionine binding site [chemical binding]; other site 313595002542 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 313595002543 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 313595002544 binding surface 313595002545 TPR motif; other site 313595002546 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 313595002547 seryl-tRNA synthetase; Provisional; Region: PRK05431 313595002548 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 313595002549 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 313595002550 dimer interface [polypeptide binding]; other site 313595002551 active site 313595002552 motif 1; other site 313595002553 motif 2; other site 313595002554 motif 3; other site 313595002555 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 313595002556 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 313595002557 chaperone protein DnaJ; Provisional; Region: PRK14299 313595002558 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 313595002559 HSP70 interaction site [polypeptide binding]; other site 313595002560 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 313595002561 substrate binding site [polypeptide binding]; other site 313595002562 dimer interface [polypeptide binding]; other site 313595002563 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 313595002564 metal-binding site [ion binding] 313595002565 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313595002566 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313595002567 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 313595002568 cofactor binding site; other site 313595002569 metal binding site [ion binding]; metal-binding site 313595002570 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595002571 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595002572 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 313595002573 active site 313595002574 Predicted transporter component [General function prediction only]; Region: COG2391 313595002575 Sulphur transport; Region: Sulf_transp; pfam04143 313595002576 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 313595002577 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313595002578 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 313595002579 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 313595002580 inhibitor-cofactor binding pocket; inhibition site 313595002581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595002582 catalytic residue [active] 313595002583 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 313595002584 AAA domain; Region: AAA_26; pfam13500 313595002585 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595002586 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 313595002587 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 313595002588 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595002589 catalytic residue [active] 313595002590 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 313595002591 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 313595002592 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 313595002593 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 313595002594 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 313595002595 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12659 313595002596 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 313595002597 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 313595002598 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 313595002599 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 313595002600 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 313595002601 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 313595002602 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 313595002603 thiamine monophosphate kinase; Provisional; Region: PRK05731 313595002604 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 313595002605 ATP binding site [chemical binding]; other site 313595002606 dimerization interface [polypeptide binding]; other site 313595002607 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 313595002608 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595002609 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 313595002610 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 313595002611 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 313595002612 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 313595002613 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 313595002614 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 313595002615 active site 313595002616 homotetramer interface [polypeptide binding]; other site 313595002617 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 313595002618 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 313595002619 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 313595002620 Fe-S metabolism associated domain; Region: SufE; cl00951 313595002621 META domain; Region: META; pfam03724 313595002622 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313595002623 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 313595002624 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595002625 catalytic residue [active] 313595002626 FeS assembly protein SufD; Region: sufD; TIGR01981 313595002627 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 313595002628 FeS assembly ATPase SufC; Region: sufC; TIGR01978 313595002629 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 313595002630 Walker A/P-loop; other site 313595002631 ATP binding site [chemical binding]; other site 313595002632 Q-loop/lid; other site 313595002633 ABC transporter signature motif; other site 313595002634 Walker B; other site 313595002635 D-loop; other site 313595002636 H-loop/switch region; other site 313595002637 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 313595002638 putative ABC transporter; Region: ycf24; CHL00085 313595002639 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 313595002640 DNA protecting protein DprA; Region: dprA; TIGR00732 313595002641 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 313595002642 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 313595002643 TrkA-N domain; Region: TrkA_N; pfam02254 313595002644 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313595002645 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 313595002646 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 313595002647 active site 313595002648 catalytic triad [active] 313595002649 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 313595002650 Zn binding site [ion binding]; other site 313595002651 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 313595002652 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595002653 Ribosome-binding factor A; Region: RBFA; pfam02033 313595002654 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313595002655 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 313595002656 dimer interface [polypeptide binding]; other site 313595002657 substrate binding site [chemical binding]; other site 313595002658 metal binding site [ion binding]; metal-binding site 313595002659 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 313595002660 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 313595002661 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 313595002662 active site 313595002663 2TM domain; Region: 2TM; pfam13239 313595002664 2TM domain; Region: 2TM; pfam13239 313595002665 Histidine kinase; Region: His_kinase; pfam06580 313595002666 2TM domain; Region: 2TM; pfam13239 313595002667 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 313595002668 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313595002669 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595002670 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 313595002671 DNA binding residues [nucleotide binding] 313595002672 Peptidase family M23; Region: Peptidase_M23; pfam01551 313595002673 Predicted ATPase [General function prediction only]; Region: COG5293 313595002674 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 313595002675 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595002676 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595002677 Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in...; Region: PTH2_family; cl00869 313595002678 dimer interface [polypeptide binding]; other site 313595002679 putative active site [active] 313595002680 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 313595002681 Leucine-rich repeats; other site 313595002682 Substrate binding site [chemical binding]; other site 313595002683 Leucine rich repeat; Region: LRR_8; pfam13855 313595002684 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 313595002685 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 313595002686 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 313595002687 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 313595002688 sequence-specific DNA binding site [nucleotide binding]; other site 313595002689 salt bridge; other site 313595002690 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 313595002691 Protein of unknown function, DUF481; Region: DUF481; cl01213 313595002692 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 313595002693 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313595002694 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313595002695 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313595002696 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313595002697 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313595002698 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 313595002699 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595002700 Erythromycin esterase; Region: Erythro_esteras; cl17110 313595002701 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 313595002702 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 313595002703 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313595002704 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 313595002705 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 313595002706 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 313595002707 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 313595002708 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 313595002709 active site 313595002710 catalytic triad [active] 313595002711 META domain; Region: META; cl01245 313595002712 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595002713 Predicted transcriptional regulator [Transcription]; Region: COG3655 313595002714 salt bridge; other site 313595002715 non-specific DNA binding site [nucleotide binding]; other site 313595002716 sequence-specific DNA binding site [nucleotide binding]; other site 313595002717 glycerate kinase; Region: TIGR00045 313595002718 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 313595002719 Na binding site [ion binding]; other site 313595002720 Trehalase; Region: Trehalase; cl17346 313595002721 Winged helix-turn helix; Region: HTH_29; pfam13551 313595002722 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595002723 Homeodomain-like domain; Region: HTH_32; pfam13565 313595002724 Winged helix-turn helix; Region: HTH_33; pfam13592 313595002725 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595002726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595002727 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 313595002728 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595002729 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595002730 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595002731 short chain dehydrogenase; Provisional; Region: PRK06197 313595002732 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 313595002733 putative NAD(P) binding site [chemical binding]; other site 313595002734 active site 313595002735 Predicted membrane protein [Function unknown]; Region: COG4270 313595002736 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 313595002737 MarR family; Region: MarR; pfam01047 313595002738 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 313595002739 sequence-specific DNA binding site [nucleotide binding]; other site 313595002740 salt bridge; other site 313595002741 Domain of unknown function (DUF955); Region: DUF955; pfam06114 313595002742 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 313595002743 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 313595002744 Domain of unknown function (DUF897); Region: DUF897; pfam05982 313595002745 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595002746 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595002747 Winged helix-turn helix; Region: HTH_29; pfam13551 313595002748 Homeodomain-like domain; Region: HTH_23; pfam13384 313595002749 Winged helix-turn helix; Region: HTH_33; pfam13592 313595002750 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 313595002751 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 313595002752 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 313595002753 trimer interface [polypeptide binding]; other site 313595002754 active site 313595002755 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 313595002756 catalytic site [active] 313595002757 glycogen branching enzyme; Provisional; Region: PRK12313 313595002758 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 313595002759 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 313595002760 active site 313595002761 catalytic site [active] 313595002762 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 313595002763 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 313595002764 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 313595002765 ligand binding site; other site 313595002766 oligomer interface; other site 313595002767 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 313595002768 dimer interface [polypeptide binding]; other site 313595002769 N-terminal domain interface [polypeptide binding]; other site 313595002770 sulfate 1 binding site; other site 313595002771 glycogen synthase; Provisional; Region: glgA; PRK00654 313595002772 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 313595002773 ADP-binding pocket [chemical binding]; other site 313595002774 homodimer interface [polypeptide binding]; other site 313595002775 FOG: WD40 repeat [General function prediction only]; Region: COG2319 313595002776 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 313595002777 structural tetrad; other site 313595002778 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 313595002779 Caspase domain; Region: Peptidase_C14; pfam00656 313595002780 FOG: WD40 repeat [General function prediction only]; Region: COG2319 313595002781 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 313595002782 Caspase domain; Region: Peptidase_C14; pfam00656 313595002783 Caspase domain; Region: Peptidase_C14; pfam00656 313595002784 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002785 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002786 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002787 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 313595002788 binding surface 313595002789 TPR motif; other site 313595002790 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002791 CHAT domain; Region: CHAT; pfam12770 313595002792 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 313595002793 binding surface 313595002794 TPR motif; other site 313595002795 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002796 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002797 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 313595002798 binding surface 313595002799 TPR motif; other site 313595002800 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002801 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 313595002802 binding surface 313595002803 TPR motif; other site 313595002804 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002805 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 313595002806 binding surface 313595002807 TPR motif; other site 313595002808 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002809 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002810 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 313595002811 binding surface 313595002812 TPR motif; other site 313595002813 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002814 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002815 CHAT domain; Region: CHAT; cl17868 313595002816 CHAT domain; Region: CHAT; pfam12770 313595002817 Caspase domain; Region: Peptidase_C14; pfam00656 313595002818 CHASE2 domain; Region: CHASE2; pfam05226 313595002819 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002820 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595002821 LytTr DNA-binding domain; Region: LytTR; smart00850 313595002822 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 313595002823 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313595002824 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 313595002825 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 313595002826 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 313595002827 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 313595002828 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 313595002829 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 313595002830 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 313595002831 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313595002832 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313595002833 active site 313595002834 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595002835 Domain of unknown function DUF77; Region: DUF77; cl00307 313595002836 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 313595002837 AAA domain; Region: AAA_28; pfam13521 313595002838 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 313595002839 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 313595002840 hypothetical protein; Provisional; Region: PRK09256 313595002841 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595002842 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595002843 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 313595002844 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 313595002845 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 313595002846 S-adenosylmethionine binding site [chemical binding]; other site 313595002847 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 313595002848 putative active site [active] 313595002849 putative catalytic site [active] 313595002850 putative Mg binding site IVb [ion binding]; other site 313595002851 putative phosphate binding site [ion binding]; other site 313595002852 putative DNA binding site [nucleotide binding]; other site 313595002853 putative Mg binding site IVa [ion binding]; other site 313595002854 HNH endonuclease; Region: HNH_3; pfam13392 313595002855 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; cl17393 313595002856 DNA-binding interface [nucleotide binding]; DNA binding site 313595002857 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313595002858 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595002859 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313595002860 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 313595002861 starch binding outer membrane protein SusD; Region: SusD; cd08977 313595002862 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595002863 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595002864 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 313595002865 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 313595002866 FMN binding site [chemical binding]; other site 313595002867 active site 313595002868 catalytic residues [active] 313595002869 substrate binding site [chemical binding]; other site 313595002870 GTP-binding protein LepA; Provisional; Region: PRK05433 313595002871 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 313595002872 G1 box; other site 313595002873 putative GEF interaction site [polypeptide binding]; other site 313595002874 GTP/Mg2+ binding site [chemical binding]; other site 313595002875 Switch I region; other site 313595002876 G2 box; other site 313595002877 G3 box; other site 313595002878 Switch II region; other site 313595002879 G4 box; other site 313595002880 G5 box; other site 313595002881 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 313595002882 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 313595002883 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 313595002884 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 313595002885 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 313595002886 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 313595002887 dimer interface [polypeptide binding]; other site 313595002888 conserved gate region; other site 313595002889 putative PBP binding loops; other site 313595002890 ABC-ATPase subunit interface; other site 313595002891 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 313595002892 C-terminal peptidase (prc); Region: prc; TIGR00225 313595002893 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 313595002894 protein binding site [polypeptide binding]; other site 313595002895 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 313595002896 Catalytic dyad [active] 313595002897 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 313595002898 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 313595002899 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 313595002900 active site 313595002901 Fasciclin domain; Region: Fasciclin; cl02663 313595002902 Fasciclin domain; Region: Fasciclin; pfam02469 313595002903 Fasciclin domain; Region: Fasciclin; pfam02469 313595002904 Fasciclin domain; Region: Fasciclin; pfam02469 313595002905 tubulin beta chain; Provisional; Region: PTZ00010 313595002906 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 313595002907 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595002908 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 313595002909 DNA binding residues [nucleotide binding] 313595002910 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 313595002911 FecR protein; Region: FecR; pfam04773 313595002912 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 313595002913 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 313595002914 putative active site [active] 313595002915 Zn binding site [ion binding]; other site 313595002916 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 313595002917 Patatin-like phospholipase; Region: Patatin; pfam01734 313595002918 nucleophile elbow; other site 313595002919 Cytochrome oxidase complex assembly protein 1; Region: Coa1; pfam08695 313595002920 Methyltransferase domain; Region: Methyltransf_18; pfam12847 313595002921 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 313595002922 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595002923 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595002924 Winged helix-turn helix; Region: HTH_29; pfam13551 313595002925 Homeodomain-like domain; Region: HTH_23; pfam13384 313595002926 Winged helix-turn helix; Region: HTH_33; pfam13592 313595002927 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 313595002928 putative substrate translocation pore; other site 313595002929 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313595002930 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 313595002931 Neutral trehalase Ca2+ binding domain; Region: Trehalase_Ca-bi; pfam07492 313595002932 Trehalase; Region: Trehalase; cl17346 313595002933 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 313595002934 putative substrate translocation pore; other site 313595002935 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313595002936 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 313595002937 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 313595002938 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 313595002939 Ca binding site [ion binding]; other site 313595002940 active site 313595002941 catalytic site [active] 313595002942 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 313595002943 active site 313595002944 Family description; Region: VCBS; pfam13517 313595002945 Family description; Region: VCBS; pfam13517 313595002946 Family description; Region: VCBS; pfam13517 313595002947 Family description; Region: VCBS; pfam13517 313595002948 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313595002949 Family description; Region: VCBS; pfam13517 313595002950 Family description; Region: VCBS; pfam13517 313595002951 Family description; Region: VCBS; pfam13517 313595002952 Family description; Region: VCBS; pfam13517 313595002953 Family description; Region: VCBS; pfam13517 313595002954 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313595002955 Family description; Region: VCBS; pfam13517 313595002956 Family description; Region: VCBS; pfam13517 313595002957 Family description; Region: VCBS; pfam13517 313595002958 starch binding outer membrane protein SusD; Region: SusD; cl17845 313595002959 SusD family; Region: SusD; pfam07980 313595002960 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595002961 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313595002962 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313595002963 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 313595002964 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 313595002965 Prostaglandin dehydrogenases; Region: PGDH; cd05288 313595002966 NAD(P) binding site [chemical binding]; other site 313595002967 substrate binding site [chemical binding]; other site 313595002968 dimer interface [polypeptide binding]; other site 313595002969 FOG: CBS domain [General function prediction only]; Region: COG0517 313595002970 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_16; cd04629 313595002971 Amidohydrolase; Region: Amidohydro_5; pfam13594 313595002972 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 313595002973 Amidohydrolase; Region: Amidohydro_4; pfam13147 313595002974 active site 313595002975 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 313595002976 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 313595002977 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313595002978 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 313595002979 Walker A/P-loop; other site 313595002980 ATP binding site [chemical binding]; other site 313595002981 Q-loop/lid; other site 313595002982 ABC transporter signature motif; other site 313595002983 Walker B; other site 313595002984 D-loop; other site 313595002985 H-loop/switch region; other site 313595002986 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 313595002987 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 313595002988 ligand binding site [chemical binding]; other site 313595002989 NAD binding site [chemical binding]; other site 313595002990 tetramer interface [polypeptide binding]; other site 313595002991 catalytic site [active] 313595002992 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 313595002993 L-serine binding site [chemical binding]; other site 313595002994 ACT domain interface; other site 313595002995 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 313595002996 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 313595002997 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 313595002998 active site 313595002999 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 313595003000 Transglycosylase; Region: Transgly; pfam00912 313595003001 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 313595003002 GldH lipoprotein; Region: GldH_lipo; pfam14109 313595003003 PSP1 C-terminal conserved region; Region: PSP1; cl00770 313595003004 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 313595003005 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 313595003006 active site 313595003007 biotin synthase; Region: bioB; TIGR00433 313595003008 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 313595003009 FeS/SAM binding site; other site 313595003010 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 313595003011 Cupin-like domain; Region: Cupin_8; pfam13621 313595003012 RecX family; Region: RecX; pfam02631 313595003013 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 313595003014 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 313595003015 homodimer interface [polypeptide binding]; other site 313595003016 oligonucleotide binding site [chemical binding]; other site 313595003017 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 313595003018 IHF - DNA interface [nucleotide binding]; other site 313595003019 IHF dimer interface [polypeptide binding]; other site 313595003020 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 313595003021 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 313595003022 minor groove reading motif; other site 313595003023 helix-hairpin-helix signature motif; other site 313595003024 substrate binding pocket [chemical binding]; other site 313595003025 active site 313595003026 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 313595003027 DNA binding and oxoG recognition site [nucleotide binding] 313595003028 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 313595003029 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 313595003030 dimer interface [polypeptide binding]; other site 313595003031 ssDNA binding site [nucleotide binding]; other site 313595003032 tetramer (dimer of dimers) interface [polypeptide binding]; other site 313595003033 gliding motility-associated protein GldE; Region: GldE; TIGR03520 313595003034 Domain of unknown function DUF21; Region: DUF21; pfam01595 313595003035 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 313595003036 Transporter associated domain; Region: CorC_HlyC; smart01091 313595003037 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 313595003038 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 313595003039 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 313595003040 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 313595003041 EamA-like transporter family; Region: EamA; pfam00892 313595003042 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 313595003043 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 313595003044 active site residue [active] 313595003045 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 313595003046 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 313595003047 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 313595003048 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 313595003049 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 313595003050 OsmC-like protein; Region: OsmC; pfam02566 313595003051 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 313595003052 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 313595003053 homodimer interface [polypeptide binding]; other site 313595003054 substrate-cofactor binding pocket; other site 313595003055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595003056 catalytic residue [active] 313595003057 recombinase A; Provisional; Region: recA; PRK09354 313595003058 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 313595003059 hexamer interface [polypeptide binding]; other site 313595003060 Walker A motif; other site 313595003061 ATP binding site [chemical binding]; other site 313595003062 Walker B motif; other site 313595003063 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 313595003064 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595003065 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 313595003066 DNA binding residues [nucleotide binding] 313595003067 Sporulation related domain; Region: SPOR; pfam05036 313595003068 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 313595003069 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 313595003070 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 313595003071 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 313595003072 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 313595003073 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 313595003074 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313595003075 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313595003076 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313595003077 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313595003078 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313595003079 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313595003080 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 313595003081 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 313595003082 active site 313595003083 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 313595003084 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 313595003085 domain interfaces; other site 313595003086 active site 313595003087 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 313595003088 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 313595003089 tRNA; other site 313595003090 putative tRNA binding site [nucleotide binding]; other site 313595003091 putative NADP binding site [chemical binding]; other site 313595003092 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 313595003093 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313595003094 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595003095 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 313595003096 active site 313595003097 DNA binding site [nucleotide binding] 313595003098 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 313595003099 ATP-dependent DNA ligase; Validated; Region: PRK09247 313595003100 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 313595003101 active site 313595003102 DNA binding site [nucleotide binding] 313595003103 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 313595003104 DNA binding site [nucleotide binding] 313595003105 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313595003106 C-terminal peptidase (prc); Region: prc; TIGR00225 313595003107 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 313595003108 protein binding site [polypeptide binding]; other site 313595003109 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 313595003110 Catalytic dyad [active] 313595003111 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 313595003112 catalytic motif [active] 313595003113 Zn binding site [ion binding]; other site 313595003114 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 313595003115 Putative transposase; Region: Y2_Tnp; pfam04986 313595003116 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 313595003117 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 313595003118 Domain of unknown function (DUF4071); Region: DUF4071; pfam13281 313595003119 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 313595003120 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595003121 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 313595003122 Restriction endonuclease; Region: Mrr_cat; pfam04471 313595003123 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 313595003124 S-adenosylmethionine binding site [chemical binding]; other site 313595003125 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313595003126 Zn binding site [ion binding]; other site 313595003127 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595003128 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595003129 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 313595003130 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 313595003131 Walker A/P-loop; other site 313595003132 ATP binding site [chemical binding]; other site 313595003133 Q-loop/lid; other site 313595003134 ABC transporter signature motif; other site 313595003135 Walker B; other site 313595003136 D-loop; other site 313595003137 H-loop/switch region; other site 313595003138 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 313595003139 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 313595003140 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 313595003141 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 313595003142 Walker A/P-loop; other site 313595003143 ATP binding site [chemical binding]; other site 313595003144 Q-loop/lid; other site 313595003145 ABC transporter signature motif; other site 313595003146 Walker B; other site 313595003147 D-loop; other site 313595003148 H-loop/switch region; other site 313595003149 Predicted transcriptional regulators [Transcription]; Region: COG1725 313595003150 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 313595003151 DNA-binding site [nucleotide binding]; DNA binding site 313595003152 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 313595003153 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 313595003154 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595003155 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595003156 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 313595003157 ligand binding site [chemical binding]; other site 313595003158 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 313595003159 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595003160 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595003161 LytTr DNA-binding domain; Region: LytTR; smart00850 313595003162 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 313595003163 Acyltransferase family; Region: Acyl_transf_3; pfam01757 313595003164 Protein of unknown function (DUF998); Region: DUF998; pfam06197 313595003165 Cupin domain; Region: Cupin_2; cl17218 313595003166 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595003167 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595003168 TAP-like protein; Region: Abhydrolase_4; pfam08386 313595003169 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 313595003170 lycopene cyclase; Region: lycopene_cycl; TIGR01789 313595003171 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 313595003172 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 313595003173 G1 box; other site 313595003174 putative GEF interaction site [polypeptide binding]; other site 313595003175 GTP/Mg2+ binding site [chemical binding]; other site 313595003176 Switch I region; other site 313595003177 G2 box; other site 313595003178 G3 box; other site 313595003179 Switch II region; other site 313595003180 G4 box; other site 313595003181 G5 box; other site 313595003182 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 313595003183 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 313595003184 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 313595003185 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 313595003186 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 313595003187 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 313595003188 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 313595003189 active site 313595003190 PIN domain; Region: PIN_3; pfam13470 313595003191 Helix-turn-helix domain; Region: HTH_17; cl17695 313595003192 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 313595003193 active site 313595003194 DNA binding site [nucleotide binding] 313595003195 Int/Topo IB signature motif; other site 313595003196 Transposase; Region: DEDD_Tnp_IS110; pfam01548 313595003197 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 313595003198 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 313595003199 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313595003200 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313595003201 short chain dehydrogenase; Provisional; Region: PRK06500 313595003202 classical (c) SDRs; Region: SDR_c; cd05233 313595003203 NAD(P) binding site [chemical binding]; other site 313595003204 active site 313595003205 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 313595003206 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 313595003207 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 313595003208 putative active site [active] 313595003209 Zn binding site [ion binding]; other site 313595003210 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595003211 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595003212 Winged helix-turn helix; Region: HTH_29; pfam13551 313595003213 Homeodomain-like domain; Region: HTH_23; pfam13384 313595003214 Winged helix-turn helix; Region: HTH_33; pfam13592 313595003215 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 313595003216 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 313595003217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313595003218 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313595003219 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 313595003220 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 313595003221 active site 313595003222 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 313595003223 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 313595003224 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 313595003225 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 313595003226 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 313595003227 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 313595003228 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 313595003229 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 313595003230 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 313595003231 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 313595003232 putative NADP binding site [chemical binding]; other site 313595003233 active site 313595003234 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 313595003235 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 313595003236 active site 313595003237 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 313595003238 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 313595003239 active site 313595003240 Acyl transferase domain; Region: Acyl_transf_1; cl08282 313595003241 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 313595003242 dimer interface [polypeptide binding]; other site 313595003243 active site 1 [active] 313595003244 active site 2 [active] 313595003245 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 313595003246 dimer interface [polypeptide binding]; other site 313595003247 active site 1 [active] 313595003248 active site 2 [active] 313595003249 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 313595003250 FMN binding site [chemical binding]; other site 313595003251 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 313595003252 substrate binding site [chemical binding]; other site 313595003253 putative catalytic residue [active] 313595003254 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 313595003255 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 313595003256 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 313595003257 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313595003258 Transposase IS200 like; Region: Y1_Tnp; pfam01797 313595003259 Predicted membrane protein [Function unknown]; Region: COG2311 313595003260 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 313595003261 Protein of unknown function (DUF418); Region: DUF418; pfam04235 313595003262 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313595003263 Protein export membrane protein; Region: SecD_SecF; cl14618 313595003264 Protein export membrane protein; Region: SecD_SecF; cl14618 313595003265 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313595003266 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313595003267 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595003268 Outer membrane efflux protein; Region: OEP; pfam02321 313595003269 Outer membrane efflux protein; Region: OEP; pfam02321 313595003270 LytTr DNA-binding domain; Region: LytTR; smart00850 313595003271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595003272 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595003273 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 313595003274 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 313595003275 putative active site [active] 313595003276 putative NTP binding site [chemical binding]; other site 313595003277 putative nucleic acid binding site [nucleotide binding]; other site 313595003278 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 313595003279 TIR domain; Region: TIR_2; pfam13676 313595003280 Winged helix-turn helix; Region: HTH_29; pfam13551 313595003281 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595003282 Homeodomain-like domain; Region: HTH_32; pfam13565 313595003283 Winged helix-turn helix; Region: HTH_33; pfam13592 313595003284 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595003285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595003286 SWIM zinc finger; Region: SWIM; pfam04434 313595003287 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 313595003288 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 313595003289 putative NAD(P) binding site [chemical binding]; other site 313595003290 Predicted transcriptional regulators [Transcription]; Region: COG1733 313595003291 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 313595003292 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313595003293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595003294 active site 313595003295 phosphorylation site [posttranslational modification] 313595003296 intermolecular recognition site; other site 313595003297 dimerization interface [polypeptide binding]; other site 313595003298 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 313595003299 PAS domain; Region: PAS; smart00091 313595003300 putative active site [active] 313595003301 heme pocket [chemical binding]; other site 313595003302 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595003303 ATP binding site [chemical binding]; other site 313595003304 Mg2+ binding site [ion binding]; other site 313595003305 G-X-G motif; other site 313595003306 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313595003307 Response regulator receiver domain; Region: Response_reg; pfam00072 313595003308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595003309 active site 313595003310 phosphorylation site [posttranslational modification] 313595003311 intermolecular recognition site; other site 313595003312 dimerization interface [polypeptide binding]; other site 313595003313 PAS domain S-box; Region: sensory_box; TIGR00229 313595003314 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595003315 putative active site [active] 313595003316 heme pocket [chemical binding]; other site 313595003317 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 313595003318 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595003319 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 313595003320 putative active site [active] 313595003321 heme pocket [chemical binding]; other site 313595003322 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595003323 putative active site [active] 313595003324 heme pocket [chemical binding]; other site 313595003325 GAF domain; Region: GAF_2; pfam13185 313595003326 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 313595003327 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595003328 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 313595003329 dimer interface [polypeptide binding]; other site 313595003330 phosphorylation site [posttranslational modification] 313595003331 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595003332 ATP binding site [chemical binding]; other site 313595003333 Mg2+ binding site [ion binding]; other site 313595003334 G-X-G motif; other site 313595003335 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313595003336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595003337 active site 313595003338 phosphorylation site [posttranslational modification] 313595003339 intermolecular recognition site; other site 313595003340 dimerization interface [polypeptide binding]; other site 313595003341 LytTr DNA-binding domain; Region: LytTR; smart00850 313595003342 Response regulator receiver domain; Region: Response_reg; pfam00072 313595003343 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595003344 active site 313595003345 phosphorylation site [posttranslational modification] 313595003346 intermolecular recognition site; other site 313595003347 dimerization interface [polypeptide binding]; other site 313595003348 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595003349 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595003350 ATP binding site [chemical binding]; other site 313595003351 Mg2+ binding site [ion binding]; other site 313595003352 G-X-G motif; other site 313595003353 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595003354 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 313595003355 putative active site [active] 313595003356 heme pocket [chemical binding]; other site 313595003357 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 313595003358 dimer interface [polypeptide binding]; other site 313595003359 phosphorylation site [posttranslational modification] 313595003360 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595003361 ATP binding site [chemical binding]; other site 313595003362 Mg2+ binding site [ion binding]; other site 313595003363 G-X-G motif; other site 313595003364 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313595003365 GAF domain; Region: GAF; pfam01590 313595003366 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 313595003367 dimer interface [polypeptide binding]; other site 313595003368 phosphorylation site [posttranslational modification] 313595003369 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595003370 ATP binding site [chemical binding]; other site 313595003371 Mg2+ binding site [ion binding]; other site 313595003372 G-X-G motif; other site 313595003373 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 313595003374 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 313595003375 binding surface 313595003376 TPR motif; other site 313595003377 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 313595003378 binding surface 313595003379 Tetratricopeptide repeat; Region: TPR_16; pfam13432 313595003380 TPR motif; other site 313595003381 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 313595003382 TPR motif; other site 313595003383 binding surface 313595003384 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313595003385 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313595003386 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313595003387 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 313595003388 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 313595003389 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 313595003390 Predicted integral membrane protein [Function unknown]; Region: COG5617 313595003391 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 313595003392 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595003393 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595003394 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 313595003395 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 313595003396 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313595003397 active site 313595003398 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 313595003399 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 313595003400 5S rRNA interface [nucleotide binding]; other site 313595003401 CTC domain interface [polypeptide binding]; other site 313595003402 L16 interface [polypeptide binding]; other site 313595003403 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 313595003404 putative active site [active] 313595003405 catalytic residue [active] 313595003406 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 313595003407 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 313595003408 active site 313595003409 Riboflavin kinase; Region: Flavokinase; pfam01687 313595003410 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; pfam05090 313595003411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595003412 NAD(P) binding site [chemical binding]; other site 313595003413 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 313595003414 active site 313595003415 M28 Zn-peptidase Endoplasmic reticulum metallopeptidase 1; Region: M28_Fxna_like; cd03875 313595003416 Peptidase family M28; Region: Peptidase_M28; pfam04389 313595003417 metal binding site [ion binding]; metal-binding site 313595003418 TPR repeat; Region: TPR_11; pfam13414 313595003419 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 313595003420 TPR motif; other site 313595003421 binding surface 313595003422 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313595003423 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313595003424 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313595003425 ligand binding site [chemical binding]; other site 313595003426 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313595003427 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 313595003428 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 313595003429 HflX GTPase family; Region: HflX; cd01878 313595003430 G1 box; other site 313595003431 GTP/Mg2+ binding site [chemical binding]; other site 313595003432 Switch I region; other site 313595003433 G2 box; other site 313595003434 G3 box; other site 313595003435 Switch II region; other site 313595003436 G4 box; other site 313595003437 G5 box; other site 313595003438 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313595003439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595003440 active site 313595003441 phosphorylation site [posttranslational modification] 313595003442 intermolecular recognition site; other site 313595003443 dimerization interface [polypeptide binding]; other site 313595003444 GAF domain; Region: GAF; pfam01590 313595003445 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313595003446 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595003447 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 313595003448 dimer interface [polypeptide binding]; other site 313595003449 phosphorylation site [posttranslational modification] 313595003450 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595003451 ATP binding site [chemical binding]; other site 313595003452 Mg2+ binding site [ion binding]; other site 313595003453 G-X-G motif; other site 313595003454 PAS domain; Region: PAS_8; pfam13188 313595003455 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 313595003456 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595003457 putative active site [active] 313595003458 heme pocket [chemical binding]; other site 313595003459 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595003460 PAS domain; Region: PAS_9; pfam13426 313595003461 putative active site [active] 313595003462 heme pocket [chemical binding]; other site 313595003463 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595003464 PAS domain; Region: PAS_9; pfam13426 313595003465 putative active site [active] 313595003466 heme pocket [chemical binding]; other site 313595003467 PAS fold; Region: PAS_4; pfam08448 313595003468 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595003469 putative active site [active] 313595003470 heme pocket [chemical binding]; other site 313595003471 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595003472 PAS fold; Region: PAS_3; pfam08447 313595003473 putative active site [active] 313595003474 heme pocket [chemical binding]; other site 313595003475 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 313595003476 catalytic nucleophile [active] 313595003477 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 313595003478 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 313595003479 catalytic residues [active] 313595003480 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 313595003481 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 313595003482 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 313595003483 gamma subunit interface [polypeptide binding]; other site 313595003484 LBP interface [polypeptide binding]; other site 313595003485 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 313595003486 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 313595003487 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 313595003488 alpha subunit interaction interface [polypeptide binding]; other site 313595003489 Walker A motif; other site 313595003490 ATP binding site [chemical binding]; other site 313595003491 Walker B motif; other site 313595003492 inhibitor binding site; inhibition site 313595003493 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 313595003494 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 313595003495 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 313595003496 glutaminase active site [active] 313595003497 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 313595003498 dimer interface [polypeptide binding]; other site 313595003499 active site 313595003500 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 313595003501 dimer interface [polypeptide binding]; other site 313595003502 active site 313595003503 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 313595003504 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 313595003505 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595003506 pantoate--beta-alanine ligase; Region: panC; TIGR00018 313595003507 active site 313595003508 nucleotide binding site [chemical binding]; other site 313595003509 HIGH motif; other site 313595003510 KMSKS motif; other site 313595003511 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 313595003512 tetramerization interface [polypeptide binding]; other site 313595003513 active site 313595003514 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 313595003515 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313595003516 DNA repair protein RadA; Provisional; Region: PRK11823 313595003517 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 313595003518 Walker A motif/ATP binding site; other site 313595003519 ATP binding site [chemical binding]; other site 313595003520 Walker B motif; other site 313595003521 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 313595003522 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 313595003523 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595003524 active site 313595003525 HIGH motif; other site 313595003526 nucleotide binding site [chemical binding]; other site 313595003527 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595003528 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595003529 active site 313595003530 KMSKS motif; other site 313595003531 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 313595003532 tRNA binding surface [nucleotide binding]; other site 313595003533 anticodon binding site; other site 313595003534 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 313595003535 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 313595003536 putative active site [active] 313595003537 putative metal binding residues [ion binding]; other site 313595003538 signature motif; other site 313595003539 putative dimer interface [polypeptide binding]; other site 313595003540 putative phosphate binding site [ion binding]; other site 313595003541 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 313595003542 nucleotide binding site/active site [active] 313595003543 HIT family signature motif; other site 313595003544 catalytic residue [active] 313595003545 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 313595003546 putative acyl-acceptor binding pocket; other site 313595003547 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 313595003548 Transcriptional regulators [Transcription]; Region: PurR; COG1609 313595003549 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 313595003550 DNA binding site [nucleotide binding] 313595003551 domain linker motif; other site 313595003552 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 313595003553 dimerization interface [polypeptide binding]; other site 313595003554 ligand binding site [chemical binding]; other site 313595003555 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 313595003556 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 313595003557 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 313595003558 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 313595003559 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 313595003560 active site 313595003561 catalytic residues [active] 313595003562 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313595003563 starch binding outer membrane protein SusD; Region: SusD; cd08977 313595003564 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313595003565 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595003566 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313595003567 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 313595003568 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 313595003569 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 313595003570 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 313595003571 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 313595003572 putative substrate translocation pore; other site 313595003573 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 313595003574 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 313595003575 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 313595003576 putative NAD(P) binding site [chemical binding]; other site 313595003577 putative substrate binding site [chemical binding]; other site 313595003578 catalytic Zn binding site [ion binding]; other site 313595003579 structural Zn binding site [ion binding]; other site 313595003580 dimer interface [polypeptide binding]; other site 313595003581 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 313595003582 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 313595003583 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 313595003584 Na binding site [ion binding]; other site 313595003585 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 313595003586 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 313595003587 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595003588 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595003589 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 313595003590 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 313595003591 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 313595003592 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 313595003593 active site 313595003594 catalytic tetrad [active] 313595003595 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 313595003596 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 313595003597 active site 313595003598 HIGH motif; other site 313595003599 dimer interface [polypeptide binding]; other site 313595003600 KMSKS motif; other site 313595003601 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313595003602 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 313595003603 putative acyl-acceptor binding pocket; other site 313595003604 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 313595003605 Transposase; Region: DDE_Tnp_ISL3; pfam01610 313595003606 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 313595003607 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 313595003608 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 313595003609 ATP binding site [chemical binding]; other site 313595003610 putative Mg++ binding site [ion binding]; other site 313595003611 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 313595003612 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 313595003613 nucleotide binding region [chemical binding]; other site 313595003614 ATP-binding site [chemical binding]; other site 313595003615 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 313595003616 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 313595003617 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595003618 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 313595003619 Uncharacterized conserved protein [Function unknown]; Region: COG1434 313595003620 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 313595003621 putative active site [active] 313595003622 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 313595003623 transcriptional activator RfaH; Region: RfaH; TIGR01955 313595003624 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 313595003625 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 313595003626 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 313595003627 putative active site [active] 313595003628 putative substrate binding site [chemical binding]; other site 313595003629 putative cosubstrate binding site; other site 313595003630 catalytic site [active] 313595003631 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595003632 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 313595003633 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 313595003634 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 313595003635 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 313595003636 putative trimer interface [polypeptide binding]; other site 313595003637 putative CoA binding site [chemical binding]; other site 313595003638 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 313595003639 classical (c) SDRs; Region: SDR_c; cd05233 313595003640 NAD(P) binding site [chemical binding]; other site 313595003641 active site 313595003642 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 313595003643 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 313595003644 dimer interface [polypeptide binding]; other site 313595003645 active site 313595003646 CoA binding pocket [chemical binding]; other site 313595003647 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 313595003648 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 313595003649 four helix bundle protein; Region: TIGR02436 313595003650 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595003651 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595003652 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 313595003653 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 313595003654 dimer interface [polypeptide binding]; other site 313595003655 active site 313595003656 CoA binding pocket [chemical binding]; other site 313595003657 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 313595003658 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 313595003659 Bacterial sugar transferase; Region: Bac_transf; pfam02397 313595003660 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 313595003661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595003662 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313595003663 NAD(P) binding site [chemical binding]; other site 313595003664 active site 313595003665 Cupin domain; Region: Cupin_2; cl17218 313595003666 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 313595003667 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 313595003668 Substrate binding site; other site 313595003669 Cupin domain; Region: Cupin_2; cl17218 313595003670 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313595003671 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 313595003672 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 313595003673 putative ADP-binding pocket [chemical binding]; other site 313595003674 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313595003675 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313595003676 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 313595003677 active site 313595003678 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 313595003679 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 313595003680 inhibitor-cofactor binding pocket; inhibition site 313595003681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595003682 catalytic residue [active] 313595003683 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 313595003684 putative trimer interface [polypeptide binding]; other site 313595003685 putative active site [active] 313595003686 putative substrate binding site [chemical binding]; other site 313595003687 putative CoA binding site [chemical binding]; other site 313595003688 WxcM-like, C-terminal; Region: FdtA; pfam05523 313595003689 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313595003690 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 313595003691 putative ADP-binding pocket [chemical binding]; other site 313595003692 Cut8; Region: Cut8; pfam08559 313595003693 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 313595003694 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 313595003695 active site 313595003696 motif I; other site 313595003697 motif II; other site 313595003698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595003699 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313595003700 NAD(P) binding site [chemical binding]; other site 313595003701 active site 313595003702 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 313595003703 active site 313595003704 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 313595003705 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 313595003706 active site 313595003707 catalytic residues [active] 313595003708 metal binding site [ion binding]; metal-binding site 313595003709 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595003710 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313595003711 Walker A/P-loop; other site 313595003712 ATP binding site [chemical binding]; other site 313595003713 Q-loop/lid; other site 313595003714 ABC transporter signature motif; other site 313595003715 Walker B; other site 313595003716 D-loop; other site 313595003717 H-loop/switch region; other site 313595003718 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 313595003719 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 313595003720 substrate binding site; other site 313595003721 tetramer interface; other site 313595003722 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 313595003723 four helix bundle protein; Region: TIGR02436 313595003724 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 313595003725 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 313595003726 NAD binding site [chemical binding]; other site 313595003727 substrate binding site [chemical binding]; other site 313595003728 homodimer interface [polypeptide binding]; other site 313595003729 active site 313595003730 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313595003731 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 313595003732 putative NAD(P) binding site [chemical binding]; other site 313595003733 active site 313595003734 putative substrate binding site [chemical binding]; other site 313595003735 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 313595003736 AAA domain; Region: AAA_14; pfam13173 313595003737 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 313595003738 putative substrate binding site [chemical binding]; other site 313595003739 active site 313595003740 PemK-like protein; Region: PemK; pfam02452 313595003741 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 313595003742 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 313595003743 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 313595003744 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 313595003745 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 313595003746 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 313595003747 Walker A motif; other site 313595003748 ATP binding site [chemical binding]; other site 313595003749 Walker B motif; other site 313595003750 arginine finger; other site 313595003751 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 313595003752 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 313595003753 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 313595003754 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 313595003755 active site 313595003756 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 313595003757 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313595003758 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313595003759 C-terminal peptidase (prc); Region: prc; TIGR00225 313595003760 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 313595003761 protein binding site [polypeptide binding]; other site 313595003762 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 313595003763 Domain interface; other site 313595003764 Peptide binding site; other site 313595003765 Active site tetrad [active] 313595003766 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595003767 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 313595003768 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 313595003769 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595003770 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 313595003771 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313595003772 active site 313595003773 catalytic site [active] 313595003774 substrate binding site [chemical binding]; other site 313595003775 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 313595003776 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 313595003777 active site 313595003778 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 313595003779 generic binding surface I; other site 313595003780 generic binding surface II; other site 313595003781 Transposase IS200 like; Region: Y1_Tnp; pfam01797 313595003782 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 313595003783 Chorismate mutase type II; Region: CM_2; smart00830 313595003784 prephenate dehydrogenase; Validated; Region: PRK08507 313595003785 Prephenate dehydrogenase; Region: PDH; pfam02153 313595003786 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 313595003787 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 313595003788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595003789 homodimer interface [polypeptide binding]; other site 313595003790 catalytic residue [active] 313595003791 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 313595003792 Prephenate dehydratase; Region: PDT; pfam00800 313595003793 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 313595003794 putative L-Phe binding site [chemical binding]; other site 313595003795 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 313595003796 active site 313595003797 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 313595003798 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 313595003799 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 313595003800 Walker A motif; other site 313595003801 ATP binding site [chemical binding]; other site 313595003802 Walker B motif; other site 313595003803 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 313595003804 Clp protease; Region: CLP_protease; pfam00574 313595003805 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 313595003806 oligomer interface [polypeptide binding]; other site 313595003807 active site residues [active] 313595003808 trigger factor; Region: tig; TIGR00115 313595003809 CAAX protease self-immunity; Region: Abi; pfam02517 313595003810 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 313595003811 catalytic triad [active] 313595003812 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 313595003813 acyl-CoA esterase; Provisional; Region: PRK10673 313595003814 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313595003815 PGAP1-like protein; Region: PGAP1; pfam07819 313595003816 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 313595003817 active site 313595003818 hydrophilic channel; other site 313595003819 dimerization interface [polypeptide binding]; other site 313595003820 catalytic residues [active] 313595003821 active site lid [active] 313595003822 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 313595003823 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 313595003824 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313595003825 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 313595003826 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 313595003827 catalytic residue [active] 313595003828 putative FPP diphosphate binding site; other site 313595003829 putative FPP binding hydrophobic cleft; other site 313595003830 dimer interface [polypeptide binding]; other site 313595003831 putative IPP diphosphate binding site; other site 313595003832 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 313595003833 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313595003834 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313595003835 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313595003836 Surface antigen; Region: Bac_surface_Ag; pfam01103 313595003837 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 313595003838 periplasmic chaperone; Provisional; Region: PRK10780 313595003839 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 313595003840 glutamate racemase; Provisional; Region: PRK00865 313595003841 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313595003842 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 313595003843 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 313595003844 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 313595003845 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 313595003846 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 313595003847 hypothetical protein; Provisional; Region: PRK11820 313595003848 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 313595003849 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 313595003850 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 313595003851 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 313595003852 catalytic site [active] 313595003853 G-X2-G-X-G-K; other site 313595003854 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 313595003855 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 313595003856 active site 313595003857 (T/H)XGH motif; other site 313595003858 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 313595003859 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 313595003860 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 313595003861 EamA-like transporter family; Region: EamA; cl17759 313595003862 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 313595003863 EamA-like transporter family; Region: EamA; pfam00892 313595003864 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 313595003865 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 313595003866 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 313595003867 dimer interface [polypeptide binding]; other site 313595003868 motif 1; other site 313595003869 active site 313595003870 motif 2; other site 313595003871 motif 3; other site 313595003872 Colicin V production protein; Region: Colicin_V; pfam02674 313595003873 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 313595003874 active site clefts [active] 313595003875 zinc binding site [ion binding]; other site 313595003876 dimer interface [polypeptide binding]; other site 313595003877 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 313595003878 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313595003879 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 313595003880 binding surface 313595003881 Tetratricopeptide repeat; Region: TPR_16; pfam13432 313595003882 TPR motif; other site 313595003883 Bacterial SH3 domain homologues; Region: SH3b; smart00287 313595003884 Oxygen tolerance; Region: BatD; pfam13584 313595003885 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 313595003886 binding surface 313595003887 TPR motif; other site 313595003888 TPR repeat; Region: TPR_11; pfam13414 313595003889 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 313595003890 metal ion-dependent adhesion site (MIDAS); other site 313595003891 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 313595003892 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 313595003893 metal ion-dependent adhesion site (MIDAS); other site 313595003894 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 313595003895 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 313595003896 metal ion-dependent adhesion site (MIDAS); other site 313595003897 MoxR-like ATPases [General function prediction only]; Region: COG0714 313595003898 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 313595003899 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 313595003900 Peptidase family M23; Region: Peptidase_M23; pfam01551 313595003901 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 313595003902 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595003903 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 313595003904 binding surface 313595003905 TPR motif; other site 313595003906 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 313595003907 binding surface 313595003908 TPR motif; other site 313595003909 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 313595003910 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 313595003911 active site 313595003912 Substrate binding site; other site 313595003913 Mg++ binding site; other site 313595003914 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 313595003915 putative trimer interface [polypeptide binding]; other site 313595003916 putative CoA binding site [chemical binding]; other site 313595003917 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 313595003918 trimer interface [polypeptide binding]; other site 313595003919 active site 313595003920 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 313595003921 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313595003922 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 313595003923 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595003924 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 313595003925 putative catalytic site [active] 313595003926 putative metal binding site [ion binding]; other site 313595003927 putative phosphate binding site [ion binding]; other site 313595003928 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595003929 AAA domain; Region: AAA_23; pfam13476 313595003930 Walker A/P-loop; other site 313595003931 ATP binding site [chemical binding]; other site 313595003932 Q-loop/lid; other site 313595003933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595003934 ABC transporter signature motif; other site 313595003935 Walker B; other site 313595003936 D-loop; other site 313595003937 H-loop/switch region; other site 313595003938 exonuclease subunit SbcD; Provisional; Region: PRK10966 313595003939 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 313595003940 active site 313595003941 metal binding site [ion binding]; metal-binding site 313595003942 DNA binding site [nucleotide binding] 313595003943 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 313595003944 Abi-like protein; Region: Abi_2; pfam07751 313595003945 Transposase domain (DUF772); Region: DUF772; pfam05598 313595003946 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 313595003947 DDE superfamily endonuclease; Region: DDE_4; cl17710 313595003948 Helix-turn-helix domain; Region: HTH_18; pfam12833 313595003949 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595003950 TPR repeat; Region: TPR_11; pfam13414 313595003951 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 313595003952 binding surface 313595003953 TPR motif; other site 313595003954 TPR repeat; Region: TPR_11; pfam13414 313595003955 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 313595003956 binding surface 313595003957 TPR motif; other site 313595003958 TPR repeat; Region: TPR_11; pfam13414 313595003959 CAAX protease self-immunity; Region: Abi; pfam02517 313595003960 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 313595003961 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 313595003962 Walker A/P-loop; other site 313595003963 ATP binding site [chemical binding]; other site 313595003964 Q-loop/lid; other site 313595003965 ABC transporter signature motif; other site 313595003966 Walker B; other site 313595003967 D-loop; other site 313595003968 H-loop/switch region; other site 313595003969 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 313595003970 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 313595003971 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 313595003972 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 313595003973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 313595003974 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 313595003975 active site triad [active] 313595003976 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 313595003977 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595003978 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 313595003979 non-specific DNA binding site [nucleotide binding]; other site 313595003980 salt bridge; other site 313595003981 sequence-specific DNA binding site [nucleotide binding]; other site 313595003982 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 313595003983 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 313595003984 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 313595003985 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313595003986 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313595003987 active site 313595003988 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 313595003989 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 313595003990 NAD(P) binding site [chemical binding]; other site 313595003991 catalytic residues [active] 313595003992 Winged helix-turn helix; Region: HTH_29; pfam13551 313595003993 Homeodomain-like domain; Region: HTH_23; pfam13384 313595003994 Winged helix-turn helix; Region: HTH_33; pfam13592 313595003995 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595003996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595003997 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595003998 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313595003999 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 313595004000 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 313595004001 motif II; other site 313595004002 AAA domain; Region: AAA_33; pfam13671 313595004003 AAA domain; Region: AAA_17; pfam13207 313595004004 FOG: WD40 repeat [General function prediction only]; Region: COG2319 313595004005 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; cd00200 313595004006 structural tetrad; other site 313595004007 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313595004008 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 313595004009 TPR repeat; Region: TPR_11; pfam13414 313595004010 binding surface 313595004011 TPR motif; other site 313595004012 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 313595004013 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595004014 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 313595004015 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 313595004016 N-terminal plug; other site 313595004017 ligand-binding site [chemical binding]; other site 313595004018 superoxide dismutase; Provisional; Region: PRK10543 313595004019 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 313595004020 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 313595004021 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595004022 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595004023 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595004024 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313595004025 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313595004026 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313595004027 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595004028 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 313595004029 active site 313595004030 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313595004031 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313595004032 Walker A/P-loop; other site 313595004033 ATP binding site [chemical binding]; other site 313595004034 Q-loop/lid; other site 313595004035 ABC transporter signature motif; other site 313595004036 Walker B; other site 313595004037 D-loop; other site 313595004038 H-loop/switch region; other site 313595004039 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595004040 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313595004041 FtsX-like permease family; Region: FtsX; pfam02687 313595004042 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595004043 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313595004044 FtsX-like permease family; Region: FtsX; pfam02687 313595004045 macrolide transporter subunit MacA; Provisional; Region: PRK11578 313595004046 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313595004047 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595004048 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 313595004049 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 313595004050 Glycoprotease family; Region: Peptidase_M22; pfam00814 313595004051 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313595004052 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 313595004053 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 313595004054 active site 313595004055 HIGH motif; other site 313595004056 KMSKS motif; other site 313595004057 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 313595004058 tRNA binding surface [nucleotide binding]; other site 313595004059 anticodon binding site; other site 313595004060 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 313595004061 dimer interface [polypeptide binding]; other site 313595004062 putative tRNA-binding site [nucleotide binding]; other site 313595004063 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 313595004064 dimer interface [polypeptide binding]; other site 313595004065 catalytic triad [active] 313595004066 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 313595004067 Pirin; Region: Pirin; pfam02678 313595004068 Pirin-related protein [General function prediction only]; Region: COG1741 313595004069 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 313595004070 TIGR04255 family protein; Region: sporadTIGR04255 313595004071 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 313595004072 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 313595004073 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595004074 active site 313595004075 HIGH motif; other site 313595004076 nucleotide binding site [chemical binding]; other site 313595004077 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595004078 active site 313595004079 KMSKS motif; other site 313595004080 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 313595004081 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 313595004082 Active site serine [active] 313595004083 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 313595004084 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 313595004085 DNA-binding site [nucleotide binding]; DNA binding site 313595004086 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 313595004087 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 313595004088 glycerol kinase; Provisional; Region: glpK; PRK00047 313595004089 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 313595004090 N- and C-terminal domain interface [polypeptide binding]; other site 313595004091 active site 313595004092 MgATP binding site [chemical binding]; other site 313595004093 catalytic site [active] 313595004094 metal binding site [ion binding]; metal-binding site 313595004095 glycerol binding site [chemical binding]; other site 313595004096 homotetramer interface [polypeptide binding]; other site 313595004097 homodimer interface [polypeptide binding]; other site 313595004098 FBP binding site [chemical binding]; other site 313595004099 protein IIAGlc interface [polypeptide binding]; other site 313595004100 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 313595004101 amphipathic channel; other site 313595004102 Asn-Pro-Ala signature motifs; other site 313595004103 pyruvate carboxylase; Reviewed; Region: PRK12999 313595004104 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313595004105 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313595004106 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 313595004107 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 313595004108 active site 313595004109 catalytic residues [active] 313595004110 metal binding site [ion binding]; metal-binding site 313595004111 homodimer binding site [polypeptide binding]; other site 313595004112 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 313595004113 carboxyltransferase (CT) interaction site; other site 313595004114 biotinylation site [posttranslational modification]; other site 313595004115 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313595004116 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 313595004117 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 313595004118 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313595004119 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313595004120 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313595004121 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 313595004122 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 313595004123 putative substrate translocation pore; other site 313595004124 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 313595004125 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 313595004126 Metal-binding active site; metal-binding site 313595004127 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 313595004128 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313595004129 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 313595004130 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 313595004131 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313595004132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595004133 NAD(P) binding site [chemical binding]; other site 313595004134 active site 313595004135 SnoaL-like domain; Region: SnoaL_3; pfam13474 313595004136 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 313595004137 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 313595004138 active site 313595004139 Zn binding site [ion binding]; other site 313595004140 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 313595004141 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595004142 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595004143 Protein of unknown function, DUF399; Region: DUF399; pfam04187 313595004144 C-N hydrolase family amidase; Provisional; Region: PRK10438 313595004145 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 313595004146 putative active site [active] 313595004147 catalytic triad [active] 313595004148 dimer interface [polypeptide binding]; other site 313595004149 multimer interface [polypeptide binding]; other site 313595004150 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 313595004151 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595004152 Coenzyme A binding pocket [chemical binding]; other site 313595004153 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 313595004154 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595004155 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595004156 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595004157 Family description; Region: VCBS; pfam13517 313595004158 Family description; Region: VCBS; pfam13517 313595004159 Family description; Region: VCBS; pfam13517 313595004160 Family description; Region: VCBS; pfam13517 313595004161 Transposase; Region: HTH_Tnp_1; cl17663 313595004162 putative transposase OrfB; Reviewed; Region: PHA02517 313595004163 HTH-like domain; Region: HTH_21; pfam13276 313595004164 Integrase core domain; Region: rve; pfam00665 313595004165 Integrase core domain; Region: rve_3; pfam13683 313595004166 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 313595004167 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 313595004168 N-terminal plug; other site 313595004169 ligand-binding site [chemical binding]; other site 313595004170 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 313595004171 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313595004172 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313595004173 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 313595004174 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 313595004175 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313595004176 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313595004177 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 313595004178 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 313595004179 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 313595004180 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 313595004181 Flavodoxin; Region: Flavodoxin_1; pfam00258 313595004182 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 313595004183 FAD binding pocket [chemical binding]; other site 313595004184 conserved FAD binding motif [chemical binding]; other site 313595004185 phosphate binding motif [ion binding]; other site 313595004186 beta-alpha-beta structure motif; other site 313595004187 NAD binding pocket [chemical binding]; other site 313595004188 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 313595004189 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 313595004190 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595004191 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 313595004192 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 313595004193 DNA binding residues [nucleotide binding] 313595004194 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 313595004195 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 313595004196 cofactor binding site; other site 313595004197 DNA binding site [nucleotide binding] 313595004198 substrate interaction site [chemical binding]; other site 313595004199 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 313595004200 active site 313595004201 8-oxo-dGMP binding site [chemical binding]; other site 313595004202 nudix motif; other site 313595004203 metal binding site [ion binding]; metal-binding site 313595004204 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 313595004205 active site 313595004206 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595004207 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 313595004208 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 313595004209 Coenzyme A binding pocket [chemical binding]; other site 313595004210 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 313595004211 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 313595004212 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 313595004213 S-adenosylmethionine binding site [chemical binding]; other site 313595004214 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595004215 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 313595004216 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595004217 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 313595004218 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 313595004219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595004220 Coenzyme A binding pocket [chemical binding]; other site 313595004221 ribonuclease R; Region: RNase_R; TIGR02063 313595004222 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 313595004223 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 313595004224 RNB domain; Region: RNB; pfam00773 313595004225 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 313595004226 RNA binding site [nucleotide binding]; other site 313595004227 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 313595004228 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 313595004229 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 313595004230 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 313595004231 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 313595004232 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313595004233 C-terminal peptidase (prc); Region: prc; TIGR00225 313595004234 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 313595004235 protein binding site [polypeptide binding]; other site 313595004236 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 313595004237 Catalytic dyad [active] 313595004238 ribonuclease P; Reviewed; Region: rnpA; PRK01903 313595004239 Phosphoglycerate kinase; Region: PGK; pfam00162 313595004240 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 313595004241 substrate binding site [chemical binding]; other site 313595004242 hinge regions; other site 313595004243 ADP binding site [chemical binding]; other site 313595004244 catalytic site [active] 313595004245 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 313595004246 DNA polymerase III subunit delta'; Validated; Region: PRK08485 313595004247 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 313595004248 periplasmic chaperone; Provisional; Region: PRK10780 313595004249 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 313595004250 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595004251 Methyltransferase domain; Region: Methyltransf_23; pfam13489 313595004252 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 313595004253 S-adenosylmethionine binding site [chemical binding]; other site 313595004254 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 313595004255 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 313595004256 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 313595004257 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 313595004258 Winged helix-turn helix; Region: HTH_29; pfam13551 313595004259 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595004260 Homeodomain-like domain; Region: HTH_32; pfam13565 313595004261 Winged helix-turn helix; Region: HTH_33; pfam13592 313595004262 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595004263 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595004264 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 313595004265 Sodium Bile acid symporter family; Region: SBF; cl17470 313595004266 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 313595004267 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 313595004268 metal ion-dependent adhesion site (MIDAS); other site 313595004269 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595004270 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 313595004271 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 313595004272 HIGH motif; other site 313595004273 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 313595004274 active site 313595004275 KMSKS motif; other site 313595004276 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 313595004277 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 313595004278 YtxH-like protein; Region: YtxH; pfam12732 313595004279 glycyl-tRNA synthetase; Provisional; Region: PRK04173 313595004280 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 313595004281 motif 1; other site 313595004282 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 313595004283 active site 313595004284 motif 2; other site 313595004285 motif 3; other site 313595004286 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 313595004287 anticodon binding site; other site 313595004288 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 313595004289 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313595004290 active site 313595004291 Bacterial Ig-like domain; Region: Big_5; pfam13205 313595004292 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 313595004293 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 313595004294 putative active site [active] 313595004295 putative NTP binding site [chemical binding]; other site 313595004296 putative nucleic acid binding site [nucleotide binding]; other site 313595004297 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 313595004298 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 313595004299 non-specific DNA binding site [nucleotide binding]; other site 313595004300 salt bridge; other site 313595004301 sequence-specific DNA binding site [nucleotide binding]; other site 313595004302 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313595004303 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313595004304 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 313595004305 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595004306 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 313595004307 ligand binding site [chemical binding]; other site 313595004308 flexible hinge region; other site 313595004309 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 313595004310 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 313595004311 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 313595004312 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595004313 Winged helix-turn helix; Region: HTH_29; pfam13551 313595004314 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595004315 Homeodomain-like domain; Region: HTH_32; pfam13565 313595004316 Winged helix-turn helix; Region: HTH_33; pfam13592 313595004317 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595004318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595004319 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 313595004320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 313595004321 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 313595004322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 313595004323 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 313595004324 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 313595004325 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 313595004326 DHH family; Region: DHH; pfam01368 313595004327 DHHA1 domain; Region: DHHA1; pfam02272 313595004328 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 313595004329 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 313595004330 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313595004331 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313595004332 ligand binding site [chemical binding]; other site 313595004333 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 313595004334 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 313595004335 substrate-cofactor binding pocket; other site 313595004336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595004337 catalytic residue [active] 313595004338 putative recombination protein RecB; Provisional; Region: PRK13909 313595004339 Family description; Region: UvrD_C_2; pfam13538 313595004340 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 313595004341 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 313595004342 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 313595004343 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 313595004344 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 313595004345 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 313595004346 putative active site [active] 313595004347 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 313595004348 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 313595004349 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 313595004350 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 313595004351 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 313595004352 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313595004353 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 313595004354 putative active site [active] 313595004355 putative metal binding site [ion binding]; other site 313595004356 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 313595004357 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313595004358 Zn2+ binding site [ion binding]; other site 313595004359 Mg2+ binding site [ion binding]; other site 313595004360 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313595004361 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 313595004362 putative acyl-acceptor binding pocket; other site 313595004363 Disulphide isomerase; Region: Disulph_isomer; pfam06491 313595004364 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 313595004365 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 313595004366 putative metal binding site [ion binding]; other site 313595004367 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 313595004368 HSP70 interaction site [polypeptide binding]; other site 313595004369 Recombination protein O N terminal; Region: RecO_N; pfam11967 313595004370 DNA repair protein RecO; Region: reco; TIGR00613 313595004371 Recombination protein O C terminal; Region: RecO_C; pfam02565 313595004372 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595004373 glutamate dehydrogenase; Provisional; Region: PRK09414 313595004374 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 313595004375 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 313595004376 NAD(P) binding site [chemical binding]; other site 313595004377 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 313595004378 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 313595004379 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 313595004380 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313595004381 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 313595004382 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 313595004383 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 313595004384 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 313595004385 carboxyltransferase (CT) interaction site; other site 313595004386 biotinylation site [posttranslational modification]; other site 313595004387 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 313595004388 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 313595004389 dimer interface [polypeptide binding]; other site 313595004390 active site 313595004391 CoA binding pocket [chemical binding]; other site 313595004392 aldehyde dehydrogenase family 7 member; Region: PLN02315 313595004393 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 313595004394 tetrameric interface [polypeptide binding]; other site 313595004395 NAD binding site [chemical binding]; other site 313595004396 catalytic residues [active] 313595004397 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 313595004398 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 313595004399 active site 313595004400 Zn binding site [ion binding]; other site 313595004401 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 313595004402 active site 313595004403 Zn binding site [ion binding]; other site 313595004404 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 313595004405 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 313595004406 Walker A/P-loop; other site 313595004407 ATP binding site [chemical binding]; other site 313595004408 Q-loop/lid; other site 313595004409 ABC transporter signature motif; other site 313595004410 Walker B; other site 313595004411 D-loop; other site 313595004412 H-loop/switch region; other site 313595004413 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 313595004414 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 313595004415 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 313595004416 ATP synthase A chain; Region: ATP-synt_A; cl00413 313595004417 ATP synthase subunit C; Region: ATP-synt_C; cl00466 313595004418 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 313595004419 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 313595004420 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 313595004421 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 313595004422 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 313595004423 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 313595004424 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 313595004425 beta subunit interaction interface [polypeptide binding]; other site 313595004426 Walker A motif; other site 313595004427 ATP binding site [chemical binding]; other site 313595004428 Walker B motif; other site 313595004429 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 313595004430 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 313595004431 core domain interface [polypeptide binding]; other site 313595004432 delta subunit interface [polypeptide binding]; other site 313595004433 epsilon subunit interface [polypeptide binding]; other site 313595004434 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595004435 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595004436 Winged helix-turn helix; Region: HTH_29; pfam13551 313595004437 Homeodomain-like domain; Region: HTH_23; pfam13384 313595004438 Winged helix-turn helix; Region: HTH_33; pfam13592 313595004439 putative peptidase; Provisional; Region: PRK11649 313595004440 Peptidase family M23; Region: Peptidase_M23; pfam01551 313595004441 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313595004442 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595004443 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313595004444 Divergent AAA domain; Region: AAA_4; pfam04326 313595004445 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313595004446 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 313595004447 active site 313595004448 metal binding site [ion binding]; metal-binding site 313595004449 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 313595004450 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 313595004451 TPP-binding site; other site 313595004452 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 313595004453 PYR/PP interface [polypeptide binding]; other site 313595004454 dimer interface [polypeptide binding]; other site 313595004455 TPP binding site [chemical binding]; other site 313595004456 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313595004457 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 313595004458 nucleoside/Zn binding site; other site 313595004459 dimer interface [polypeptide binding]; other site 313595004460 catalytic motif [active] 313595004461 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 313595004462 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 313595004463 non-specific DNA binding site [nucleotide binding]; other site 313595004464 salt bridge; other site 313595004465 sequence-specific DNA binding site [nucleotide binding]; other site 313595004466 Domain of unknown function (DUF955); Region: DUF955; pfam06114 313595004467 Beta protein; Region: Beta_protein; pfam14350 313595004468 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 313595004469 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595004470 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 313595004471 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 313595004472 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 313595004473 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595004474 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595004475 ABC transporter; Region: ABC_tran_2; pfam12848 313595004476 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595004477 Methyltransferase domain; Region: Methyltransf_24; pfam13578 313595004478 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 313595004479 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 313595004480 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 313595004481 ATP binding site [chemical binding]; other site 313595004482 putative Mg++ binding site [ion binding]; other site 313595004483 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 313595004484 nucleotide binding region [chemical binding]; other site 313595004485 ATP-binding site [chemical binding]; other site 313595004486 TRCF domain; Region: TRCF; pfam03461 313595004487 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 313595004488 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 313595004489 NADP binding site [chemical binding]; other site 313595004490 active site 313595004491 putative substrate binding site [chemical binding]; other site 313595004492 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 313595004493 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 313595004494 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 313595004495 substrate binding site; other site 313595004496 tetramer interface; other site 313595004497 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 313595004498 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 313595004499 NAD binding site [chemical binding]; other site 313595004500 substrate binding site [chemical binding]; other site 313595004501 homodimer interface [polypeptide binding]; other site 313595004502 active site 313595004503 GH3 auxin-responsive promoter; Region: GH3; pfam03321 313595004504 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313595004505 Peptidase family M23; Region: Peptidase_M23; pfam01551 313595004506 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 313595004507 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 313595004508 putative active site [active] 313595004509 putative metal binding site [ion binding]; other site 313595004510 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313595004511 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 313595004512 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313595004513 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 313595004514 sequence-specific DNA binding site [nucleotide binding]; other site 313595004515 salt bridge; other site 313595004516 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 313595004517 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 313595004518 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 313595004519 Walker A/P-loop; other site 313595004520 ATP binding site [chemical binding]; other site 313595004521 Q-loop/lid; other site 313595004522 ABC transporter signature motif; other site 313595004523 Walker B; other site 313595004524 D-loop; other site 313595004525 H-loop/switch region; other site 313595004526 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 313595004527 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 313595004528 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 313595004529 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 313595004530 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313595004531 Zn binding site [ion binding]; other site 313595004532 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 313595004533 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 313595004534 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 313595004535 dimer interface [polypeptide binding]; other site 313595004536 putative radical transfer pathway; other site 313595004537 diiron center [ion binding]; other site 313595004538 tyrosyl radical; other site 313595004539 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 313595004540 ATP cone domain; Region: ATP-cone; pfam03477 313595004541 Class I ribonucleotide reductase; Region: RNR_I; cd01679 313595004542 active site 313595004543 dimer interface [polypeptide binding]; other site 313595004544 catalytic residues [active] 313595004545 effector binding site; other site 313595004546 R2 peptide binding site; other site 313595004547 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 313595004548 Penicillinase repressor; Region: Pencillinase_R; pfam03965 313595004549 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 313595004550 PGAP1-like protein; Region: PGAP1; pfam07819 313595004551 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595004552 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595004553 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 313595004554 proline aminopeptidase P II; Provisional; Region: PRK10879 313595004555 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 313595004556 active site 313595004557 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 313595004558 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 313595004559 putative Iron-sulfur protein interface [polypeptide binding]; other site 313595004560 proximal heme binding site [chemical binding]; other site 313595004561 distal heme binding site [chemical binding]; other site 313595004562 putative dimer interface [polypeptide binding]; other site 313595004563 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 313595004564 L-aspartate oxidase; Provisional; Region: PRK06175 313595004565 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 313595004566 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 313595004567 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 313595004568 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 313595004569 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595004570 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595004571 Winged helix-turn helix; Region: HTH_29; pfam13551 313595004572 Homeodomain-like domain; Region: HTH_23; pfam13384 313595004573 Winged helix-turn helix; Region: HTH_33; pfam13592 313595004574 MG2 domain; Region: A2M_N; pfam01835 313595004575 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 313595004576 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313595004577 4Fe-4S binding domain; Region: Fer4_5; pfam12801 313595004578 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 313595004579 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 313595004580 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 313595004581 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 313595004582 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 313595004583 dimer interface [polypeptide binding]; other site 313595004584 active site 313595004585 heme binding site [chemical binding]; other site 313595004586 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 313595004587 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 313595004588 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 313595004589 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 313595004590 dimer interface [polypeptide binding]; other site 313595004591 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 313595004592 active site 313595004593 Fe binding site [ion binding]; other site 313595004594 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 313595004595 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 313595004596 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 313595004597 active site 313595004598 nucleophile elbow; other site 313595004599 Surface antigen; Region: Bac_surface_Ag; pfam01103 313595004600 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 313595004601 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 313595004602 GIY-YIG motif/motif A; other site 313595004603 active site 313595004604 catalytic site [active] 313595004605 putative DNA binding site [nucleotide binding]; other site 313595004606 metal binding site [ion binding]; metal-binding site 313595004607 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 313595004608 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 313595004609 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 313595004610 active site 313595004611 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313595004612 dimer interface [polypeptide binding]; other site 313595004613 substrate binding site [chemical binding]; other site 313595004614 catalytic residues [active] 313595004615 thymidine kinase; Provisional; Region: PRK04296 313595004616 Predicted methyltransferases [General function prediction only]; Region: COG0313 313595004617 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 313595004618 putative SAM binding site [chemical binding]; other site 313595004619 putative homodimer interface [polypeptide binding]; other site 313595004620 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 313595004621 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 313595004622 domain interfaces; other site 313595004623 active site 313595004624 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 313595004625 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 313595004626 dimerization interface [polypeptide binding]; other site 313595004627 active site 313595004628 metal binding site [ion binding]; metal-binding site 313595004629 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 313595004630 dsRNA binding site [nucleotide binding]; other site 313595004631 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 313595004632 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 313595004633 dimer interface [polypeptide binding]; other site 313595004634 active site 313595004635 acyl carrier protein; Provisional; Region: acpP; PRK00982 313595004636 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 313595004637 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 313595004638 active site 313595004639 substrate binding site [chemical binding]; other site 313595004640 cosubstrate binding site; other site 313595004641 catalytic site [active] 313595004642 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 313595004643 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 313595004644 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 313595004645 active site 313595004646 RNA/DNA hybrid binding site [nucleotide binding]; other site 313595004647 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313595004648 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 313595004649 substrate binding site [chemical binding]; other site 313595004650 ATP binding site [chemical binding]; other site 313595004651 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 313595004652 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 313595004653 active site 313595004654 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313595004655 active site 313595004656 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313595004657 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 313595004658 putative NAD(P) binding site [chemical binding]; other site 313595004659 active site 313595004660 putative substrate binding site [chemical binding]; other site 313595004661 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313595004662 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313595004663 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 313595004664 active site 313595004665 substrate binding site [chemical binding]; other site 313595004666 trimer interface [polypeptide binding]; other site 313595004667 CoA binding site [chemical binding]; other site 313595004668 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 313595004669 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313595004670 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 313595004671 active site 313595004672 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313595004673 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 313595004674 putative ADP-binding pocket [chemical binding]; other site 313595004675 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 313595004676 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 313595004677 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 313595004678 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 313595004679 AAA domain; Region: AAA_14; pfam13173 313595004680 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 313595004681 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313595004682 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 313595004683 NAD binding site [chemical binding]; other site 313595004684 putative substrate binding site 2 [chemical binding]; other site 313595004685 putative substrate binding site 1 [chemical binding]; other site 313595004686 active site 313595004687 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 313595004688 Bacterial sugar transferase; Region: Bac_transf; pfam02397 313595004689 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595004690 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595004691 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 313595004692 binding surface 313595004693 TPR motif; other site 313595004694 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595004695 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595004696 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 313595004697 binding surface 313595004698 TPR motif; other site 313595004699 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595004700 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595004701 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595004702 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 313595004703 dimer interface [polypeptide binding]; other site 313595004704 phosphorylation site [posttranslational modification] 313595004705 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595004706 ATP binding site [chemical binding]; other site 313595004707 Mg2+ binding site [ion binding]; other site 313595004708 G-X-G motif; other site 313595004709 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 313595004710 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 313595004711 active site 313595004712 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 313595004713 Isochorismatase family; Region: Isochorismatase; pfam00857 313595004714 catalytic triad [active] 313595004715 metal binding site [ion binding]; metal-binding site 313595004716 conserved cis-peptide bond; other site 313595004717 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 313595004718 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 313595004719 ATP binding site [chemical binding]; other site 313595004720 putative Mg++ binding site [ion binding]; other site 313595004721 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 313595004722 nucleotide binding region [chemical binding]; other site 313595004723 ATP-binding site [chemical binding]; other site 313595004724 DEAD/H associated; Region: DEAD_assoc; pfam08494 313595004725 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313595004726 ferrochelatase; Reviewed; Region: hemH; PRK00035 313595004727 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 313595004728 C-terminal domain interface [polypeptide binding]; other site 313595004729 active site 313595004730 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 313595004731 active site 313595004732 N-terminal domain interface [polypeptide binding]; other site 313595004733 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 313595004734 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 313595004735 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 313595004736 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595004737 HAMP domain; Region: HAMP; pfam00672 313595004738 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 313595004739 dimer interface [polypeptide binding]; other site 313595004740 phosphorylation site [posttranslational modification] 313595004741 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595004742 ATP binding site [chemical binding]; other site 313595004743 Mg2+ binding site [ion binding]; other site 313595004744 G-X-G motif; other site 313595004745 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 313595004746 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 313595004747 substrate binding site [chemical binding]; other site 313595004748 oxyanion hole (OAH) forming residues; other site 313595004749 trimer interface [polypeptide binding]; other site 313595004750 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 313595004751 dimer interface [polypeptide binding]; other site 313595004752 allosteric magnesium binding site [ion binding]; other site 313595004753 active site 313595004754 aspartate-rich active site metal binding site; other site 313595004755 Schiff base residues; other site 313595004756 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 313595004757 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 313595004758 substrate binding site [chemical binding]; other site 313595004759 active site 313595004760 hypothetical protein; Provisional; Region: PRK08201 313595004761 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 313595004762 metal binding site [ion binding]; metal-binding site 313595004763 putative dimer interface [polypeptide binding]; other site 313595004764 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 313595004765 Bacterial PH domain; Region: DUF304; pfam03703 313595004766 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 313595004767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595004768 active site 313595004769 phosphorylation site [posttranslational modification] 313595004770 intermolecular recognition site; other site 313595004771 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313595004772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595004773 active site 313595004774 phosphorylation site [posttranslational modification] 313595004775 intermolecular recognition site; other site 313595004776 dimerization interface [polypeptide binding]; other site 313595004777 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 313595004778 ATP binding site [chemical binding]; other site 313595004779 Walker B motif; other site 313595004780 Domain of Unknown Function with PDB structure (DUF3865); Region: DUF3865; pfam12981 313595004781 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 313595004782 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 313595004783 Walker A/P-loop; other site 313595004784 ATP binding site [chemical binding]; other site 313595004785 Q-loop/lid; other site 313595004786 ABC transporter signature motif; other site 313595004787 Walker B; other site 313595004788 D-loop; other site 313595004789 H-loop/switch region; other site 313595004790 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 313595004791 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 313595004792 S-adenosylmethionine binding site [chemical binding]; other site 313595004793 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 313595004794 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 313595004795 dimer interface [polypeptide binding]; other site 313595004796 conserved gate region; other site 313595004797 putative PBP binding loops; other site 313595004798 ABC-ATPase subunit interface; other site 313595004799 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 313595004800 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 313595004801 substrate binding pocket [chemical binding]; other site 313595004802 membrane-bound complex binding site; other site 313595004803 hinge residues; other site 313595004804 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 313595004805 Winged helix-turn helix; Region: HTH_29; pfam13551 313595004806 Homeodomain-like domain; Region: HTH_23; pfam13384 313595004807 Winged helix-turn helix; Region: HTH_33; pfam13592 313595004808 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595004809 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595004810 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 313595004811 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 313595004812 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 313595004813 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 313595004814 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 313595004815 active site 313595004816 metal binding site [ion binding]; metal-binding site 313595004817 flavoprotein, HI0933 family; Region: TIGR00275 313595004818 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 313595004819 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 313595004820 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 313595004821 PA/protease or protease-like domain interface [polypeptide binding]; other site 313595004822 Fungalysin metallopeptidase (M36); Region: Peptidase_M36; pfam02128 313595004823 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 313595004824 Zn binding site [ion binding]; other site 313595004825 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595004826 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 313595004827 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595004828 Walker A/P-loop; other site 313595004829 ATP binding site [chemical binding]; other site 313595004830 ABC transporter signature motif; other site 313595004831 Walker B; other site 313595004832 D-loop; other site 313595004833 H-loop/switch region; other site 313595004834 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cl00236 313595004835 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 313595004836 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 313595004837 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 313595004838 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313595004839 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 313595004840 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595004841 purine nucleoside phosphorylase; Provisional; Region: PRK08202 313595004842 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 313595004843 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 313595004844 active site residue [active] 313595004845 Predicted kinase [General function prediction only]; Region: COG4857; cl17281 313595004846 Phosphotransferase enzyme family; Region: APH; pfam01636 313595004847 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 313595004848 active site 313595004849 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 313595004850 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 313595004851 Walker A/P-loop; other site 313595004852 ATP binding site [chemical binding]; other site 313595004853 Q-loop/lid; other site 313595004854 ABC transporter signature motif; other site 313595004855 Walker B; other site 313595004856 D-loop; other site 313595004857 H-loop/switch region; other site 313595004858 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 313595004859 dimer interface [polypeptide binding]; other site 313595004860 conserved gate region; other site 313595004861 putative PBP binding loops; other site 313595004862 ABC-ATPase subunit interface; other site 313595004863 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 313595004864 dimer interface [polypeptide binding]; other site 313595004865 conserved gate region; other site 313595004866 putative PBP binding loops; other site 313595004867 ABC-ATPase subunit interface; other site 313595004868 hypothetical protein; Provisional; Region: PRK11622 313595004869 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 313595004870 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595004871 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 313595004872 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 313595004873 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 313595004874 Cytochrome c; Region: Cytochrom_C; pfam00034 313595004875 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 313595004876 heme-binding residues [chemical binding]; other site 313595004877 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 313595004878 molybdopterin cofactor binding site; other site 313595004879 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 313595004880 4Fe-4S binding domain; Region: Fer4; cl02805 313595004881 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 313595004882 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 313595004883 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 313595004884 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 313595004885 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 313595004886 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 313595004887 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 313595004888 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 313595004889 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 313595004890 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 313595004891 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 313595004892 Walker A motif; other site 313595004893 ATP binding site [chemical binding]; other site 313595004894 Walker B motif; other site 313595004895 arginine finger; other site 313595004896 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 313595004897 Cytochrome P450; Region: p450; cl12078 313595004898 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 313595004899 Alkaline and neutral invertase; Region: Glyco_hydro_100; cl17340 313595004900 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313595004901 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 313595004902 substrate binding site [chemical binding]; other site 313595004903 ATP binding site [chemical binding]; other site 313595004904 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 313595004905 Malic enzyme, N-terminal domain; Region: malic; pfam00390 313595004906 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 313595004907 putative NAD(P) binding site [chemical binding]; other site 313595004908 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 313595004909 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 313595004910 RuvA N terminal domain; Region: RuvA_N; pfam01330 313595004911 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 313595004912 cell surface protein SprA; Region: surface_SprA; TIGR04189 313595004913 Motility related/secretion protein; Region: SprA_N; pfam14349 313595004914 Motility related/secretion protein; Region: SprA_N; pfam14349 313595004915 Motility related/secretion protein; Region: SprA_N; pfam14349 313595004916 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 313595004917 lipoyl attachment site [posttranslational modification]; other site 313595004918 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 313595004919 Winged helix-turn helix; Region: HTH_29; pfam13551 313595004920 Homeodomain-like domain; Region: HTH_23; pfam13384 313595004921 Winged helix-turn helix; Region: HTH_33; pfam13592 313595004922 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595004923 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595004924 Polyprenyltransferase (cytochrome oxidase assembly factor) [Posttranslational modification, protein turnover, chaperones]; Region: CyoE; COG0109 313595004925 UbiA prenyltransferase family; Region: UbiA; pfam01040 313595004926 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; cd00386 313595004927 Subunit I/III interface [polypeptide binding]; other site 313595004928 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 313595004929 Subunit I/III interface [polypeptide binding]; other site 313595004930 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 313595004931 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 313595004932 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 313595004933 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 313595004934 Cu(I) binding site [ion binding]; other site 313595004935 Protein of unknown function (DUF420); Region: DUF420; pfam04238 313595004936 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313595004937 ArsC family; Region: ArsC; pfam03960 313595004938 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 313595004939 EamA-like transporter family; Region: EamA; pfam00892 313595004940 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 313595004941 Fasciclin domain; Region: Fasciclin; pfam02469 313595004942 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 313595004943 putative ligand binding site [chemical binding]; other site 313595004944 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 313595004945 dimerization interface [polypeptide binding]; other site 313595004946 putative DNA binding site [nucleotide binding]; other site 313595004947 putative Zn2+ binding site [ion binding]; other site 313595004948 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 313595004949 arsenical-resistance protein; Region: acr3; TIGR00832 313595004950 Low molecular weight phosphatase family; Region: LMWPc; cl00105 313595004951 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 313595004952 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313595004953 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313595004954 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595004955 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313595004956 Walker A/P-loop; other site 313595004957 ATP binding site [chemical binding]; other site 313595004958 Q-loop/lid; other site 313595004959 ABC transporter signature motif; other site 313595004960 Walker B; other site 313595004961 D-loop; other site 313595004962 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 313595004963 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313595004964 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595004965 Outer membrane efflux protein; Region: OEP; pfam02321 313595004966 Outer membrane efflux protein; Region: OEP; pfam02321 313595004967 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 313595004968 Lumazine binding domain; Region: Lum_binding; pfam00677 313595004969 Lumazine binding domain; Region: Lum_binding; pfam00677 313595004970 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 313595004971 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 313595004972 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 313595004973 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 313595004974 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595004975 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 313595004976 DNA-binding site [nucleotide binding]; DNA binding site 313595004977 RNA-binding motif; other site 313595004978 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 313595004979 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 313595004980 Cl- selectivity filter; other site 313595004981 Cl- binding residues [ion binding]; other site 313595004982 pore gating glutamate residue; other site 313595004983 dimer interface [polypeptide binding]; other site 313595004984 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 313595004985 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 313595004986 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 313595004987 dimer interface [polypeptide binding]; other site 313595004988 anticodon binding site; other site 313595004989 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 313595004990 homodimer interface [polypeptide binding]; other site 313595004991 motif 1; other site 313595004992 active site 313595004993 motif 2; other site 313595004994 GAD domain; Region: GAD; pfam02938 313595004995 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 313595004996 active site 313595004997 motif 3; other site 313595004998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313595004999 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 313595005000 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 313595005001 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 313595005002 RNA binding site [nucleotide binding]; other site 313595005003 active site 313595005004 Bacitracin resistance protein BacA; Region: BacA; pfam02673 313595005005 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 313595005006 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 313595005007 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 313595005008 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595005009 active site 313595005010 HIGH motif; other site 313595005011 nucleotide binding site [chemical binding]; other site 313595005012 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595005013 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 313595005014 putative active site [active] 313595005015 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 313595005016 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 313595005017 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595005018 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595005019 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595005020 active site 313595005021 KMSKS motif; other site 313595005022 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 313595005023 tRNA binding surface [nucleotide binding]; other site 313595005024 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 313595005025 DNA polymerase I; Provisional; Region: PRK05755 313595005026 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 313595005027 active site 313595005028 metal binding site 1 [ion binding]; metal-binding site 313595005029 putative 5' ssDNA interaction site; other site 313595005030 metal binding site 3; metal-binding site 313595005031 metal binding site 2 [ion binding]; metal-binding site 313595005032 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 313595005033 putative DNA binding site [nucleotide binding]; other site 313595005034 putative metal binding site [ion binding]; other site 313595005035 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 313595005036 active site 313595005037 catalytic site [active] 313595005038 substrate binding site [chemical binding]; other site 313595005039 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 313595005040 active site 313595005041 DNA binding site [nucleotide binding] 313595005042 catalytic site [active] 313595005043 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 313595005044 Helix-turn-helix domain; Region: HTH_38; pfam13936 313595005045 Integrase core domain; Region: rve; pfam00665 313595005046 phosphodiesterase YaeI; Provisional; Region: PRK11340 313595005047 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 313595005048 putative active site [active] 313595005049 putative metal binding site [ion binding]; other site 313595005050 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 313595005051 Dual-action HEIGH metallo-peptidase; Region: Peptidase_M57; pfam12388 313595005052 Major royal jelly protein; Region: MRJP; pfam03022 313595005053 GLPGLI family protein; Region: GLPGLI; TIGR01200 313595005054 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595005055 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 313595005056 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313595005057 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313595005058 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 313595005059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595005060 ABC transporter signature motif; other site 313595005061 Walker B; other site 313595005062 D-loop; other site 313595005063 H-loop/switch region; other site 313595005064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595005065 Walker A/P-loop; other site 313595005066 ATP binding site [chemical binding]; other site 313595005067 Q-loop/lid; other site 313595005068 ABC transporter signature motif; other site 313595005069 Walker B; other site 313595005070 D-loop; other site 313595005071 H-loop/switch region; other site 313595005072 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 313595005073 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 313595005074 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595005075 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 313595005076 Abi-like protein; Region: Abi_2; pfam07751 313595005077 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 313595005078 pantothenate kinase; Reviewed; Region: PRK13320 313595005079 photosystem I assembly protein Ycf3; Provisional; Region: PRK02603 313595005080 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 313595005081 binding surface 313595005082 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 313595005083 Domain of unknown function DUF21; Region: DUF21; pfam01595 313595005084 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 313595005085 Transporter associated domain; Region: CorC_HlyC; smart01091 313595005086 SurA N-terminal domain; Region: SurA_N_3; cl07813 313595005087 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 313595005088 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 313595005089 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 313595005090 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 313595005091 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 313595005092 homodimer interface [polypeptide binding]; other site 313595005093 catalytic residues [active] 313595005094 NAD binding site [chemical binding]; other site 313595005095 substrate binding pocket [chemical binding]; other site 313595005096 flexible flap; other site 313595005097 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 313595005098 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595005099 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595005100 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 313595005101 POT family; Region: PTR2; cl17359 313595005102 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 313595005103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595005104 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595005105 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 313595005106 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595005107 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 313595005108 Competence protein; Region: Competence; pfam03772 313595005109 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 313595005110 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 313595005111 NlpC/P60 family; Region: NLPC_P60; pfam00877 313595005112 Chain length determinant protein; Region: Wzz; cl15801 313595005113 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 313595005114 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 313595005115 AAA domain; Region: AAA_31; pfam13614 313595005116 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 313595005117 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 313595005118 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 313595005119 SLBB domain; Region: SLBB; pfam10531 313595005120 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 313595005121 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 313595005122 NAD(P) binding site [chemical binding]; other site 313595005123 homodimer interface [polypeptide binding]; other site 313595005124 substrate binding site [chemical binding]; other site 313595005125 active site 313595005126 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 313595005127 GAF domain; Region: GAF_2; pfam13185 313595005128 exosortase family protein XrtF; Region: exoso_Fjoh_1448; TIGR04128 313595005129 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 313595005130 exosortase F-associated protein; Region: flavo_near_exo; TIGR04127 313595005131 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313595005132 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313595005133 Outer membrane efflux protein; Region: OEP; pfam02321 313595005134 Outer membrane efflux protein; Region: OEP; pfam02321 313595005135 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 313595005136 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595005137 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 313595005138 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 313595005139 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 313595005140 metal-binding site [ion binding] 313595005141 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 313595005142 active site 313595005143 DNA polymerase IV; Validated; Region: PRK02406 313595005144 DNA binding site [nucleotide binding] 313595005145 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 313595005146 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 313595005147 Walker A/P-loop; other site 313595005148 ATP binding site [chemical binding]; other site 313595005149 Q-loop/lid; other site 313595005150 ABC transporter signature motif; other site 313595005151 Walker B; other site 313595005152 D-loop; other site 313595005153 H-loop/switch region; other site 313595005154 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 313595005155 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 313595005156 Walker A/P-loop; other site 313595005157 ATP binding site [chemical binding]; other site 313595005158 Q-loop/lid; other site 313595005159 ABC transporter signature motif; other site 313595005160 Walker B; other site 313595005161 D-loop; other site 313595005162 H-loop/switch region; other site 313595005163 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 313595005164 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 313595005165 active site 313595005166 catalytic site [active] 313595005167 substrate binding site [chemical binding]; other site 313595005168 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313595005169 Peptidase family M23; Region: Peptidase_M23; pfam01551 313595005170 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 313595005171 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 313595005172 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 313595005173 RimM N-terminal domain; Region: RimM; pfam01782 313595005174 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 313595005175 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 313595005176 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 313595005177 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 313595005178 rod shape-determining protein MreC; Provisional; Region: PRK13922 313595005179 rod shape-determining protein MreC; Region: MreC; pfam04085 313595005180 rod shape-determining protein MreB; Provisional; Region: PRK13927 313595005181 MreB and similar proteins; Region: MreB_like; cd10225 313595005182 nucleotide binding site [chemical binding]; other site 313595005183 Mg binding site [ion binding]; other site 313595005184 putative protofilament interaction site [polypeptide binding]; other site 313595005185 RodZ interaction site [polypeptide binding]; other site 313595005186 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 313595005187 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 313595005188 purine monophosphate binding site [chemical binding]; other site 313595005189 dimer interface [polypeptide binding]; other site 313595005190 putative catalytic residues [active] 313595005191 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 313595005192 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 313595005193 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 313595005194 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 313595005195 CysD dimerization site [polypeptide binding]; other site 313595005196 G1 box; other site 313595005197 putative GEF interaction site [polypeptide binding]; other site 313595005198 GTP/Mg2+ binding site [chemical binding]; other site 313595005199 Switch I region; other site 313595005200 G2 box; other site 313595005201 G3 box; other site 313595005202 Switch II region; other site 313595005203 G4 box; other site 313595005204 G5 box; other site 313595005205 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 313595005206 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 313595005207 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 313595005208 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 313595005209 Active Sites [active] 313595005210 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 313595005211 ligand-binding site [chemical binding]; other site 313595005212 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 313595005213 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 313595005214 active site 313595005215 Protein of unknown function, DUF547; Region: DUF547; pfam04784 313595005216 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 313595005217 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 313595005218 Probable Catalytic site; other site 313595005219 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 313595005220 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 313595005221 RNA binding surface [nucleotide binding]; other site 313595005222 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 313595005223 active site 313595005224 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 313595005225 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 313595005226 dimer interface [polypeptide binding]; other site 313595005227 active site 313595005228 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313595005229 catalytic residues [active] 313595005230 substrate binding site [chemical binding]; other site 313595005231 agmatinase; Region: agmatinase; TIGR01230 313595005232 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 313595005233 putative active site [active] 313595005234 Mn binding site [ion binding]; other site 313595005235 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 313595005236 four helix bundle protein; Region: TIGR02436 313595005237 deoxyhypusine synthase; Region: dhys; TIGR00321 313595005238 Deoxyhypusine synthase; Region: DS; cl00826 313595005239 Deoxyhypusine synthase; Region: DS; cl00826 313595005240 Predicted amidohydrolase [General function prediction only]; Region: COG0388 313595005241 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 313595005242 putative active site [active] 313595005243 catalytic triad [active] 313595005244 putative dimer interface [polypeptide binding]; other site 313595005245 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 313595005246 active site 313595005247 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 313595005248 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 313595005249 23S rRNA interface [nucleotide binding]; other site 313595005250 L3 interface [polypeptide binding]; other site 313595005251 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 313595005252 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 313595005253 rRNA interaction site [nucleotide binding]; other site 313595005254 S8 interaction site; other site 313595005255 putative laminin-1 binding site; other site 313595005256 elongation factor Ts; Provisional; Region: tsf; PRK09377 313595005257 UBA/TS-N domain; Region: UBA; pfam00627 313595005258 Elongation factor TS; Region: EF_TS; pfam00889 313595005259 Elongation factor TS; Region: EF_TS; pfam00889 313595005260 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 313595005261 putative nucleotide binding site [chemical binding]; other site 313595005262 uridine monophosphate binding site [chemical binding]; other site 313595005263 homohexameric interface [polypeptide binding]; other site 313595005264 ribosome recycling factor; Reviewed; Region: frr; PRK00083 313595005265 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 313595005266 hinge region; other site 313595005267 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 313595005268 Protein export membrane protein; Region: SecD_SecF; cl14618 313595005269 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595005270 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 313595005271 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 313595005272 S-adenosylmethionine binding site [chemical binding]; other site 313595005273 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313595005274 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313595005275 active site 313595005276 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 313595005277 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 313595005278 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 313595005279 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 313595005280 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313595005281 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313595005282 NifU-like domain; Region: NifU; cl00484 313595005283 Domain of unknown function DUF59; Region: DUF59; pfam01883 313595005284 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 313595005285 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 313595005286 Walker A motif; other site 313595005287 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 313595005288 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313595005289 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 313595005290 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 313595005291 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 313595005292 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313595005293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595005294 active site 313595005295 phosphorylation site [posttranslational modification] 313595005296 intermolecular recognition site; other site 313595005297 dimerization interface [polypeptide binding]; other site 313595005298 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 313595005299 DNA binding site [nucleotide binding] 313595005300 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595005301 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 313595005302 dimer interface [polypeptide binding]; other site 313595005303 phosphorylation site [posttranslational modification] 313595005304 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595005305 ATP binding site [chemical binding]; other site 313595005306 Mg2+ binding site [ion binding]; other site 313595005307 G-X-G motif; other site 313595005308 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 313595005309 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 313595005310 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 313595005311 S-adenosylmethionine binding site [chemical binding]; other site 313595005312 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 313595005313 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 313595005314 DNA binding site [nucleotide binding] 313595005315 active site 313595005316 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 313595005317 N-acetyl-D-glucosamine binding site [chemical binding]; other site 313595005318 catalytic residue [active] 313595005319 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313595005320 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313595005321 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 313595005322 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 313595005323 FAD binding pocket [chemical binding]; other site 313595005324 FAD binding motif [chemical binding]; other site 313595005325 phosphate binding motif [ion binding]; other site 313595005326 beta-alpha-beta structure motif; other site 313595005327 NAD(p) ribose binding residues [chemical binding]; other site 313595005328 NAD binding pocket [chemical binding]; other site 313595005329 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 313595005330 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 313595005331 catalytic loop [active] 313595005332 iron binding site [ion binding]; other site 313595005333 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 313595005334 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 313595005335 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 313595005336 FeoA domain; Region: FeoA; pfam04023 313595005337 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 313595005338 ZIP Zinc transporter; Region: Zip; pfam02535 313595005339 lipoprotein signal peptidase; Provisional; Region: PRK14788 313595005340 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 313595005341 active site 313595005342 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 313595005343 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595005344 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 313595005345 hydroxyglutarate oxidase; Provisional; Region: PRK11728 313595005346 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 313595005347 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 313595005348 pentamer interface [polypeptide binding]; other site 313595005349 dodecaamer interface [polypeptide binding]; other site 313595005350 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 313595005351 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 313595005352 putative DNA binding site [nucleotide binding]; other site 313595005353 putative Zn2+ binding site [ion binding]; other site 313595005354 AsnC family; Region: AsnC_trans_reg; pfam01037 313595005355 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 313595005356 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 313595005357 active site 313595005358 DNA binding site [nucleotide binding] 313595005359 Int/Topo IB signature motif; other site 313595005360 Helix-turn-helix domain; Region: HTH_17; cl17695 313595005361 Winged helix-turn helix; Region: HTH_29; pfam13551 313595005362 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595005363 Homeodomain-like domain; Region: HTH_32; pfam13565 313595005364 Winged helix-turn helix; Region: HTH_33; pfam13592 313595005365 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595005366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595005367 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 313595005368 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 313595005369 P-type ATPase of unknown pump specificity (type V); Region: P-ATPase-V; TIGR01657 313595005370 Transposase; Region: DEDD_Tnp_IS110; pfam01548 313595005371 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 313595005372 multiple promoter invertase; Provisional; Region: mpi; PRK13413 313595005373 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 313595005374 catalytic residues [active] 313595005375 catalytic nucleophile [active] 313595005376 Presynaptic Site I dimer interface [polypeptide binding]; other site 313595005377 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 313595005378 Synaptic Flat tetramer interface [polypeptide binding]; other site 313595005379 Synaptic Site I dimer interface [polypeptide binding]; other site 313595005380 DNA binding site [nucleotide binding] 313595005381 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 313595005382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 313595005383 ATP binding site [chemical binding]; other site 313595005384 putative Mg++ binding site [ion binding]; other site 313595005385 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 313595005386 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 313595005387 DNA methylase; Region: N6_N4_Mtase; pfam01555 313595005388 DNA methylase; Region: N6_N4_Mtase; pfam01555 313595005389 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 313595005390 non-specific DNA binding site [nucleotide binding]; other site 313595005391 salt bridge; other site 313595005392 sequence-specific DNA binding site [nucleotide binding]; other site 313595005393 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 313595005394 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 313595005395 putative active site [active] 313595005396 putative NTP binding site [chemical binding]; other site 313595005397 putative nucleic acid binding site [nucleotide binding]; other site 313595005398 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 313595005399 Nuclease-related domain; Region: NERD; pfam08378 313595005400 Divergent AAA domain; Region: AAA_4; pfam04326 313595005401 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 313595005402 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595005403 catalytic residues [active] 313595005404 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313595005405 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313595005406 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313595005407 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595005408 Outer membrane efflux protein; Region: OEP; pfam02321 313595005409 Outer membrane efflux protein; Region: OEP; pfam02321 313595005410 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313595005411 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313595005412 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313595005413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595005414 active site 313595005415 phosphorylation site [posttranslational modification] 313595005416 intermolecular recognition site; other site 313595005417 dimerization interface [polypeptide binding]; other site 313595005418 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 313595005419 DNA binding residues [nucleotide binding] 313595005420 dimerization interface [polypeptide binding]; other site 313595005421 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 313595005422 Histidine kinase; Region: HisKA_3; pfam07730 313595005423 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 313595005424 ATP binding site [chemical binding]; other site 313595005425 Mg2+ binding site [ion binding]; other site 313595005426 G-X-G motif; other site 313595005427 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 313595005428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595005429 NAD(P) binding site [chemical binding]; other site 313595005430 active site 313595005431 SnoaL-like domain; Region: SnoaL_2; pfam12680 313595005432 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 313595005433 Amidohydrolase; Region: Amidohydro_4; pfam13147 313595005434 active site 313595005435 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 313595005436 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 313595005437 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595005438 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 313595005439 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 313595005440 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 313595005441 Ion channel; Region: Ion_trans_2; pfam07885 313595005442 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 313595005443 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 313595005444 TPR motif; other site 313595005445 binding surface 313595005446 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 313595005447 binding surface 313595005448 TPR motif; other site 313595005449 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 313595005450 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 313595005451 Penicillinase repressor; Region: Pencillinase_R; pfam03965 313595005452 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 313595005453 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 313595005454 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 313595005455 substrate binding pocket [chemical binding]; other site 313595005456 chain length determination region; other site 313595005457 substrate-Mg2+ binding site; other site 313595005458 catalytic residues [active] 313595005459 aspartate-rich region 1; other site 313595005460 active site lid residues [active] 313595005461 aspartate-rich region 2; other site 313595005462 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 313595005463 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 313595005464 TPP-binding site [chemical binding]; other site 313595005465 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 313595005466 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 313595005467 E3 interaction surface; other site 313595005468 lipoyl attachment site [posttranslational modification]; other site 313595005469 e3 binding domain; Region: E3_binding; pfam02817 313595005470 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 313595005471 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313595005472 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 313595005473 RES domain; Region: RES; pfam08808 313595005474 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 313595005475 catalytic motif [active] 313595005476 Catalytic residue [active] 313595005477 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 313595005478 active site 313595005479 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 313595005480 active site 313595005481 homodimer interface [polypeptide binding]; other site 313595005482 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 313595005483 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 313595005484 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313595005485 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 313595005486 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 313595005487 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 313595005488 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 313595005489 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313595005490 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313595005491 active site 313595005492 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 313595005493 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 313595005494 putative dimer interface [polypeptide binding]; other site 313595005495 putative anticodon binding site; other site 313595005496 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 313595005497 homodimer interface [polypeptide binding]; other site 313595005498 motif 1; other site 313595005499 motif 2; other site 313595005500 active site 313595005501 motif 3; other site 313595005502 FeoA domain; Region: FeoA; pfam04023 313595005503 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 313595005504 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 313595005505 G1 box; other site 313595005506 GTP/Mg2+ binding site [chemical binding]; other site 313595005507 Switch I region; other site 313595005508 G2 box; other site 313595005509 G3 box; other site 313595005510 Switch II region; other site 313595005511 G4 box; other site 313595005512 G5 box; other site 313595005513 Nucleoside recognition; Region: Gate; pfam07670 313595005514 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 313595005515 Nucleoside recognition; Region: Gate; pfam07670 313595005516 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 313595005517 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 313595005518 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 313595005519 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 313595005520 putative active site [active] 313595005521 Zn binding site [ion binding]; other site 313595005522 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 313595005523 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313595005524 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 313595005525 tellurium resistance terB-like protein; Region: terB_like; cd07177 313595005526 metal binding site [ion binding]; metal-binding site 313595005527 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 313595005528 AMP binding site [chemical binding]; other site 313595005529 metal binding site [ion binding]; metal-binding site 313595005530 active site 313595005531 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 313595005532 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595005533 Coenzyme A binding pocket [chemical binding]; other site 313595005534 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 313595005535 nucleotide binding site [chemical binding]; other site 313595005536 substrate binding site [chemical binding]; other site 313595005537 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 313595005538 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 313595005539 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 313595005540 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 313595005541 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 313595005542 DXD motif; other site 313595005543 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 313595005544 Ligand binding site; other site 313595005545 Putative Catalytic site; other site 313595005546 DXD motif; other site 313595005547 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595005548 RNA polymerase sigma factor SigL; Provisional; Region: PRK09645 313595005549 Anti-sigma-K factor rskA; Region: RskA; pfam10099 313595005550 TspO/MBR family; Region: TspO_MBR; pfam03073 313595005551 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 313595005552 diphosphomevalonate decarboxylase; Region: PLN02407 313595005553 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 313595005554 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 313595005555 UbiA prenyltransferase family; Region: UbiA; pfam01040 313595005556 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 313595005557 Cu(I) binding site [ion binding]; other site 313595005558 RIP metalloprotease RseP; Region: TIGR00054 313595005559 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 313595005560 active site 313595005561 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 313595005562 protein binding site [polypeptide binding]; other site 313595005563 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 313595005564 putative substrate binding region [chemical binding]; other site 313595005565 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 313595005566 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 313595005567 isocitrate dehydrogenase; Validated; Region: PRK09222 313595005568 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 313595005569 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313595005570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595005571 NAD(P) binding site [chemical binding]; other site 313595005572 active site 313595005573 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 313595005574 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 313595005575 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 313595005576 active site 313595005577 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 313595005578 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 313595005579 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 313595005580 metal ion-dependent adhesion site (MIDAS); other site 313595005581 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 313595005582 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 313595005583 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313595005584 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 313595005585 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313595005586 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313595005587 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 313595005588 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 313595005589 active site 313595005590 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 313595005591 active site 313595005592 catalytic motif [active] 313595005593 Zn binding site [ion binding]; other site 313595005594 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 313595005595 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 313595005596 tetramer interface [polypeptide binding]; other site 313595005597 TPP-binding site [chemical binding]; other site 313595005598 heterodimer interface [polypeptide binding]; other site 313595005599 phosphorylation loop region [posttranslational modification] 313595005600 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 313595005601 E3 interaction surface; other site 313595005602 lipoyl attachment site [posttranslational modification]; other site 313595005603 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 313595005604 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 313595005605 E3 interaction surface; other site 313595005606 lipoyl attachment site [posttranslational modification]; other site 313595005607 e3 binding domain; Region: E3_binding; pfam02817 313595005608 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313595005609 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 313595005610 Peptidase family M28; Region: Peptidase_M28; pfam04389 313595005611 metal binding site [ion binding]; metal-binding site 313595005612 short chain dehydrogenase; Provisional; Region: PRK12828 313595005613 classical (c) SDRs; Region: SDR_c; cd05233 313595005614 NAD(P) binding site [chemical binding]; other site 313595005615 active site 313595005616 SprT-like family; Region: SprT-like; pfam10263 313595005617 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 313595005618 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 313595005619 Substrate binding site; other site 313595005620 Domain of unknown function (DUF389); Region: DUF389; pfam04087 313595005621 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 313595005622 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 313595005623 Walker A/P-loop; other site 313595005624 ATP binding site [chemical binding]; other site 313595005625 Q-loop/lid; other site 313595005626 ABC transporter signature motif; other site 313595005627 Walker B; other site 313595005628 D-loop; other site 313595005629 H-loop/switch region; other site 313595005630 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 313595005631 Permease; Region: Permease; pfam02405 313595005632 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 313595005633 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313595005634 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 313595005635 DXD motif; other site 313595005636 Methyltransferase domain; Region: Methyltransf_23; pfam13489 313595005637 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 313595005638 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 313595005639 dimer interface [polypeptide binding]; other site 313595005640 active site 313595005641 CoA binding pocket [chemical binding]; other site 313595005642 glycine dehydrogenase; Provisional; Region: PRK05367 313595005643 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 313595005644 tetramer interface [polypeptide binding]; other site 313595005645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595005646 catalytic residue [active] 313595005647 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 313595005648 tetramer interface [polypeptide binding]; other site 313595005649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595005650 catalytic residue [active] 313595005651 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 313595005652 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 313595005653 MutS domain I; Region: MutS_I; pfam01624 313595005654 MutS domain II; Region: MutS_II; pfam05188 313595005655 MutS domain III; Region: MutS_III; pfam05192 313595005656 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 313595005657 Walker A/P-loop; other site 313595005658 ATP binding site [chemical binding]; other site 313595005659 Q-loop/lid; other site 313595005660 ABC transporter signature motif; other site 313595005661 Walker B; other site 313595005662 D-loop; other site 313595005663 H-loop/switch region; other site 313595005664 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313595005665 excinuclease ABC subunit B; Provisional; Region: PRK05298 313595005666 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 313595005667 ATP binding site [chemical binding]; other site 313595005668 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 313595005669 nucleotide binding region [chemical binding]; other site 313595005670 ATP-binding site [chemical binding]; other site 313595005671 Ultra-violet resistance protein B; Region: UvrB; pfam12344 313595005672 UvrB/uvrC motif; Region: UVR; pfam02151 313595005673 PrcB C-terminal; Region: PrcB_C; pfam14343 313595005674 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 313595005675 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313595005676 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 313595005677 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 313595005678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595005679 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595005680 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 313595005681 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 313595005682 Walker A/P-loop; other site 313595005683 ATP binding site [chemical binding]; other site 313595005684 Q-loop/lid; other site 313595005685 ABC transporter signature motif; other site 313595005686 Walker B; other site 313595005687 D-loop; other site 313595005688 H-loop/switch region; other site 313595005689 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 313595005690 Zn binding site [ion binding]; other site 313595005691 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 313595005692 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 313595005693 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 313595005694 GIY-YIG motif/motif A; other site 313595005695 putative active site [active] 313595005696 putative metal binding site [ion binding]; other site 313595005697 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 313595005698 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 313595005699 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 313595005700 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 313595005701 Glutamine amidotransferase class-I; Region: GATase; pfam00117 313595005702 glutamine binding [chemical binding]; other site 313595005703 catalytic triad [active] 313595005704 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 313595005705 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 313595005706 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 313595005707 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 313595005708 active site 313595005709 ribulose/triose binding site [chemical binding]; other site 313595005710 phosphate binding site [ion binding]; other site 313595005711 substrate (anthranilate) binding pocket [chemical binding]; other site 313595005712 product (indole) binding pocket [chemical binding]; other site 313595005713 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 313595005714 active site 313595005715 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 313595005716 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 313595005717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595005718 catalytic residue [active] 313595005719 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 313595005720 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 313595005721 substrate binding site [chemical binding]; other site 313595005722 active site 313595005723 catalytic residues [active] 313595005724 heterodimer interface [polypeptide binding]; other site 313595005725 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 313595005726 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 313595005727 homodimer interface [polypeptide binding]; other site 313595005728 substrate-cofactor binding pocket; other site 313595005729 catalytic residue [active] 313595005730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595005731 TIGR01777 family protein; Region: yfcH 313595005732 NAD(P) binding site [chemical binding]; other site 313595005733 active site 313595005734 Members of the SGNH-hydrolase superfamily, 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_like_1; cd01832 313595005735 active site 313595005736 catalytic triad [active] 313595005737 oxyanion hole [active] 313595005738 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 313595005739 PspC domain; Region: PspC; cl00864 313595005740 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 313595005741 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313595005742 Ribosome biogenesis regulatory protein (RRS1); Region: RRS1; cl02166 313595005743 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 313595005744 E3 interaction surface; other site 313595005745 lipoyl attachment site [posttranslational modification]; other site 313595005746 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 313595005747 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 313595005748 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 313595005749 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 313595005750 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313595005751 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313595005752 active site 313595005753 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 313595005754 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 313595005755 active site 313595005756 DNA binding site [nucleotide binding] 313595005757 Int/Topo IB signature motif; other site 313595005758 elongation factor Tu; Reviewed; Region: PRK12735 313595005759 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 313595005760 G1 box; other site 313595005761 GEF interaction site [polypeptide binding]; other site 313595005762 GTP/Mg2+ binding site [chemical binding]; other site 313595005763 Switch I region; other site 313595005764 G2 box; other site 313595005765 G3 box; other site 313595005766 Switch II region; other site 313595005767 G4 box; other site 313595005768 G5 box; other site 313595005769 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 313595005770 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 313595005771 Antibiotic Binding Site [chemical binding]; other site 313595005772 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 313595005773 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 313595005774 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 313595005775 putative homodimer interface [polypeptide binding]; other site 313595005776 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 313595005777 heterodimer interface [polypeptide binding]; other site 313595005778 homodimer interface [polypeptide binding]; other site 313595005779 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 313595005780 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 313595005781 23S rRNA interface [nucleotide binding]; other site 313595005782 L7/L12 interface [polypeptide binding]; other site 313595005783 putative thiostrepton binding site; other site 313595005784 L25 interface [polypeptide binding]; other site 313595005785 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 313595005786 mRNA/rRNA interface [nucleotide binding]; other site 313595005787 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 313595005788 23S rRNA interface [nucleotide binding]; other site 313595005789 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 313595005790 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 313595005791 core dimer interface [polypeptide binding]; other site 313595005792 peripheral dimer interface [polypeptide binding]; other site 313595005793 L10 interface [polypeptide binding]; other site 313595005794 L11 interface [polypeptide binding]; other site 313595005795 putative EF-Tu interaction site [polypeptide binding]; other site 313595005796 putative EF-G interaction site [polypeptide binding]; other site 313595005797 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 313595005798 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 313595005799 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 313595005800 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 313595005801 RPB12 interaction site [polypeptide binding]; other site 313595005802 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 313595005803 RPB11 interaction site [polypeptide binding]; other site 313595005804 RPB12 interaction site [polypeptide binding]; other site 313595005805 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 313595005806 RPB3 interaction site [polypeptide binding]; other site 313595005807 RPB1 interaction site [polypeptide binding]; other site 313595005808 RPB11 interaction site [polypeptide binding]; other site 313595005809 RPB10 interaction site [polypeptide binding]; other site 313595005810 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 313595005811 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 313595005812 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 313595005813 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 313595005814 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 313595005815 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 313595005816 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 313595005817 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 313595005818 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 313595005819 DNA binding site [nucleotide binding] 313595005820 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 313595005821 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 313595005822 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 313595005823 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595005824 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 313595005825 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595005826 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595005827 Winged helix-turn helix; Region: HTH_29; pfam13551 313595005828 Homeodomain-like domain; Region: HTH_23; pfam13384 313595005829 Winged helix-turn helix; Region: HTH_33; pfam13592 313595005830 GrpE; Region: GrpE; pfam01025 313595005831 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 313595005832 dimer interface [polypeptide binding]; other site 313595005833 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 313595005834 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 313595005835 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 313595005836 HSP70 interaction site [polypeptide binding]; other site 313595005837 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 313595005838 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 313595005839 dimer interface [polypeptide binding]; other site 313595005840 Response regulator receiver domain; Region: Response_reg; pfam00072 313595005841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595005842 active site 313595005843 phosphorylation site [posttranslational modification] 313595005844 intermolecular recognition site; other site 313595005845 dimerization interface [polypeptide binding]; other site 313595005846 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 313595005847 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313595005848 Walker A motif; other site 313595005849 ATP binding site [chemical binding]; other site 313595005850 Walker B motif; other site 313595005851 arginine finger; other site 313595005852 multidrug efflux protein; Reviewed; Region: PRK01766 313595005853 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 313595005854 cation binding site [ion binding]; other site 313595005855 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 313595005856 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 313595005857 active site 313595005858 membrane ATPase/protein kinase; Provisional; Region: PRK09435 313595005859 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 313595005860 Walker A; other site 313595005861 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 313595005862 Peptidase family M23; Region: Peptidase_M23; pfam01551 313595005863 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 313595005864 Amidinotransferase; Region: Amidinotransf; cl12043 313595005865 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 313595005866 Amidinotransferase; Region: Amidinotransf; pfam02274 313595005867 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 313595005868 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 313595005869 ATP binding site [chemical binding]; other site 313595005870 putative Mg++ binding site [ion binding]; other site 313595005871 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 313595005872 nucleotide binding region [chemical binding]; other site 313595005873 ATP-binding site [chemical binding]; other site 313595005874 RQC domain; Region: RQC; pfam09382 313595005875 HRDC domain; Region: HRDC; pfam00570 313595005876 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 313595005877 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 313595005878 putative active site [active] 313595005879 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 313595005880 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 313595005881 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 313595005882 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 313595005883 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 313595005884 Walker A/P-loop; other site 313595005885 ATP binding site [chemical binding]; other site 313595005886 Q-loop/lid; other site 313595005887 ABC transporter signature motif; other site 313595005888 Walker B; other site 313595005889 D-loop; other site 313595005890 H-loop/switch region; other site 313595005891 replicative DNA helicase; Region: DnaB; TIGR00665 313595005892 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 313595005893 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 313595005894 Walker A motif; other site 313595005895 ATP binding site [chemical binding]; other site 313595005896 Walker B motif; other site 313595005897 DNA binding loops [nucleotide binding] 313595005898 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 313595005899 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 313595005900 Predicted permeases [General function prediction only]; Region: COG0795 313595005901 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 313595005902 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 313595005903 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 313595005904 transketolase; Reviewed; Region: PRK05899 313595005905 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 313595005906 TPP-binding site [chemical binding]; other site 313595005907 dimer interface [polypeptide binding]; other site 313595005908 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 313595005909 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 313595005910 PYR/PP interface [polypeptide binding]; other site 313595005911 dimer interface [polypeptide binding]; other site 313595005912 TPP binding site [chemical binding]; other site 313595005913 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313595005914 Sensors of blue-light using FAD; Region: BLUF; pfam04940 313595005915 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 313595005916 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313595005917 active site 313595005918 catalytic site [active] 313595005919 substrate binding site [chemical binding]; other site 313595005920 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 313595005921 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 313595005922 competence damage-inducible protein A; Provisional; Region: PRK00549 313595005923 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 313595005924 putative MPT binding site; other site 313595005925 Competence-damaged protein; Region: CinA; pfam02464 313595005926 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 313595005927 ribosomal protein L33; Region: rpl33; CHL00104 313595005928 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 313595005929 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 313595005930 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 313595005931 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 313595005932 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 313595005933 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 313595005934 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 313595005935 FeS/SAM binding site; other site 313595005936 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 313595005937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 313595005938 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 313595005939 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595005940 catalytic residue [active] 313595005941 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595005942 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595005943 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313595005944 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 313595005945 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595005946 Mg2+ binding site [ion binding]; other site 313595005947 G-X-G motif; other site 313595005948 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 313595005949 anchoring element; other site 313595005950 dimer interface [polypeptide binding]; other site 313595005951 ATP binding site [chemical binding]; other site 313595005952 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 313595005953 active site 313595005954 putative metal-binding site [ion binding]; other site 313595005955 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 313595005956 malate dehydrogenase; Reviewed; Region: PRK06223 313595005957 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 313595005958 dimer interface [polypeptide binding]; other site 313595005959 NAD(P) binding site [chemical binding]; other site 313595005960 tetramer (dimer of dimers) interface [polypeptide binding]; other site 313595005961 substrate binding site [chemical binding]; other site 313595005962 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 313595005963 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 313595005964 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 313595005965 Protein export membrane protein; Region: SecD_SecF; pfam02355 313595005966 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 313595005967 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 313595005968 dimer interface [polypeptide binding]; other site 313595005969 active site 313595005970 CoA binding pocket [chemical binding]; other site 313595005971 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 313595005972 ABC1 family; Region: ABC1; cl17513 313595005973 heat shock protein 90; Provisional; Region: PRK05218 313595005974 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595005975 ATP binding site [chemical binding]; other site 313595005976 Mg2+ binding site [ion binding]; other site 313595005977 G-X-G motif; other site 313595005978 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 313595005979 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 313595005980 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 313595005981 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 313595005982 active site 313595005983 dimer interface [polypeptide binding]; other site 313595005984 motif 1; other site 313595005985 motif 2; other site 313595005986 motif 3; other site 313595005987 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 313595005988 anticodon binding site; other site 313595005989 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 313595005990 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 313595005991 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 313595005992 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 313595005993 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 313595005994 23S rRNA binding site [nucleotide binding]; other site 313595005995 L21 binding site [polypeptide binding]; other site 313595005996 L13 binding site [polypeptide binding]; other site 313595005997 PRLI-interacting factor K; Provisional; Region: PLN03086 313595005998 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 313595005999 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 313595006000 intersubunit interface [polypeptide binding]; other site 313595006001 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595006002 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595006003 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 313595006004 B12 binding site [chemical binding]; other site 313595006005 cobalt ligand [ion binding]; other site 313595006006 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 313595006007 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 313595006008 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 313595006009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 313595006010 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 313595006011 hydrophobic ligand binding site; other site 313595006012 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 313595006013 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 313595006014 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 313595006015 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 313595006016 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 313595006017 active site 313595006018 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 313595006019 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 313595006020 putative NAD(P) binding site [chemical binding]; other site 313595006021 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 313595006022 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 313595006023 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 313595006024 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 313595006025 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 313595006026 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313595006027 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595006028 Outer membrane efflux protein; Region: OEP; pfam02321 313595006029 Outer membrane efflux protein; Region: OEP; pfam02321 313595006030 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313595006031 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313595006032 myosin-cross-reactive antigen; Provisional; Region: PRK13977 313595006033 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 313595006034 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 313595006035 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313595006036 Response regulator receiver domain; Region: Response_reg; pfam00072 313595006037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595006038 active site 313595006039 phosphorylation site [posttranslational modification] 313595006040 intermolecular recognition site; other site 313595006041 dimerization interface [polypeptide binding]; other site 313595006042 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595006043 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 313595006044 ligand binding site [chemical binding]; other site 313595006045 flexible hinge region; other site 313595006046 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 313595006047 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 313595006048 nucleoside/Zn binding site; other site 313595006049 dimer interface [polypeptide binding]; other site 313595006050 catalytic motif [active] 313595006051 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595006052 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595006053 CAAX protease self-immunity; Region: Abi; pfam02517 313595006054 Histidine kinase; Region: His_kinase; pfam06580 313595006055 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313595006056 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595006057 active site 313595006058 phosphorylation site [posttranslational modification] 313595006059 intermolecular recognition site; other site 313595006060 dimerization interface [polypeptide binding]; other site 313595006061 LytTr DNA-binding domain; Region: LytTR; smart00850 313595006062 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 313595006063 Putative transposase; Region: Y2_Tnp; pfam04986 313595006064 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 313595006065 ADP-ribose binding site [chemical binding]; other site 313595006066 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 313595006067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595006068 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595006069 Uncharacterized protein containing a Zn-ribbon (DUF2116); Region: DUF2116; cl01683 313595006070 aspartate aminotransferase; Provisional; Region: PRK05764 313595006071 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 313595006072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595006073 homodimer interface [polypeptide binding]; other site 313595006074 catalytic residue [active] 313595006075 Fatty acid desaturase; Region: FA_desaturase; pfam00487 313595006076 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 313595006077 putative di-iron ligands [ion binding]; other site 313595006078 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 313595006079 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 313595006080 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 313595006081 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 313595006082 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 313595006083 Glutamate binding site [chemical binding]; other site 313595006084 NAD binding site [chemical binding]; other site 313595006085 catalytic residues [active] 313595006086 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 313595006087 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 313595006088 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 313595006089 FMN-binding domain; Region: FMN_bind; cl01081 313595006090 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 313595006091 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 313595006092 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 313595006093 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 313595006094 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 313595006095 catalytic loop [active] 313595006096 iron binding site [ion binding]; other site 313595006097 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 313595006098 FAD binding pocket [chemical binding]; other site 313595006099 FAD binding motif [chemical binding]; other site 313595006100 phosphate binding motif [ion binding]; other site 313595006101 beta-alpha-beta structure motif; other site 313595006102 NAD binding pocket [chemical binding]; other site 313595006103 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 313595006104 ApbE family; Region: ApbE; pfam02424 313595006105 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 313595006106 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 313595006107 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 313595006108 Potassium binding sites [ion binding]; other site 313595006109 Cesium cation binding sites [ion binding]; other site 313595006110 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 313595006111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 313595006112 DNA-binding site [nucleotide binding]; DNA binding site 313595006113 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 313595006114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595006115 homodimer interface [polypeptide binding]; other site 313595006116 Lamin Tail Domain; Region: LTD; pfam00932 313595006117 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595006118 Calx-beta domain; Region: Calx-beta; cl02522 313595006119 Lamin Tail Domain; Region: LTD; pfam00932 313595006120 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 313595006121 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 313595006122 isoaspartyl dipeptidase; Provisional; Region: PRK10657 313595006123 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 313595006124 active site 313595006125 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_5; cd06242 313595006126 putative active site [active] 313595006127 Zn binding site [ion binding]; other site 313595006128 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595006129 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 313595006130 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 313595006131 transmembrane helices; other site 313595006132 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 313595006133 non-specific DNA binding site [nucleotide binding]; other site 313595006134 salt bridge; other site 313595006135 sequence-specific DNA binding site [nucleotide binding]; other site 313595006136 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 313595006137 proposed catalytic triad [active] 313595006138 active site nucleophile [active] 313595006139 Uncharacterized conserved protein [Function unknown]; Region: COG1284 313595006140 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 313595006141 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 313595006142 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 313595006143 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 313595006144 putative catalytic site [active] 313595006145 putative metal binding site [ion binding]; other site 313595006146 putative phosphate binding site [ion binding]; other site 313595006147 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 313595006148 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 313595006149 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595006150 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595006151 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595006152 T5orf172 domain; Region: T5orf172; pfam10544 313595006153 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 313595006154 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 313595006155 putative active site [active] 313595006156 putative NTP binding site [chemical binding]; other site 313595006157 putative nucleic acid binding site [nucleotide binding]; other site 313595006158 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 313595006159 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 313595006160 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 313595006161 Heavy-metal-associated domain; Region: HMA; pfam00403 313595006162 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 313595006163 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 313595006164 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 313595006165 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 313595006166 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 313595006167 Low-spin heme binding site [chemical binding]; other site 313595006168 Putative water exit pathway; other site 313595006169 Binuclear center (active site) [active] 313595006170 Putative proton exit pathway; other site 313595006171 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 313595006172 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 313595006173 Cytochrome c; Region: Cytochrom_C; pfam00034 313595006174 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 313595006175 4Fe-4S binding domain; Region: Fer4_5; pfam12801 313595006176 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 313595006177 FixH; Region: FixH; pfam05751 313595006178 Family description; Region: DsbD_2; pfam13386 313595006179 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 313595006180 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 313595006181 FeS/SAM binding site; other site 313595006182 HemN C-terminal domain; Region: HemN_C; pfam06969 313595006183 Predicted transcriptional regulator [Transcription]; Region: COG5340 313595006184 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 313595006185 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 313595006186 salt bridge; other site 313595006187 non-specific DNA binding site [nucleotide binding]; other site 313595006188 sequence-specific DNA binding site [nucleotide binding]; other site 313595006189 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 313595006190 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 313595006191 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 313595006192 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313595006193 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313595006194 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313595006195 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595006196 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 313595006197 DNA binding residues [nucleotide binding] 313595006198 Fic family protein [Function unknown]; Region: COG3177 313595006199 Fic/DOC family; Region: Fic; pfam02661 313595006200 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595006201 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 313595006202 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 313595006203 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; pfam05090 313595006204 Imelysin; Region: Peptidase_M75; pfam09375 313595006205 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595006206 Winged helix-turn helix; Region: HTH_29; pfam13551 313595006207 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595006208 Homeodomain-like domain; Region: HTH_32; pfam13565 313595006209 Winged helix-turn helix; Region: HTH_33; pfam13592 313595006210 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595006211 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595006212 Putative catalytic domain of uncharacterized hypothetical proteins closely related to Nuc, , an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar2; cd09174 313595006213 PLD-like domain; Region: PLDc_2; pfam13091 313595006214 putative active site [active] 313595006215 catalytic site [active] 313595006216 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 313595006217 HSP70 interaction site [polypeptide binding]; other site 313595006218 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 313595006219 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 313595006220 active site 313595006221 catalytic tetrad [active] 313595006222 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 313595006223 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 313595006224 Na binding site [ion binding]; other site 313595006225 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 313595006226 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 313595006227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595006228 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595006229 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595006230 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 313595006231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 313595006232 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 313595006233 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 313595006234 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 313595006235 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 313595006236 active site 313595006237 Transposase; Region: DEDD_Tnp_IS110; pfam01548 313595006238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 313595006239 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 313595006240 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 313595006241 AAA domain; Region: AAA_14; pfam13173 313595006242 PIN domain; Region: PIN_3; pfam13470 313595006243 RDD family; Region: RDD; cl00746 313595006244 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 313595006245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313595006246 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 313595006247 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 313595006248 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595006249 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 313595006250 DNA binding residues [nucleotide binding] 313595006251 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 313595006252 Fic family protein [Function unknown]; Region: COG3177 313595006253 Fic/DOC family; Region: Fic; pfam02661 313595006254 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 313595006255 non-specific DNA binding site [nucleotide binding]; other site 313595006256 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 313595006257 salt bridge; other site 313595006258 sequence-specific DNA binding site [nucleotide binding]; other site 313595006259 TIR domain; Region: TIR_2; pfam13676 313595006260 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 313595006261 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 313595006262 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 313595006263 ATP binding site [chemical binding]; other site 313595006264 putative Mg++ binding site [ion binding]; other site 313595006265 Divergent AAA domain; Region: AAA_4; pfam04326 313595006266 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 313595006267 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 313595006268 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313595006269 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595006270 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 313595006271 PIN domain; Region: PIN; pfam01850 313595006272 putative active site [active] 313595006273 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 313595006274 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 313595006275 acyl-activating enzyme (AAE) consensus motif; other site 313595006276 AMP binding site [chemical binding]; other site 313595006277 active site 313595006278 CoA binding site [chemical binding]; other site 313595006279 choline dehydrogenase; Validated; Region: PRK02106 313595006280 lycopene cyclase; Region: lycopene_cycl; TIGR01789 313595006281 L-aspartate oxidase; Provisional; Region: PRK06175 313595006282 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 313595006283 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 313595006284 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 313595006285 NAD(P) binding site [chemical binding]; other site 313595006286 catalytic residues [active] 313595006287 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 313595006288 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595006289 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313595006290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595006291 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 313595006292 Peptidase family M28; Region: Peptidase_M28; pfam04389 313595006293 metal binding site [ion binding]; metal-binding site 313595006294 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 313595006295 Ion channel; Region: Ion_trans_2; pfam07885 313595006296 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 313595006297 Part of AAA domain; Region: AAA_19; pfam13245 313595006298 Family description; Region: UvrD_C_2; pfam13538 313595006299 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 313595006300 Zn binding site [ion binding]; other site 313595006301 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 313595006302 starch binding outer membrane protein SusD; Region: SusD; cl17845 313595006303 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313595006304 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595006305 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313595006306 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 313595006307 starch binding outer membrane protein SusD; Region: SusD; cd08977 313595006308 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313595006309 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595006310 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 313595006311 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 313595006312 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 313595006313 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595006314 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595006315 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 313595006316 proline aminopeptidase P II; Provisional; Region: PRK10879 313595006317 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 313595006318 active site 313595006319 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 313595006320 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 313595006321 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 313595006322 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 313595006323 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 313595006324 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 313595006325 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 313595006326 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 313595006327 dimer interface [polypeptide binding]; other site 313595006328 NADP binding site [chemical binding]; other site 313595006329 catalytic residues [active] 313595006330 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 313595006331 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 313595006332 inhibitor site; inhibition site 313595006333 active site 313595006334 dimer interface [polypeptide binding]; other site 313595006335 catalytic residue [active] 313595006336 Cupin domain; Region: Cupin_2; pfam07883 313595006337 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 313595006338 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595006339 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 313595006340 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 313595006341 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 313595006342 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 313595006343 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 313595006344 putative active site [active] 313595006345 catalytic triad [active] 313595006346 putative dimer interface [polypeptide binding]; other site 313595006347 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 313595006348 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 313595006349 Walker A/P-loop; other site 313595006350 ATP binding site [chemical binding]; other site 313595006351 Q-loop/lid; other site 313595006352 ABC transporter signature motif; other site 313595006353 Walker B; other site 313595006354 D-loop; other site 313595006355 H-loop/switch region; other site 313595006356 TOBE domain; Region: TOBE_2; pfam08402 313595006357 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 313595006358 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 313595006359 dimer interface [polypeptide binding]; other site 313595006360 conserved gate region; other site 313595006361 putative PBP binding loops; other site 313595006362 ABC-ATPase subunit interface; other site 313595006363 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 313595006364 dimer interface [polypeptide binding]; other site 313595006365 conserved gate region; other site 313595006366 putative PBP binding loops; other site 313595006367 ABC-ATPase subunit interface; other site 313595006368 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 313595006369 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 313595006370 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 313595006371 prolyl-tRNA synthetase; Provisional; Region: PRK08661 313595006372 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 313595006373 dimer interface [polypeptide binding]; other site 313595006374 motif 1; other site 313595006375 active site 313595006376 motif 2; other site 313595006377 motif 3; other site 313595006378 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 313595006379 anticodon binding site; other site 313595006380 zinc-binding site [ion binding]; other site 313595006381 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 313595006382 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 313595006383 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 313595006384 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 313595006385 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 313595006386 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 313595006387 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 313595006388 phosphoribosylaminoimidazole synthetase; Region: purM; TIGR00878 313595006389 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 313595006390 dimerization interface [polypeptide binding]; other site 313595006391 ATP binding site [chemical binding]; other site 313595006392 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 313595006393 peptide chain release factor 1; Validated; Region: prfA; PRK00591 313595006394 PCRF domain; Region: PCRF; pfam03462 313595006395 RF-1 domain; Region: RF-1; pfam00472 313595006396 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 313595006397 active site 313595006398 dimer interface [polypeptide binding]; other site 313595006399 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 313595006400 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 313595006401 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 313595006402 DNA photolyase; Region: DNA_photolyase; pfam00875 313595006403 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 313595006404 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 313595006405 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 313595006406 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 313595006407 FMN binding site [chemical binding]; other site 313595006408 active site 313595006409 substrate binding site [chemical binding]; other site 313595006410 catalytic residue [active] 313595006411 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 313595006412 dimer interface [polypeptide binding]; other site 313595006413 putative tRNA-binding site [nucleotide binding]; other site 313595006414 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 313595006415 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 313595006416 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 313595006417 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 313595006418 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 313595006419 S-adenosylmethionine binding site [chemical binding]; other site 313595006420 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 313595006421 AAA domain; Region: AAA_30; pfam13604 313595006422 Family description; Region: UvrD_C_2; pfam13538 313595006423 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 313595006424 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 313595006425 Ligand binding site; other site 313595006426 oligomer interface; other site 313595006427 DNA photolyase; Region: DNA_photolyase; pfam00875 313595006428 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 313595006429 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 313595006430 DNA photolyase; Region: DNA_photolyase; pfam00875 313595006431 classical (c) SDRs; Region: SDR_c; cd05233 313595006432 NAD(P) binding site [chemical binding]; other site 313595006433 active site 313595006434 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 313595006435 putative hydrophobic ligand binding site [chemical binding]; other site 313595006436 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 313595006437 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 313595006438 active site 313595006439 dimer interface [polypeptide binding]; other site 313595006440 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 313595006441 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 313595006442 active site 313595006443 FMN binding site [chemical binding]; other site 313595006444 substrate binding site [chemical binding]; other site 313595006445 3Fe-4S cluster binding site [ion binding]; other site 313595006446 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 313595006447 domain interface; other site 313595006448 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 313595006449 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313595006450 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 313595006451 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 313595006452 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 313595006453 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 313595006454 catalytic residues [active] 313595006455 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 313595006456 Ligand Binding Site [chemical binding]; other site 313595006457 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 313595006458 Ligand Binding Site [chemical binding]; other site 313595006459 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 313595006460 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 313595006461 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 313595006462 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 313595006463 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 313595006464 putative active site [active] 313595006465 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 313595006466 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595006467 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595006468 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 313595006469 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 313595006470 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 313595006471 S-adenosylmethionine binding site [chemical binding]; other site 313595006472 Amidohydrolase; Region: Amidohydro_2; pfam04909 313595006473 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 313595006474 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 313595006475 kynureninase; Region: kynureninase; TIGR01814 313595006476 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 313595006477 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595006478 catalytic residue [active] 313595006479 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 313595006480 selenophosphate synthetase; Provisional; Region: PRK00943 313595006481 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 313595006482 dimerization interface [polypeptide binding]; other site 313595006483 putative ATP binding site [chemical binding]; other site 313595006484 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 313595006485 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 313595006486 active site residue [active] 313595006487 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 313595006488 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 313595006489 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 313595006490 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 313595006491 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 313595006492 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 313595006493 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 313595006494 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 313595006495 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595006496 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595006497 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 313595006498 putative transposase OrfB; Reviewed; Region: PHA02517 313595006499 HTH-like domain; Region: HTH_21; pfam13276 313595006500 Integrase core domain; Region: rve; pfam00665 313595006501 Integrase core domain; Region: rve_3; pfam13683 313595006502 Transposase; Region: HTH_Tnp_1; cl17663 313595006503 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 313595006504 Divergent AAA domain; Region: AAA_4; pfam04326 313595006505 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 313595006506 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 313595006507 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 313595006508 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 313595006509 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 313595006510 ATP binding site [chemical binding]; other site 313595006511 putative Mg++ binding site [ion binding]; other site 313595006512 Abi-like protein; Region: Abi_2; pfam07751 313595006513 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595006514 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 313595006515 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595006516 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 313595006517 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313595006518 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 313595006519 non-specific DNA binding site [nucleotide binding]; other site 313595006520 salt bridge; other site 313595006521 sequence-specific DNA binding site [nucleotide binding]; other site 313595006522 Family of unknown function (DUF695); Region: DUF695; pfam05117 313595006523 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595006524 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313595006525 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 313595006526 putative acyl-acceptor binding pocket; other site 313595006527 legume lectins; Region: lectin_L-type; cd01951 313595006528 homotetramer interaction site [polypeptide binding]; other site 313595006529 carbohydrate binding site [chemical binding]; other site 313595006530 metal binding site [ion binding]; metal-binding site 313595006531 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313595006532 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 313595006533 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 313595006534 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 313595006535 Na binding site [ion binding]; other site 313595006536 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 313595006537 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313595006538 Cupin domain; Region: Cupin_2; cl17218 313595006539 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 313595006540 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_4; cd08976 313595006541 putative DNA binding site [nucleotide binding]; other site 313595006542 catalytic residue [active] 313595006543 putative H2TH interface [polypeptide binding]; other site 313595006544 putative catalytic residues [active] 313595006545 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 313595006546 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 313595006547 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595006548 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595006549 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595006550 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 313595006551 Permease; Region: Permease; pfam02405 313595006552 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 313595006553 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 313595006554 Walker A/P-loop; other site 313595006555 ATP binding site [chemical binding]; other site 313595006556 Q-loop/lid; other site 313595006557 ABC transporter signature motif; other site 313595006558 Walker B; other site 313595006559 D-loop; other site 313595006560 H-loop/switch region; other site 313595006561 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 313595006562 mce related protein; Region: MCE; pfam02470 313595006563 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 313595006564 30S subunit binding site; other site 313595006565 PAS domain S-box; Region: sensory_box; TIGR00229 313595006566 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595006567 putative active site [active] 313595006568 heme pocket [chemical binding]; other site 313595006569 PAS domain S-box; Region: sensory_box; TIGR00229 313595006570 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595006571 putative active site [active] 313595006572 heme pocket [chemical binding]; other site 313595006573 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595006574 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 313595006575 dimer interface [polypeptide binding]; other site 313595006576 phosphorylation site [posttranslational modification] 313595006577 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595006578 ATP binding site [chemical binding]; other site 313595006579 G-X-G motif; other site 313595006580 Response regulator receiver domain; Region: Response_reg; pfam00072 313595006581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595006582 active site 313595006583 phosphorylation site [posttranslational modification] 313595006584 intermolecular recognition site; other site 313595006585 dimerization interface [polypeptide binding]; other site 313595006586 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595006587 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 313595006588 ligand binding site [chemical binding]; other site 313595006589 flexible hinge region; other site 313595006590 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 313595006591 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 313595006592 Ligand Binding Site [chemical binding]; other site 313595006593 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 313595006594 Ligand Binding Site [chemical binding]; other site 313595006595 Universal stress protein family; Region: Usp; pfam00582 313595006596 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 313595006597 Ligand Binding Site [chemical binding]; other site 313595006598 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 313595006599 Ligand Binding Site [chemical binding]; other site 313595006600 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 313595006601 Ligand Binding Site [chemical binding]; other site 313595006602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 313595006603 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 313595006604 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 313595006605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 313595006606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 313595006607 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 313595006608 dimerization interface [polypeptide binding]; other site 313595006609 Winged helix-turn helix; Region: HTH_29; pfam13551 313595006610 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595006611 Homeodomain-like domain; Region: HTH_32; pfam13565 313595006612 Winged helix-turn helix; Region: HTH_33; pfam13592 313595006613 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595006614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595006615 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 313595006616 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 313595006617 putative ligand binding site [chemical binding]; other site 313595006618 putative NAD binding site [chemical binding]; other site 313595006619 catalytic site [active] 313595006620 Methyltransferase domain; Region: Methyltransf_18; pfam12847 313595006621 Methyltransferase domain; Region: Methyltransf_23; pfam13489 313595006622 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 313595006623 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 313595006624 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 313595006625 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12748 313595006626 classical (c) SDRs; Region: SDR_c; cd05233 313595006627 NAD(P) binding site [chemical binding]; other site 313595006628 active site 313595006629 Winged helix-turn helix; Region: HTH_29; pfam13551 313595006630 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595006631 Homeodomain-like domain; Region: HTH_32; pfam13565 313595006632 Winged helix-turn helix; Region: HTH_33; pfam13592 313595006633 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595006634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595006635 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 313595006636 generic binding surface I; other site 313595006637 generic binding surface II; other site 313595006638 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 313595006639 putative active site [active] 313595006640 putative catalytic site [active] 313595006641 putative Mg binding site IVb [ion binding]; other site 313595006642 putative phosphate binding site [ion binding]; other site 313595006643 putative DNA binding site [nucleotide binding]; other site 313595006644 putative Mg binding site IVa [ion binding]; other site 313595006645 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595006646 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313595006647 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313595006648 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313595006649 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313595006650 MoxR-like ATPases [General function prediction only]; Region: COG0714 313595006651 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 313595006652 Walker A motif; other site 313595006653 ATP binding site [chemical binding]; other site 313595006654 Walker B motif; other site 313595006655 arginine finger; other site 313595006656 aconitate hydratase; Validated; Region: PRK07229 313595006657 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 313595006658 substrate binding site [chemical binding]; other site 313595006659 ligand binding site [chemical binding]; other site 313595006660 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 313595006661 substrate binding site [chemical binding]; other site 313595006662 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 313595006663 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595006664 catalytic residues [active] 313595006665 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 313595006666 catalytic residues [active] 313595006667 dimer interface [polypeptide binding]; other site 313595006668 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 313595006669 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 313595006670 folate binding site [chemical binding]; other site 313595006671 NADP+ binding site [chemical binding]; other site 313595006672 2TM domain; Region: 2TM; pfam13239 313595006673 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313595006674 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 313595006675 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 313595006676 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 313595006677 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 313595006678 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 313595006679 thymidylate synthase; Reviewed; Region: thyA; PRK01827 313595006680 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 313595006681 dimerization interface [polypeptide binding]; other site 313595006682 active site 313595006683 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 313595006684 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 313595006685 Nucleoside recognition; Region: Gate; pfam07670 313595006686 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 313595006687 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595006688 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595006689 Bifunctional nuclease; Region: DNase-RNase; pfam02577 313595006690 UvrB/uvrC motif; Region: UVR; pfam02151 313595006691 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 313595006692 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 313595006693 Ligand Binding Site [chemical binding]; other site 313595006694 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 313595006695 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 313595006696 Ligand binding site [chemical binding]; other site 313595006697 Electron transfer flavoprotein domain; Region: ETF; pfam01012 313595006698 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313595006699 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 313595006700 alpha subunit interface [polypeptide binding]; other site 313595006701 TPP binding site [chemical binding]; other site 313595006702 heterodimer interface [polypeptide binding]; other site 313595006703 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313595006704 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595006705 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 313595006706 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595006707 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 313595006708 DNA binding residues [nucleotide binding] 313595006709 FecR protein; Region: FecR; pfam04773 313595006710 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 313595006711 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 313595006712 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 313595006713 dimer interface [polypeptide binding]; other site 313595006714 substrate binding site [chemical binding]; other site 313595006715 metal binding sites [ion binding]; metal-binding site 313595006716 signal recognition particle protein; Provisional; Region: PRK10867 313595006717 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 313595006718 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 313595006719 P loop; other site 313595006720 GTP binding site [chemical binding]; other site 313595006721 Signal peptide binding domain; Region: SRP_SPB; pfam02978 313595006722 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 313595006723 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 313595006724 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 313595006725 homodimer interface [polypeptide binding]; other site 313595006726 NADP binding site [chemical binding]; other site 313595006727 substrate binding site [chemical binding]; other site 313595006728 Uncharacterized conserved protein [Function unknown]; Region: COG3339 313595006729 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 313595006730 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 313595006731 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313595006732 putative metal binding site [ion binding]; other site 313595006733 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 313595006734 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 313595006735 RNA binding surface [nucleotide binding]; other site 313595006736 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 313595006737 probable active site [active] 313595006738 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 313595006739 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595006740 nucleophilic elbow; other site 313595006741 catalytic triad; other site 313595006742 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 313595006743 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 313595006744 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 313595006745 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 313595006746 GMP synthase; Reviewed; Region: guaA; PRK00074 313595006747 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 313595006748 AMP/PPi binding site [chemical binding]; other site 313595006749 candidate oxyanion hole; other site 313595006750 catalytic triad [active] 313595006751 potential glutamine specificity residues [chemical binding]; other site 313595006752 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 313595006753 ATP Binding subdomain [chemical binding]; other site 313595006754 Ligand Binding sites [chemical binding]; other site 313595006755 Dimerization subdomain; other site 313595006756 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313595006757 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313595006758 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 313595006759 ligand binding site [chemical binding]; other site 313595006760 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 313595006761 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 313595006762 FMN binding site [chemical binding]; other site 313595006763 substrate binding site [chemical binding]; other site 313595006764 putative catalytic residue [active] 313595006765 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 313595006766 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 313595006767 Fasciclin domain; Region: Fasciclin; pfam02469 313595006768 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 313595006769 Fasciclin domain; Region: Fasciclin; pfam02469 313595006770 membrane protein insertase; Provisional; Region: PRK01318 313595006771 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 313595006772 CTP synthetase; Validated; Region: pyrG; PRK05380 313595006773 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 313595006774 Catalytic site [active] 313595006775 active site 313595006776 UTP binding site [chemical binding]; other site 313595006777 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 313595006778 active site 313595006779 putative oxyanion hole; other site 313595006780 catalytic triad [active] 313595006781 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 313595006782 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 313595006783 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 313595006784 CoA-ligase; Region: Ligase_CoA; pfam00549 313595006785 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 313595006786 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 313595006787 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 313595006788 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 313595006789 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313595006790 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 313595006791 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 313595006792 substrate binding site [chemical binding]; other site 313595006793 hexamer interface [polypeptide binding]; other site 313595006794 metal binding site [ion binding]; metal-binding site 313595006795 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 313595006796 Substrate-binding site [chemical binding]; other site 313595006797 Substrate specificity [chemical binding]; other site 313595006798 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 313595006799 metal binding site [ion binding]; metal-binding site 313595006800 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 313595006801 Histidine kinase; Region: HisKA_3; pfam07730 313595006802 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595006803 ATP binding site [chemical binding]; other site 313595006804 Mg2+ binding site [ion binding]; other site 313595006805 G-X-G motif; other site 313595006806 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313595006807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595006808 active site 313595006809 phosphorylation site [posttranslational modification] 313595006810 intermolecular recognition site; other site 313595006811 dimerization interface [polypeptide binding]; other site 313595006812 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 313595006813 DNA binding residues [nucleotide binding] 313595006814 dimerization interface [polypeptide binding]; other site 313595006815 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 313595006816 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 313595006817 putative ligand binding site [chemical binding]; other site 313595006818 NAD binding site [chemical binding]; other site 313595006819 dimerization interface [polypeptide binding]; other site 313595006820 catalytic site [active] 313595006821 peptidase T; Region: peptidase-T; TIGR01882 313595006822 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 313595006823 metal binding site [ion binding]; metal-binding site 313595006824 dimer interface [polypeptide binding]; other site 313595006825 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 313595006826 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 313595006827 quinone interaction residues [chemical binding]; other site 313595006828 active site 313595006829 catalytic residues [active] 313595006830 FMN binding site [chemical binding]; other site 313595006831 substrate binding site [chemical binding]; other site 313595006832 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 313595006833 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 313595006834 active site 313595006835 metal binding site [ion binding]; metal-binding site 313595006836 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 313595006837 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 313595006838 FeS/SAM binding site; other site 313595006839 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 313595006840 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595006841 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 313595006842 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 313595006843 Protein of unknown function (DUF3997); Region: DUF3997; pfam13162 313595006844 Transposase IS200 like; Region: Y1_Tnp; cl00848 313595006845 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 313595006846 Transposase IS200 like; Region: Y1_Tnp; cl00848 313595006847 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 313595006848 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 313595006849 substrate binding pocket [chemical binding]; other site 313595006850 chain length determination region; other site 313595006851 substrate-Mg2+ binding site; other site 313595006852 catalytic residues [active] 313595006853 aspartate-rich region 1; other site 313595006854 active site lid residues [active] 313595006855 aspartate-rich region 2; other site 313595006856 DNA primase; Validated; Region: dnaG; PRK05667 313595006857 CHC2 zinc finger; Region: zf-CHC2; cl17510 313595006858 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 313595006859 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 313595006860 active site 313595006861 metal binding site [ion binding]; metal-binding site 313595006862 interdomain interaction site; other site 313595006863 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 313595006864 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 313595006865 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 313595006866 homodimer interface [polypeptide binding]; other site 313595006867 NAD binding pocket [chemical binding]; other site 313595006868 ATP binding pocket [chemical binding]; other site 313595006869 Mg binding site [ion binding]; other site 313595006870 active-site loop [active] 313595006871 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 313595006872 gliding motility-associated protein GldC; Region: GldC; TIGR03515 313595006873 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 313595006874 G1 box; other site 313595006875 GTP/Mg2+ binding site [chemical binding]; other site 313595006876 Switch I region; other site 313595006877 G2 box; other site 313595006878 G3 box; other site 313595006879 Switch II region; other site 313595006880 G4 box; other site 313595006881 G5 box; other site 313595006882 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595006883 cell division protein MraZ; Reviewed; Region: PRK00326 313595006884 MraZ protein; Region: MraZ; pfam02381 313595006885 MraZ protein; Region: MraZ; pfam02381 313595006886 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 313595006887 MraW methylase family; Region: Methyltransf_5; cl17771 313595006888 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 313595006889 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 313595006890 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 313595006891 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 313595006892 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 313595006893 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313595006894 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313595006895 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313595006896 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 313595006897 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 313595006898 Mg++ binding site [ion binding]; other site 313595006899 putative catalytic motif [active] 313595006900 putative substrate binding site [chemical binding]; other site 313595006901 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 313595006902 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313595006903 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313595006904 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 313595006905 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 313595006906 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 313595006907 active site 313595006908 homodimer interface [polypeptide binding]; other site 313595006909 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 313595006910 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313595006911 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313595006912 cell division protein FtsA; Region: ftsA; TIGR01174 313595006913 Cell division protein FtsA; Region: FtsA; smart00842 313595006914 Cell division protein FtsA; Region: FtsA; pfam14450 313595006915 cell division protein FtsZ; Validated; Region: PRK09330 313595006916 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 313595006917 nucleotide binding site [chemical binding]; other site 313595006918 SulA interaction site; other site 313595006919 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 313595006920 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 313595006921 active site 313595006922 catalytic triad [active] 313595006923 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 313595006924 Interdomain contacts; other site 313595006925 Cytokine receptor motif; other site 313595006926 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595006927 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 313595006928 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 313595006929 thiamine phosphate binding site [chemical binding]; other site 313595006930 active site 313595006931 pyrophosphate binding site [ion binding]; other site 313595006932 NMT1/THI5 like; Region: NMT1; pfam09084 313595006933 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 313595006934 substrate binding site [chemical binding]; other site 313595006935 multimerization interface [polypeptide binding]; other site 313595006936 ATP binding site [chemical binding]; other site 313595006937 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 313595006938 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 313595006939 dimer interface [polypeptide binding]; other site 313595006940 substrate binding site [chemical binding]; other site 313595006941 ATP binding site [chemical binding]; other site 313595006942 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 313595006943 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313595006944 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 313595006945 S-adenosylmethionine binding site [chemical binding]; other site 313595006946 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595006947 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 313595006948 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 313595006949 ADP binding site [chemical binding]; other site 313595006950 magnesium binding site [ion binding]; other site 313595006951 putative shikimate binding site; other site 313595006952 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313595006953 active site 313595006954 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 313595006955 RNA binding surface [nucleotide binding]; other site 313595006956 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 313595006957 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 313595006958 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 313595006959 E3 interaction surface; other site 313595006960 lipoyl attachment site [posttranslational modification]; other site 313595006961 e3 binding domain; Region: E3_binding; pfam02817 313595006962 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313595006963 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 313595006964 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 313595006965 Probable Catalytic site; other site 313595006966 metal-binding site 313595006967 recombination protein RecR; Reviewed; Region: recR; PRK00076 313595006968 RecR protein; Region: RecR; pfam02132 313595006969 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 313595006970 putative active site [active] 313595006971 putative metal-binding site [ion binding]; other site 313595006972 tetramer interface [polypeptide binding]; other site 313595006973 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 313595006974 Na binding site [ion binding]; other site 313595006975 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 313595006976 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 313595006977 Haemolytic domain; Region: Haemolytic; pfam01809 313595006978 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 313595006979 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595006980 active site 313595006981 HIGH motif; other site 313595006982 nucleotide binding site [chemical binding]; other site 313595006983 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 313595006984 KMSKS motif; other site 313595006985 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 313595006986 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 313595006987 GTP cyclohydrolase I; Provisional; Region: PLN03044 313595006988 active site 313595006989 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313595006990 active site 313595006991 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 313595006992 Winged helix-turn helix; Region: HTH_29; pfam13551 313595006993 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595006994 Homeodomain-like domain; Region: HTH_32; pfam13565 313595006995 Winged helix-turn helix; Region: HTH_33; pfam13592 313595006996 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595006997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595006998 SnoaL-like domain; Region: SnoaL_2; pfam12680 313595006999 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 313595007000 homotrimer interaction site [polypeptide binding]; other site 313595007001 putative active site [active] 313595007002 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 313595007003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595007004 NAD(P) binding site [chemical binding]; other site 313595007005 active site 313595007006 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 313595007007 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 313595007008 short chain dehydrogenase; Provisional; Region: PRK06482 313595007009 NADP binding site [chemical binding]; other site 313595007010 active site 313595007011 steroid binding site; other site 313595007012 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 313595007013 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 313595007014 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 313595007015 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 313595007016 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 313595007017 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313595007018 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007019 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 313595007020 MFS/sugar transport protein; Region: MFS_2; pfam13347 313595007021 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 313595007022 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 313595007023 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 313595007024 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 313595007025 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 313595007026 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 313595007027 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 313595007028 active site 313595007029 catalytic residues [active] 313595007030 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 313595007031 Secretin and TonB N terminus short domain; Region: STN; pfam07660 313595007032 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595007033 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595007034 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 313595007035 N-terminal plug; other site 313595007036 ligand-binding site [chemical binding]; other site 313595007037 FecR protein; Region: FecR; pfam04773 313595007038 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 313595007039 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595007040 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 313595007041 DNA binding residues [nucleotide binding] 313595007042 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 313595007043 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007044 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 313595007045 active site 313595007046 catalytic triad [active] 313595007047 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007048 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 313595007049 SPFH domain / Band 7 family; Region: Band_7; pfam01145 313595007050 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 313595007051 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 313595007052 homodimer interface [polypeptide binding]; other site 313595007053 metal binding site [ion binding]; metal-binding site 313595007054 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 313595007055 homodimer interface [polypeptide binding]; other site 313595007056 active site 313595007057 putative chemical substrate binding site [chemical binding]; other site 313595007058 metal binding site [ion binding]; metal-binding site 313595007059 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 313595007060 Endonuclease I; Region: Endonuclease_1; pfam04231 313595007061 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 313595007062 Interdomain contacts; other site 313595007063 Cytokine receptor motif; other site 313595007064 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007065 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 313595007066 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 313595007067 S-adenosylmethionine binding site [chemical binding]; other site 313595007068 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313595007069 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595007070 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 313595007071 DNA binding residues [nucleotide binding] 313595007072 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313595007073 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313595007074 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 313595007075 Walker A/P-loop; other site 313595007076 ATP binding site [chemical binding]; other site 313595007077 Q-loop/lid; other site 313595007078 ABC transporter signature motif; other site 313595007079 Walker B; other site 313595007080 D-loop; other site 313595007081 H-loop/switch region; other site 313595007082 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 313595007083 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 313595007084 active site 313595007085 substrate binding site [chemical binding]; other site 313595007086 metal binding site [ion binding]; metal-binding site 313595007087 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 313595007088 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 313595007089 Putative Catalytic site; other site 313595007090 DXD motif; other site 313595007091 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 313595007092 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 313595007093 carboxyltransferase (CT) interaction site; other site 313595007094 biotinylation site [posttranslational modification]; other site 313595007095 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 313595007096 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313595007097 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 313595007098 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 313595007099 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 313595007100 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 313595007101 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 313595007102 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 313595007103 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 313595007104 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313595007105 active site 313595007106 HIGH motif; other site 313595007107 nucleotide binding site [chemical binding]; other site 313595007108 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 313595007109 KMSK motif region; other site 313595007110 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 313595007111 tRNA binding surface [nucleotide binding]; other site 313595007112 anticodon binding site; other site 313595007113 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 313595007114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595007115 NAD(P) binding site [chemical binding]; other site 313595007116 active site 313595007117 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 313595007118 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 313595007119 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 313595007120 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595007121 catalytic residue [active] 313595007122 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595007123 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595007124 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 313595007125 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313595007126 Peptidase family M23; Region: Peptidase_M23; pfam01551 313595007127 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313595007128 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313595007129 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 313595007130 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 313595007131 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313595007132 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 313595007133 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 313595007134 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 313595007135 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 313595007136 TRAM domain; Region: TRAM; cl01282 313595007137 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 313595007138 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 313595007139 S-adenosylmethionine binding site [chemical binding]; other site 313595007140 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 313595007141 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 313595007142 inhibitor-cofactor binding pocket; inhibition site 313595007143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595007144 catalytic residue [active] 313595007145 Abi-like protein; Region: Abi_2; pfam07751 313595007146 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 313595007147 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 313595007148 sequence-specific DNA binding site [nucleotide binding]; other site 313595007149 salt bridge; other site 313595007150 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 313595007151 Uncharacterized conserved protein [Function unknown]; Region: COG1284 313595007152 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 313595007153 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 313595007154 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 313595007155 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 313595007156 AsnC family; Region: AsnC_trans_reg; pfam01037 313595007157 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 313595007158 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313595007159 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 313595007160 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595007161 catalytic residues [active] 313595007162 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313595007163 Active site serine [active] 313595007164 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313595007165 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 313595007166 active site 313595007167 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 313595007168 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 313595007169 putative active site [active] 313595007170 putative NTP binding site [chemical binding]; other site 313595007171 putative nucleic acid binding site [nucleotide binding]; other site 313595007172 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 313595007173 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 313595007174 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 313595007175 putative active site [active] 313595007176 putative NTP binding site [chemical binding]; other site 313595007177 putative nucleic acid binding site [nucleotide binding]; other site 313595007178 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 313595007179 Peptidase family S41; Region: Peptidase_S41; pfam03572 313595007180 Active site serine [active] 313595007181 Transposase domain (DUF772); Region: DUF772; pfam05598 313595007182 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 313595007183 SnoaL-like domain; Region: SnoaL_3; pfam13474 313595007184 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 313595007185 Helix-turn-helix domain; Region: HTH_38; pfam13936 313595007186 Integrase core domain; Region: rve; pfam00665 313595007187 Cupin domain; Region: Cupin_2; pfam07883 313595007188 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 313595007189 Strictosidine synthase; Region: Str_synth; pfam03088 313595007190 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595007191 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 313595007192 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 313595007193 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 313595007194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 313595007195 group I intron endonuclease; Region: grpIintron_endo; TIGR01453 313595007196 N-terminal catalytic domain of GIY-YIG intron endonuclease I-TevI, I-BmoI, I-BanI, I-BthII and similar proteins; Region: GIY-YIG_HE_I-TevI_like; cd10437 313595007197 GIY-YIG motif/motif A; other site 313595007198 putative active site [active] 313595007199 catalytic site [active] 313595007200 putative metal binding site [ion binding]; other site 313595007201 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 313595007202 dGTP triphosphohydrolase [Nucleotide transport and metabolism]; Region: Dgt; COG0232 313595007203 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313595007204 Zn2+ binding site [ion binding]; other site 313595007205 Mg2+ binding site [ion binding]; other site 313595007206 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 313595007207 Winged helix-turn helix; Region: HTH_29; pfam13551 313595007208 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595007209 Homeodomain-like domain; Region: HTH_32; pfam13565 313595007210 Winged helix-turn helix; Region: HTH_33; pfam13592 313595007211 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595007212 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595007213 Nucleotidyltransferase (NT) domain of an uncharacterized subgroup of the Pol beta-like NT superfamily; Region: NT_Pol-beta-like_1; cd07749 313595007214 metal binding triad [ion binding]; metal-binding site 313595007215 FRG domain; Region: FRG; pfam08867 313595007216 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 313595007217 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 313595007218 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 313595007219 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 313595007220 metal binding site [ion binding]; metal-binding site 313595007221 putative dimer interface [polypeptide binding]; other site 313595007222 DsrE/DsrF-like family; Region: DrsE; pfam02635 313595007223 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 313595007224 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 313595007225 active site 313595007226 (T/H)XGH motif; other site 313595007227 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 313595007228 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 313595007229 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313595007230 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313595007231 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313595007232 active site 313595007233 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007234 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 313595007235 Family of unknown function (DUF490); Region: DUF490; pfam04357 313595007236 Surface antigen; Region: Bac_surface_Ag; pfam01103 313595007237 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 313595007238 oligomerization interface [polypeptide binding]; other site 313595007239 active site 313595007240 metal binding site [ion binding]; metal-binding site 313595007241 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 313595007242 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 313595007243 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 313595007244 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 313595007245 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 313595007246 RNA binding site [nucleotide binding]; other site 313595007247 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 313595007248 RNA binding site [nucleotide binding]; other site 313595007249 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 313595007250 RNA binding site [nucleotide binding]; other site 313595007251 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 313595007252 RNA binding site [nucleotide binding]; other site 313595007253 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 313595007254 RNA binding site [nucleotide binding]; other site 313595007255 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 313595007256 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313595007257 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313595007258 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595007259 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 313595007260 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 313595007261 Putative zinc ribbon domain; Region: DUF164; pfam02591 313595007262 Uncharacterized conserved protein [Function unknown]; Region: COG0327 313595007263 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 313595007264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 313595007265 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 313595007266 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 313595007267 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 313595007268 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 313595007269 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 313595007270 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 313595007271 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 313595007272 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 313595007273 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313595007274 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 313595007275 putative substrate translocation pore; other site 313595007276 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 313595007277 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 313595007278 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 313595007279 MarC family integral membrane protein; Region: MarC; pfam01914 313595007280 Protein of unknown function (DUF429); Region: DUF429; pfam04250 313595007281 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 313595007282 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 313595007283 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313595007284 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 313595007285 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 313595007286 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 313595007287 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595007288 Homeodomain-like domain; Region: HTH_23; pfam13384 313595007289 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 313595007290 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 313595007291 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 313595007292 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 313595007293 Na binding site [ion binding]; other site 313595007294 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 313595007295 Na binding site [ion binding]; other site 313595007296 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595007297 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 313595007298 dimer interface [polypeptide binding]; other site 313595007299 phosphorylation site [posttranslational modification] 313595007300 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595007301 ATP binding site [chemical binding]; other site 313595007302 Mg2+ binding site [ion binding]; other site 313595007303 G-X-G motif; other site 313595007304 Response regulator receiver domain; Region: Response_reg; pfam00072 313595007305 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595007306 active site 313595007307 phosphorylation site [posttranslational modification] 313595007308 intermolecular recognition site; other site 313595007309 dimerization interface [polypeptide binding]; other site 313595007310 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 313595007311 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 313595007312 acyl-activating enzyme (AAE) consensus motif; other site 313595007313 putative AMP binding site [chemical binding]; other site 313595007314 putative active site [active] 313595007315 putative CoA binding site [chemical binding]; other site 313595007316 acetyl-CoA synthetase; Provisional; Region: PRK00174 313595007317 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 313595007318 active site 313595007319 CoA binding site [chemical binding]; other site 313595007320 acyl-activating enzyme (AAE) consensus motif; other site 313595007321 AMP binding site [chemical binding]; other site 313595007322 acetate binding site [chemical binding]; other site 313595007323 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 313595007324 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 313595007325 putative metal binding site [ion binding]; other site 313595007326 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 313595007327 Interdomain contacts; other site 313595007328 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 313595007329 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 313595007330 putative tRNA-binding site [nucleotide binding]; other site 313595007331 B3/4 domain; Region: B3_4; pfam03483 313595007332 tRNA synthetase B5 domain; Region: B5; cl08394 313595007333 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 313595007334 dimer interface [polypeptide binding]; other site 313595007335 motif 1; other site 313595007336 motif 3; other site 313595007337 motif 2; other site 313595007338 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 313595007339 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 313595007340 CoenzymeA binding site [chemical binding]; other site 313595007341 subunit interaction site [polypeptide binding]; other site 313595007342 PHB binding site; other site 313595007343 diaminopimelate decarboxylase; Region: lysA; TIGR01048 313595007344 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 313595007345 active site 313595007346 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313595007347 substrate binding site [chemical binding]; other site 313595007348 catalytic residues [active] 313595007349 dimer interface [polypeptide binding]; other site 313595007350 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 313595007351 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 313595007352 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 313595007353 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 313595007354 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 313595007355 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 313595007356 Ligand Binding Site [chemical binding]; other site 313595007357 TilS substrate C-terminal domain; Region: TilS_C; smart00977 313595007358 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 313595007359 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 313595007360 Predicted flavoprotein [General function prediction only]; Region: COG0431 313595007361 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 313595007362 Predicted transcriptional regulators [Transcription]; Region: COG1695 313595007363 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 313595007364 PspC domain; Region: PspC; pfam04024 313595007365 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313595007366 LETM1-like protein; Region: LETM1; pfam07766 313595007367 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 313595007368 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 313595007369 acyl-activating enzyme (AAE) consensus motif; other site 313595007370 putative AMP binding site [chemical binding]; other site 313595007371 putative active site [active] 313595007372 putative CoA binding site [chemical binding]; other site 313595007373 Heavy-metal-associated domain; Region: HMA; pfam00403 313595007374 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595007375 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 313595007376 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313595007377 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 313595007378 Ligand Binding Site [chemical binding]; other site 313595007379 BCCT family transporter; Region: BCCT; pfam02028 313595007380 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 313595007381 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 313595007382 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 313595007383 dimerization interface [polypeptide binding]; other site 313595007384 ATP binding site [chemical binding]; other site 313595007385 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 313595007386 dimerization interface [polypeptide binding]; other site 313595007387 ATP binding site [chemical binding]; other site 313595007388 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 313595007389 putative active site [active] 313595007390 catalytic triad [active] 313595007391 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 313595007392 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 313595007393 Amidohydrolase; Region: Amidohydro_4; pfam13147 313595007394 active site 313595007395 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 313595007396 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 313595007397 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 313595007398 active site 313595007399 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 313595007400 Amidohydrolase; Region: Amidohydro_4; pfam13147 313595007401 active site 313595007402 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 313595007403 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 313595007404 generic binding surface II; other site 313595007405 ssDNA binding site; other site 313595007406 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 313595007407 ATP binding site [chemical binding]; other site 313595007408 putative Mg++ binding site [ion binding]; other site 313595007409 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 313595007410 nucleotide binding region [chemical binding]; other site 313595007411 ATP-binding site [chemical binding]; other site 313595007412 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 313595007413 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 313595007414 trmE is a tRNA modification GTPase; Region: trmE; cd04164 313595007415 G1 box; other site 313595007416 GTP/Mg2+ binding site [chemical binding]; other site 313595007417 Switch I region; other site 313595007418 G2 box; other site 313595007419 Switch II region; other site 313595007420 G3 box; other site 313595007421 G4 box; other site 313595007422 G5 box; other site 313595007423 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 313595007424 Tic20-like protein; Region: Tic20; pfam09685 313595007425 DNA polymerase III subunit beta; Validated; Region: PRK05643 313595007426 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 313595007427 putative DNA binding surface [nucleotide binding]; other site 313595007428 dimer interface [polypeptide binding]; other site 313595007429 beta-clamp/clamp loader binding surface; other site 313595007430 beta-clamp/translesion DNA polymerase binding surface; other site 313595007431 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 313595007432 active site residue [active] 313595007433 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 313595007434 active site residue [active] 313595007435 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 313595007436 MarR family; Region: MarR; pfam01047 313595007437 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 313595007438 dimer interface [polypeptide binding]; other site 313595007439 FMN binding site [chemical binding]; other site 313595007440 YceI-like domain; Region: YceI; pfam04264 313595007441 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 313595007442 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 313595007443 NAD binding site [chemical binding]; other site 313595007444 substrate binding site [chemical binding]; other site 313595007445 homodimer interface [polypeptide binding]; other site 313595007446 active site 313595007447 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 313595007448 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 313595007449 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 313595007450 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 313595007451 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 313595007452 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 313595007453 NAD(P) binding site [chemical binding]; other site 313595007454 catalytic residues [active] 313595007455 hypothetical protein; Provisional; Region: PRK14623 313595007456 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 313595007457 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595007458 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 313595007459 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 313595007460 dimer interface [polypeptide binding]; other site 313595007461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595007462 catalytic residue [active] 313595007463 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 313595007464 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 313595007465 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595007466 catalytic residue [active] 313595007467 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 313595007468 Predicted transcriptional regulators [Transcription]; Region: COG1510 313595007469 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313595007470 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313595007471 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595007472 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 313595007473 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 313595007474 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595007475 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 313595007476 Fasciclin domain; Region: Fasciclin; pfam02469 313595007477 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 313595007478 integral membrane protein; Region: integ_memb_HG; TIGR03954 313595007479 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 313595007480 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 313595007481 NAD binding site [chemical binding]; other site 313595007482 homodimer interface [polypeptide binding]; other site 313595007483 active site 313595007484 substrate binding site [chemical binding]; other site 313595007485 putative carbohydrate kinase; Provisional; Region: PRK10565 313595007486 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 313595007487 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 313595007488 putative substrate binding site [chemical binding]; other site 313595007489 putative ATP binding site [chemical binding]; other site 313595007490 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 313595007491 active sites [active] 313595007492 tetramer interface [polypeptide binding]; other site 313595007493 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313595007494 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313595007495 OsmC-like protein; Region: OsmC; pfam02566 313595007496 Protein of unknown function (DUF721); Region: DUF721; pfam05258 313595007497 recombination protein F; Reviewed; Region: recF; PRK00064 313595007498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595007499 Walker A/P-loop; other site 313595007500 ATP binding site [chemical binding]; other site 313595007501 Q-loop/lid; other site 313595007502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595007503 ABC transporter signature motif; other site 313595007504 Walker B; other site 313595007505 D-loop; other site 313595007506 H-loop/switch region; other site 313595007507 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 313595007508 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 313595007509 homopentamer interface [polypeptide binding]; other site 313595007510 active site 313595007511 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 313595007512 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595007513 ATP binding site [chemical binding]; other site 313595007514 Mg2+ binding site [ion binding]; other site 313595007515 G-X-G motif; other site 313595007516 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 313595007517 ATP binding site [chemical binding]; other site 313595007518 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 313595007519 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 313595007520 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 313595007521 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 313595007522 putative catalytic site [active] 313595007523 putative metal binding site [ion binding]; other site 313595007524 putative phosphate binding site [ion binding]; other site 313595007525 WbqC-like protein family; Region: WbqC; pfam08889 313595007526 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 313595007527 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 313595007528 Catalytic site [active] 313595007529 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 313595007530 dihydrodipicolinate reductase; Provisional; Region: PRK00048 313595007531 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 313595007532 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 313595007533 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 313595007534 ParB-like nuclease domain; Region: ParBc; pfam02195 313595007535 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 313595007536 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 313595007537 P-loop; other site 313595007538 Magnesium ion binding site [ion binding]; other site 313595007539 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 313595007540 Magnesium ion binding site [ion binding]; other site 313595007541 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 313595007542 short chain dehydrogenase; Provisional; Region: PRK07677 313595007543 NAD(P) binding site [chemical binding]; other site 313595007544 substrate binding site [chemical binding]; other site 313595007545 homotetramer interface [polypeptide binding]; other site 313595007546 active site 313595007547 homodimer interface [polypeptide binding]; other site 313595007548 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 313595007549 UbiA prenyltransferase family; Region: UbiA; pfam01040 313595007550 adenylosuccinate lyase; Provisional; Region: PRK09285 313595007551 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 313595007552 tetramer interface [polypeptide binding]; other site 313595007553 active site 313595007554 NAD-dependent deacetylase; Provisional; Region: PRK00481 313595007555 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 313595007556 NAD+ binding site [chemical binding]; other site 313595007557 substrate binding site [chemical binding]; other site 313595007558 Zn binding site [ion binding]; other site 313595007559 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595007560 helicase 45; Provisional; Region: PTZ00424 313595007561 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 313595007562 ATP binding site [chemical binding]; other site 313595007563 Mg++ binding site [ion binding]; other site 313595007564 motif III; other site 313595007565 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 313595007566 nucleotide binding region [chemical binding]; other site 313595007567 ATP-binding site [chemical binding]; other site 313595007568 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 313595007569 RNA binding site [nucleotide binding]; other site 313595007570 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 313595007571 active site 313595007572 dimerization interface [polypeptide binding]; other site 313595007573 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 313595007574 Protein of unknown function DUF58; Region: DUF58; pfam01882 313595007575 MoxR-like ATPases [General function prediction only]; Region: COG0714 313595007576 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 313595007577 Walker A motif; other site 313595007578 ATP binding site [chemical binding]; other site 313595007579 Walker B motif; other site 313595007580 arginine finger; other site 313595007581 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 313595007582 Integral membrane protein DUF95; Region: DUF95; pfam01944 313595007583 RDD family; Region: RDD; pfam06271 313595007584 Predicted membrane protein [Function unknown]; Region: COG2860 313595007585 UPF0126 domain; Region: UPF0126; pfam03458 313595007586 UPF0126 domain; Region: UPF0126; pfam03458 313595007587 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 313595007588 active site 313595007589 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 313595007590 putative active site [active] 313595007591 putative CoA binding site [chemical binding]; other site 313595007592 nudix motif; other site 313595007593 metal binding site [ion binding]; metal-binding site 313595007594 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313595007595 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 313595007596 putative acyl-acceptor binding pocket; other site 313595007597 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 313595007598 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 313595007599 active site 313595007600 catalytic tetrad [active] 313595007601 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 313595007602 active site 313595007603 dinuclear metal binding site [ion binding]; other site 313595007604 dimerization interface [polypeptide binding]; other site 313595007605 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 313595007606 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 313595007607 Walker A motif; other site 313595007608 ATP binding site [chemical binding]; other site 313595007609 Walker B motif; other site 313595007610 arginine finger; other site 313595007611 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 313595007612 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 313595007613 NAD(P) binding site [chemical binding]; other site 313595007614 catalytic residues [active] 313595007615 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 313595007616 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 313595007617 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313595007618 starch binding outer membrane protein SusD; Region: SusD; cd08977 313595007619 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313595007620 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595007621 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313595007622 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 313595007623 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 313595007624 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007625 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 313595007626 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595007627 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595007628 Transposase [DNA replication, recombination, and repair]; Region: COG5433 313595007629 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007630 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 313595007631 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595007632 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 313595007633 active site 313595007634 catalytic residues [active] 313595007635 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007636 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 313595007637 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595007638 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 313595007639 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 313595007640 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 313595007641 Family description; Region: VCBS; pfam13517 313595007642 Family description; Region: VCBS; pfam13517 313595007643 Family description; Region: VCBS; pfam13517 313595007644 Family description; Region: VCBS; pfam13517 313595007645 Family description; Region: VCBS; pfam13517 313595007646 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 313595007647 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595007648 Predicted acyl esterases [General function prediction only]; Region: COG2936 313595007649 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595007650 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 313595007651 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 313595007652 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313595007653 active site 313595007654 catalytic site [active] 313595007655 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007656 SusE outer membrane protein; Region: SusE; pfam14292 313595007657 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cl17376 313595007658 starch binding site [chemical binding]; other site 313595007659 starch binding outer membrane protein SusD; Region: SusD; cd08977 313595007660 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313595007661 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595007662 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 313595007663 Transcriptional regulators [Transcription]; Region: PurR; COG1609 313595007664 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 313595007665 DNA binding site [nucleotide binding] 313595007666 domain linker motif; other site 313595007667 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 313595007668 dimerization interface [polypeptide binding]; other site 313595007669 ligand binding site [chemical binding]; other site 313595007670 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 313595007671 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 313595007672 beta-phosphoglucomutase; Region: bPGM; TIGR01990 313595007673 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 313595007674 maltose phosphorylase; Provisional; Region: PRK13807 313595007675 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 313595007676 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 313595007677 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 313595007678 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 313595007679 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 313595007680 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 313595007681 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313595007682 Ca binding site [ion binding]; other site 313595007683 active site 313595007684 homodimer interface [polypeptide binding]; other site 313595007685 catalytic site [active] 313595007686 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 313595007687 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 313595007688 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313595007689 active site 313595007690 catalytic site [active] 313595007691 6-phosphofructokinase; Provisional; Region: PRK03202 313595007692 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 313595007693 active site 313595007694 ADP/pyrophosphate binding site [chemical binding]; other site 313595007695 dimerization interface [polypeptide binding]; other site 313595007696 allosteric effector site; other site 313595007697 fructose-1,6-bisphosphate binding site; other site 313595007698 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 313595007699 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 313595007700 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 313595007701 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 313595007702 nucleotide binding site [chemical binding]; other site 313595007703 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 313595007704 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 313595007705 active site 313595007706 dimer interface [polypeptide binding]; other site 313595007707 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 313595007708 dimer interface [polypeptide binding]; other site 313595007709 active site 313595007710 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 313595007711 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 313595007712 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 313595007713 Walker A motif; other site 313595007714 ATP binding site [chemical binding]; other site 313595007715 Walker B motif; other site 313595007716 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 313595007717 FRG domain; Region: FRG; pfam08867 313595007718 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595007719 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595007720 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 313595007721 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 313595007722 putative active site [active] 313595007723 putative NTP binding site [chemical binding]; other site 313595007724 putative nucleic acid binding site [nucleotide binding]; other site 313595007725 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 313595007726 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 313595007727 Fic/DOC family; Region: Fic; pfam02661 313595007728 Transposase; Region: DEDD_Tnp_IS110; pfam01548 313595007729 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 313595007730 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 313595007731 HipA N-terminal domain; Region: Couple_hipA; pfam13657 313595007732 HipA-like N-terminal domain; Region: HipA_N; pfam07805 313595007733 HipA-like C-terminal domain; Region: HipA_C; pfam07804 313595007734 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 313595007735 non-specific DNA binding site [nucleotide binding]; other site 313595007736 salt bridge; other site 313595007737 sequence-specific DNA binding site [nucleotide binding]; other site 313595007738 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 313595007739 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 313595007740 RES domain; Region: RES; pfam08808 313595007741 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 313595007742 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595007743 catalytic residues [active] 313595007744 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007745 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595007746 Outer membrane protein Omp28; Region: Omp28; pfam11551 313595007747 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 313595007748 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 313595007749 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 313595007750 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 313595007751 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 313595007752 non-specific DNA binding site [nucleotide binding]; other site 313595007753 salt bridge; other site 313595007754 sequence-specific DNA binding site [nucleotide binding]; other site 313595007755 Domain of unknown function (DUF955); Region: DUF955; cl01076 313595007756 integron integrase; Region: integrase_gron; TIGR02249 313595007757 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 313595007758 active site 313595007759 DNA binding site [nucleotide binding] 313595007760 Int/Topo IB signature motif; other site 313595007761 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 313595007762 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 313595007763 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595007764 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 313595007765 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_1; cd10801 313595007766 putative active site [active] 313595007767 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 313595007768 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 313595007769 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 313595007770 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 313595007771 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 313595007772 NAD(P) binding site [chemical binding]; other site 313595007773 catalytic residues [active] 313595007774 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 313595007775 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 313595007776 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 313595007777 active site 313595007778 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313595007779 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 313595007780 S-adenosylmethionine binding site [chemical binding]; other site 313595007781 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 313595007782 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595007783 catalytic residue [active] 313595007784 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 313595007785 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 313595007786 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 313595007787 substrate binding site [chemical binding]; other site 313595007788 oxyanion hole (OAH) forming residues; other site 313595007789 trimer interface [polypeptide binding]; other site 313595007790 Bacterial PH domain; Region: DUF304; cl01348 313595007791 Bacterial PH domain; Region: DUF304; cl01348 313595007792 Bacterial PH domain; Region: DUF304; pfam03703 313595007793 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595007794 PAS domain; Region: PAS_9; pfam13426 313595007795 putative active site [active] 313595007796 heme pocket [chemical binding]; other site 313595007797 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 313595007798 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 313595007799 tetramer interface [polypeptide binding]; other site 313595007800 TPP-binding site [chemical binding]; other site 313595007801 heterodimer interface [polypeptide binding]; other site 313595007802 phosphorylation loop region [posttranslational modification] 313595007803 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313595007804 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 313595007805 PYR/PP interface [polypeptide binding]; other site 313595007806 dimer interface [polypeptide binding]; other site 313595007807 TPP binding site [chemical binding]; other site 313595007808 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313595007809 exonuclease subunit SbcC; Provisional; Region: PRK10246 313595007810 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595007811 Walker A/P-loop; other site 313595007812 ATP binding site [chemical binding]; other site 313595007813 Q-loop/lid; other site 313595007814 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595007815 ABC transporter signature motif; other site 313595007816 Walker B; other site 313595007817 D-loop; other site 313595007818 H-loop/switch region; other site 313595007819 exonuclease subunit SbcD; Provisional; Region: PRK10966 313595007820 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 313595007821 active site 313595007822 metal binding site [ion binding]; metal-binding site 313595007823 DNA binding site [nucleotide binding] 313595007824 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 313595007825 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 313595007826 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 313595007827 Dehydroquinase class II; Region: DHquinase_II; pfam01220 313595007828 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 313595007829 trimer interface [polypeptide binding]; other site 313595007830 active site 313595007831 dimer interface [polypeptide binding]; other site 313595007832 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 313595007833 non-specific DNA binding site [nucleotide binding]; other site 313595007834 salt bridge; other site 313595007835 sequence-specific DNA binding site [nucleotide binding]; other site 313595007836 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 313595007837 Predicted transcriptional regulator [Transcription]; Region: COG2932 313595007838 Catalytic site [active] 313595007839 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 313595007840 BCCT family transporter; Region: BCCT; pfam02028 313595007841 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 313595007842 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 313595007843 ATP binding site [chemical binding]; other site 313595007844 putative Mg++ binding site [ion binding]; other site 313595007845 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 313595007846 nucleotide binding region [chemical binding]; other site 313595007847 ATP-binding site [chemical binding]; other site 313595007848 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 313595007849 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 313595007850 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 313595007851 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 313595007852 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 313595007853 inhibitor-cofactor binding pocket; inhibition site 313595007854 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595007855 catalytic residue [active] 313595007856 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 313595007857 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 313595007858 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 313595007859 S-adenosylmethionine binding site [chemical binding]; other site 313595007860 triosephosphate isomerase; Provisional; Region: PRK14567 313595007861 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 313595007862 substrate binding site [chemical binding]; other site 313595007863 dimer interface [polypeptide binding]; other site 313595007864 catalytic triad [active] 313595007865 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 313595007866 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 313595007867 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 313595007868 dimer interface [polypeptide binding]; other site 313595007869 conserved gate region; other site 313595007870 putative PBP binding loops; other site 313595007871 ABC-ATPase subunit interface; other site 313595007872 Predicted membrane protein [Function unknown]; Region: COG2259 313595007873 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 313595007874 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 313595007875 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 313595007876 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 313595007877 Walker A motif; other site 313595007878 ATP binding site [chemical binding]; other site 313595007879 Walker B motif; other site 313595007880 arginine finger; other site 313595007881 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 313595007882 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 313595007883 putative active site [active] 313595007884 putative metal binding site [ion binding]; other site 313595007885 imidazolonepropionase; Validated; Region: PRK09356 313595007886 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 313595007887 active site 313595007888 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 313595007889 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 313595007890 homodimer interface [polypeptide binding]; other site 313595007891 substrate-cofactor binding pocket; other site 313595007892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595007893 catalytic residue [active] 313595007894 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 313595007895 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 313595007896 dimer interface [polypeptide binding]; other site 313595007897 decamer (pentamer of dimers) interface [polypeptide binding]; other site 313595007898 catalytic triad [active] 313595007899 peroxidatic and resolving cysteines [active] 313595007900 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 313595007901 catalytic residues [active] 313595007902 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 313595007903 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 313595007904 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 313595007905 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 313595007906 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 313595007907 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 313595007908 Predicted permeases [General function prediction only]; Region: COG0795 313595007909 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 313595007910 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 313595007911 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 313595007912 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 313595007913 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 313595007914 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 313595007915 dimerization interface [polypeptide binding]; other site 313595007916 active site 313595007917 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313595007918 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313595007919 active site 313595007920 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 313595007921 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 313595007922 dimer interface [polypeptide binding]; other site 313595007923 active site 313595007924 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 313595007925 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 313595007926 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313595007927 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313595007928 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 313595007929 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 313595007930 substrate binding site [chemical binding]; other site 313595007931 oxyanion hole (OAH) forming residues; other site 313595007932 trimer interface [polypeptide binding]; other site 313595007933 MarR family; Region: MarR; pfam01047 313595007934 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 313595007935 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313595007936 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 313595007937 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 313595007938 RNA methyltransferase, RsmE family; Region: TIGR00046 313595007939 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 313595007940 UGMP family protein; Validated; Region: PRK09604 313595007941 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 313595007942 Family of unknown function (DUF490); Region: DUF490; pfam04357 313595007943 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 313595007944 Na binding site [ion binding]; other site 313595007945 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 313595007946 homotrimer interaction site [polypeptide binding]; other site 313595007947 putative active site [active] 313595007948 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 313595007949 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 313595007950 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 313595007951 active site 313595007952 metal binding site [ion binding]; metal-binding site 313595007953 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 313595007954 mce related protein; Region: MCE; pfam02470 313595007955 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 313595007956 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 313595007957 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 313595007958 active site 313595007959 motif I; other site 313595007960 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 313595007961 motif II; other site 313595007962 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 313595007963 Cysteine-rich domain; Region: CCG; pfam02754 313595007964 Cysteine-rich domain; Region: CCG; pfam02754 313595007965 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 313595007966 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 313595007967 Beta-lactamase; Region: Beta-lactamase; cl17358 313595007968 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595007969 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 313595007970 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 313595007971 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 313595007972 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 313595007973 dimerization interface [polypeptide binding]; other site 313595007974 DPS ferroxidase diiron center [ion binding]; other site 313595007975 ion pore; other site 313595007976 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 313595007977 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 313595007978 dimerization interface [polypeptide binding]; other site 313595007979 DPS ferroxidase diiron center [ion binding]; other site 313595007980 ion pore; other site 313595007981 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 313595007982 Clp amino terminal domain; Region: Clp_N; pfam02861 313595007983 Clp amino terminal domain; Region: Clp_N; pfam02861 313595007984 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 313595007985 Walker A motif; other site 313595007986 ATP binding site [chemical binding]; other site 313595007987 Walker B motif; other site 313595007988 arginine finger; other site 313595007989 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 313595007990 Walker A motif; other site 313595007991 ATP binding site [chemical binding]; other site 313595007992 Walker B motif; other site 313595007993 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 313595007994 DNA gyrase subunit A; Validated; Region: PRK05560 313595007995 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 313595007996 CAP-like domain; other site 313595007997 active site 313595007998 primary dimer interface [polypeptide binding]; other site 313595007999 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313595008000 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313595008001 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313595008002 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313595008003 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313595008004 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313595008005 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 313595008006 binding surface 313595008007 TPR motif; other site 313595008008 TPR repeat; Region: TPR_11; pfam13414 313595008009 TPR repeat; Region: TPR_11; pfam13414 313595008010 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 313595008011 binding surface 313595008012 TPR motif; other site 313595008013 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 313595008014 30S subunit binding site; other site 313595008015 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 313595008016 FAD binding domain; Region: FAD_binding_4; pfam01565 313595008017 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 313595008018 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 313595008019 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 313595008020 Tetramer interface [polypeptide binding]; other site 313595008021 active site 313595008022 FMN-binding site [chemical binding]; other site 313595008023 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 313595008024 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 313595008025 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 313595008026 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 313595008027 oligomer interface [polypeptide binding]; other site 313595008028 active site 313595008029 metal binding site [ion binding]; metal-binding site 313595008030 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 313595008031 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 313595008032 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 313595008033 Nitrogen regulatory protein P-II; Region: P-II; smart00938 313595008034 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 313595008035 RmuC family; Region: RmuC; pfam02646 313595008036 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 313595008037 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 313595008038 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 313595008039 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 313595008040 dimer interface [polypeptide binding]; other site 313595008041 decamer (pentamer of dimers) interface [polypeptide binding]; other site 313595008042 catalytic triad [active] 313595008043 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 313595008044 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595008045 active site 313595008046 phosphorylation site [posttranslational modification] 313595008047 intermolecular recognition site; other site 313595008048 dimerization interface [polypeptide binding]; other site 313595008049 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 313595008050 Walker A motif; other site 313595008051 ATP binding site [chemical binding]; other site 313595008052 Walker B motif; other site 313595008053 arginine finger; other site 313595008054 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595008055 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 313595008056 dimer interface [polypeptide binding]; other site 313595008057 phosphorylation site [posttranslational modification] 313595008058 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595008059 ATP binding site [chemical binding]; other site 313595008060 Mg2+ binding site [ion binding]; other site 313595008061 G-X-G motif; other site 313595008062 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313595008063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595008064 active site 313595008065 phosphorylation site [posttranslational modification] 313595008066 intermolecular recognition site; other site 313595008067 dimerization interface [polypeptide binding]; other site 313595008068 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 313595008069 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 313595008070 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313595008071 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 313595008072 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 313595008073 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 313595008074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595008075 Walker A/P-loop; other site 313595008076 ATP binding site [chemical binding]; other site 313595008077 Q-loop/lid; other site 313595008078 ABC transporter signature motif; other site 313595008079 Walker B; other site 313595008080 D-loop; other site 313595008081 H-loop/switch region; other site 313595008082 ABC transporter; Region: ABC_tran_2; pfam12848 313595008083 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313595008084 Endonuclease I; Region: Endonuclease_1; pfam04231 313595008085 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595008086 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 313595008087 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 313595008088 active site 313595008089 CAAX protease self-immunity; Region: Abi; pfam02517 313595008090 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 313595008091 AMP binding site [chemical binding]; other site 313595008092 active site 313595008093 acyl-activating enzyme (AAE) consensus motif; other site 313595008094 CoA binding site [chemical binding]; other site 313595008095 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 313595008096 Zn binding site [ion binding]; other site 313595008097 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313595008098 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 313595008099 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 313595008100 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595008101 catalytic residues [active] 313595008102 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313595008103 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 313595008104 active site residue [active] 313595008105 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 313595008106 metal-binding site [ion binding] 313595008107 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595008108 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 313595008109 ligand binding site [chemical binding]; other site 313595008110 flexible hinge region; other site 313595008111 putative switch regulator; other site 313595008112 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 313595008113 non-specific DNA interactions [nucleotide binding]; other site 313595008114 DNA binding site [nucleotide binding] 313595008115 sequence specific DNA binding site [nucleotide binding]; other site 313595008116 putative cAMP binding site [chemical binding]; other site 313595008117 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 313595008118 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 313595008119 active site 313595008120 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 313595008121 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 313595008122 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 313595008123 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 313595008124 intersubunit interface [polypeptide binding]; other site 313595008125 active site 313595008126 catalytic residue [active] 313595008127 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 313595008128 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 313595008129 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 313595008130 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 313595008131 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 313595008132 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313595008133 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 313595008134 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 313595008135 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 313595008136 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 313595008137 dimer interface [polypeptide binding]; other site 313595008138 motif 1; other site 313595008139 active site 313595008140 motif 2; other site 313595008141 motif 3; other site 313595008142 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 313595008143 anticodon binding site; other site 313595008144 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 313595008145 hydrophobic ligand binding site; other site 313595008146 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 313595008147 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 313595008148 homodimer interface [polypeptide binding]; other site 313595008149 substrate-cofactor binding pocket; other site 313595008150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595008151 catalytic residue [active] 313595008152 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 313595008153 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 313595008154 IHF dimer interface [polypeptide binding]; other site 313595008155 IHF - DNA interface [nucleotide binding]; other site 313595008156 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 313595008157 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 313595008158 putative active site [active] 313595008159 substrate binding site [chemical binding]; other site 313595008160 putative cosubstrate binding site; other site 313595008161 catalytic site [active] 313595008162 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 313595008163 substrate binding site [chemical binding]; other site 313595008164 DEAD-like helicases superfamily; Region: DEXDc; smart00487 313595008165 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 313595008166 ATP binding site [chemical binding]; other site 313595008167 putative Mg++ binding site [ion binding]; other site 313595008168 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 313595008169 nucleotide binding region [chemical binding]; other site 313595008170 ATP-binding site [chemical binding]; other site 313595008171 AAA domain; Region: AAA_28; pfam13521 313595008172 Predicted ATPase [General function prediction only]; Region: COG3911 313595008173 Protein of unknown function (DUF493); Region: DUF493; pfam04359 313595008174 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 313595008175 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 313595008176 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 313595008177 hinge; other site 313595008178 active site 313595008179 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 313595008180 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 313595008181 Catalytic site [active] 313595008182 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 313595008183 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 313595008184 active site 313595008185 DNA binding site [nucleotide binding] 313595008186 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 313595008187 GTP-binding protein YchF; Reviewed; Region: PRK09601 313595008188 YchF GTPase; Region: YchF; cd01900 313595008189 G1 box; other site 313595008190 GTP/Mg2+ binding site [chemical binding]; other site 313595008191 Switch I region; other site 313595008192 G2 box; other site 313595008193 Switch II region; other site 313595008194 G3 box; other site 313595008195 G4 box; other site 313595008196 G5 box; other site 313595008197 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 313595008198 TM2 domain; Region: TM2; pfam05154 313595008199 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 313595008200 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595008201 catalytic residues [active] 313595008202 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; pfam09603 313595008203 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313595008204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595008205 active site 313595008206 phosphorylation site [posttranslational modification] 313595008207 intermolecular recognition site; other site 313595008208 dimerization interface [polypeptide binding]; other site 313595008209 LytTr DNA-binding domain; Region: LytTR; smart00850 313595008210 Histidine kinase; Region: HisKA_2; pfam07568 313595008211 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595008212 ATP binding site [chemical binding]; other site 313595008213 Mg2+ binding site [ion binding]; other site 313595008214 G-X-G motif; other site 313595008215 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 313595008216 DEAD-like helicases superfamily; Region: DEXDc; smart00487 313595008217 ATP binding site [chemical binding]; other site 313595008218 Mg++ binding site [ion binding]; other site 313595008219 motif III; other site 313595008220 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 313595008221 nucleotide binding region [chemical binding]; other site 313595008222 ATP-binding site [chemical binding]; other site 313595008223 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 313595008224 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 313595008225 ATP binding site [chemical binding]; other site 313595008226 putative Mg++ binding site [ion binding]; other site 313595008227 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 313595008228 nucleotide binding region [chemical binding]; other site 313595008229 ATP-binding site [chemical binding]; other site 313595008230 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 313595008231 RNA binding site [nucleotide binding]; other site 313595008232 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 313595008233 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 313595008234 non-specific DNA binding site [nucleotide binding]; other site 313595008235 salt bridge; other site 313595008236 sequence-specific DNA binding site [nucleotide binding]; other site 313595008237 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 313595008238 active site 313595008239 catalytic triad [active] 313595008240 oxyanion hole [active] 313595008241 switch loop; other site 313595008242 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313595008243 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313595008244 Walker A/P-loop; other site 313595008245 ATP binding site [chemical binding]; other site 313595008246 Q-loop/lid; other site 313595008247 ABC transporter signature motif; other site 313595008248 Walker B; other site 313595008249 D-loop; other site 313595008250 H-loop/switch region; other site 313595008251 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 313595008252 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008253 FtsX-like permease family; Region: FtsX; pfam02687 313595008254 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313595008255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313595008256 Walker A/P-loop; other site 313595008257 ATP binding site [chemical binding]; other site 313595008258 Q-loop/lid; other site 313595008259 ABC transporter signature motif; other site 313595008260 Walker B; other site 313595008261 D-loop; other site 313595008262 H-loop/switch region; other site 313595008263 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 313595008264 GIY-YIG motif/motif A; other site 313595008265 putative active site [active] 313595008266 putative metal binding site [ion binding]; other site 313595008267 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 313595008268 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313595008269 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313595008270 Walker A/P-loop; other site 313595008271 ATP binding site [chemical binding]; other site 313595008272 Q-loop/lid; other site 313595008273 ABC transporter signature motif; other site 313595008274 Walker B; other site 313595008275 D-loop; other site 313595008276 H-loop/switch region; other site 313595008277 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313595008278 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008279 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313595008280 FtsX-like permease family; Region: FtsX; pfam02687 313595008281 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008282 FtsX-like permease family; Region: FtsX; pfam02687 313595008283 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 313595008284 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008285 FtsX-like permease family; Region: FtsX; pfam02687 313595008286 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008287 FtsX-like permease family; Region: FtsX; pfam02687 313595008288 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008289 FtsX-like permease family; Region: FtsX; pfam02687 313595008290 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008291 FtsX-like permease family; Region: FtsX; pfam02687 313595008292 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008293 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008294 FtsX-like permease family; Region: FtsX; pfam02687 313595008295 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008296 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313595008297 FtsX-like permease family; Region: FtsX; pfam02687 313595008298 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313595008299 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008300 FtsX-like permease family; Region: FtsX; pfam02687 313595008301 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 313595008302 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008303 FtsX-like permease family; Region: FtsX; pfam02687 313595008304 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008305 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 313595008306 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008307 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008308 FtsX-like permease family; Region: FtsX; pfam02687 313595008309 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595008310 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595008311 Winged helix-turn helix; Region: HTH_29; pfam13551 313595008312 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595008313 Homeodomain-like domain; Region: HTH_32; pfam13565 313595008314 Winged helix-turn helix; Region: HTH_33; pfam13592 313595008315 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595008316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595008317 Transposase domain (DUF772); Region: DUF772; pfam05598 313595008318 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 313595008319 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008320 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 313595008321 FtsX-like permease family; Region: FtsX; pfam02687 313595008322 FtsX-like permease family; Region: FtsX; pfam02687 313595008323 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008324 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313595008325 FtsX-like permease family; Region: FtsX; pfam02687 313595008326 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313595008327 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008328 FtsX-like permease family; Region: FtsX; pfam02687 313595008329 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008330 FtsX-like permease family; Region: FtsX; pfam02687 313595008331 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313595008332 FtsX-like permease family; Region: FtsX; pfam02687 313595008333 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313595008334 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313595008335 Walker A/P-loop; other site 313595008336 ATP binding site [chemical binding]; other site 313595008337 Q-loop/lid; other site 313595008338 ABC transporter signature motif; other site 313595008339 Walker B; other site 313595008340 D-loop; other site 313595008341 H-loop/switch region; other site 313595008342 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313595008343 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595008344 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 313595008345 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595008346 active site 313595008347 phosphorylation site [posttranslational modification] 313595008348 intermolecular recognition site; other site 313595008349 dimerization interface [polypeptide binding]; other site 313595008350 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 313595008351 Walker A motif; other site 313595008352 ATP binding site [chemical binding]; other site 313595008353 Walker B motif; other site 313595008354 arginine finger; other site 313595008355 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 313595008356 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 313595008357 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595008358 ATP binding site [chemical binding]; other site 313595008359 Mg2+ binding site [ion binding]; other site 313595008360 G-X-G motif; other site 313595008361 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 313595008362 HSP70 interaction site [polypeptide binding]; other site 313595008363 KTSC domain; Region: KTSC; pfam13619 313595008364 Fatty acid desaturase; Region: FA_desaturase; pfam00487 313595008365 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 313595008366 Di-iron ligands [ion binding]; other site 313595008367 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 313595008368 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595008369 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 313595008370 ligand binding site [chemical binding]; other site 313595008371 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313595008372 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595008373 intermolecular recognition site; other site 313595008374 active site 313595008375 dimerization interface [polypeptide binding]; other site 313595008376 LytTr DNA-binding domain; Region: LytTR; smart00850 313595008377 Histidine kinase; Region: His_kinase; pfam06580 313595008378 Winged helix-turn helix; Region: HTH_29; pfam13551 313595008379 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595008380 Homeodomain-like domain; Region: HTH_32; pfam13565 313595008381 Winged helix-turn helix; Region: HTH_33; pfam13592 313595008382 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595008383 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595008384 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 313595008385 DNA-binding site [nucleotide binding]; DNA binding site 313595008386 RNA-binding motif; other site 313595008387 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313595008388 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313595008389 active site 313595008390 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 313595008391 thiamine phosphate binding site [chemical binding]; other site 313595008392 active site 313595008393 pyrophosphate binding site [ion binding]; other site 313595008394 CotH protein; Region: CotH; pfam08757 313595008395 Lamin Tail Domain; Region: LTD; pfam00932 313595008396 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595008397 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 313595008398 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 313595008399 Amidohydrolase; Region: Amidohydro_4; pfam13147 313595008400 active site 313595008401 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 313595008402 active site 313595008403 metal binding site [ion binding]; metal-binding site 313595008404 CAAX protease self-immunity; Region: Abi; pfam02517 313595008405 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595008406 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595008407 Predicted membrane protein [Function unknown]; Region: COG2311 313595008408 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 313595008409 Protein of unknown function (DUF418); Region: DUF418; pfam04235 313595008410 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 313595008411 Helix-turn-helix domain; Region: HTH_18; pfam12833 313595008412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595008413 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313595008414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313595008415 HD domain protein, cyanamide hydratase family; Region: cyanamide_fam; TIGR03401 313595008416 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 313595008417 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 313595008418 active site 313595008419 Zn binding site [ion binding]; other site 313595008420 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 313595008421 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 313595008422 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595008423 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 313595008424 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 313595008425 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 313595008426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 313595008427 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 313595008428 Uncharacterized conserved protein [Function unknown]; Region: COG2353 313595008429 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595008430 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 313595008431 ligand binding site [chemical binding]; other site 313595008432 flexible hinge region; other site 313595008433 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 313595008434 non-specific DNA interactions [nucleotide binding]; other site 313595008435 DNA binding site [nucleotide binding] 313595008436 sequence specific DNA binding site [nucleotide binding]; other site 313595008437 putative cAMP binding site [chemical binding]; other site 313595008438 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 313595008439 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 313595008440 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313595008441 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313595008442 HlyD family secretion protein; Region: HlyD_3; pfam13437 313595008443 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313595008444 Protein export membrane protein; Region: SecD_SecF; cl14618 313595008445 Protein export membrane protein; Region: SecD_SecF; cl14618 313595008446 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 313595008447 cyclase homology domain; Region: CHD; cd07302 313595008448 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 313595008449 nucleotidyl binding site; other site 313595008450 metal binding site [ion binding]; metal-binding site 313595008451 dimer interface [polypeptide binding]; other site 313595008452 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 313595008453 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313595008454 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 313595008455 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313595008456 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595008457 aconitate hydratase; Validated; Region: PRK07229 313595008458 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 313595008459 substrate binding site [chemical binding]; other site 313595008460 ligand binding site [chemical binding]; other site 313595008461 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 313595008462 substrate binding site [chemical binding]; other site 313595008463 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313595008464 active site 313595008465 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 313595008466 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 313595008467 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313595008468 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 313595008469 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 313595008470 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 313595008471 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 313595008472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313595008473 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 313595008474 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 313595008475 DNA binding residues [nucleotide binding] 313595008476 short chain dehydrogenase; Provisional; Region: PRK07326 313595008477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595008478 NAD(P) binding site [chemical binding]; other site 313595008479 active site 313595008480 Transglycosylase; Region: Transgly; pfam00912 313595008481 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 313595008482 SdiA-regulated; Region: SdiA-regulated; cd09971 313595008483 putative active site [active] 313595008484 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 313595008485 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313595008486 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313595008487 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 313595008488 putative substrate translocation pore; other site 313595008489 BCCT family transporter; Region: BCCT; pfam02028 313595008490 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 313595008491 ATP binding site [chemical binding]; other site 313595008492 putative Mg++ binding site [ion binding]; other site 313595008493 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 313595008494 nucleotide binding region [chemical binding]; other site 313595008495 ATP-binding site [chemical binding]; other site 313595008496 hypothetical protein; Provisional; Region: PRK12378 313595008497 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 313595008498 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 313595008499 putative DNA binding site [nucleotide binding]; other site 313595008500 putative Zn2+ binding site [ion binding]; other site 313595008501 AsnC family; Region: AsnC_trans_reg; pfam01037 313595008502 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 313595008503 putative active site [active] 313595008504 Zn binding site [ion binding]; other site 313595008505 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313595008506 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 313595008507 non-specific DNA binding site [nucleotide binding]; other site 313595008508 salt bridge; other site 313595008509 sequence-specific DNA binding site [nucleotide binding]; other site 313595008510 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 313595008511 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 313595008512 CAP-like domain; other site 313595008513 active site 313595008514 primary dimer interface [polypeptide binding]; other site 313595008515 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 313595008516 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595008517 ATP binding site [chemical binding]; other site 313595008518 Mg2+ binding site [ion binding]; other site 313595008519 G-X-G motif; other site 313595008520 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 313595008521 ATP binding site [chemical binding]; other site 313595008522 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 313595008523 active site 313595008524 putative metal-binding site [ion binding]; other site 313595008525 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 313595008526 4Fe-4S binding domain; Region: Fer4; cl02805 313595008527 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 313595008528 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 313595008529 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 313595008530 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313595008531 catalytic residue [active] 313595008532 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 313595008533 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 313595008534 putative ligand binding site [chemical binding]; other site 313595008535 NAD binding site [chemical binding]; other site 313595008536 dimerization interface [polypeptide binding]; other site 313595008537 catalytic site [active] 313595008538 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 313595008539 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 313595008540 Sporulation related domain; Region: SPOR; pfam05036 313595008541 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595008542 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 313595008543 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 313595008544 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 313595008545 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 313595008546 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 313595008547 oligomer interface [polypeptide binding]; other site 313595008548 metal binding site [ion binding]; metal-binding site 313595008549 metal binding site [ion binding]; metal-binding site 313595008550 Cl binding site [ion binding]; other site 313595008551 aspartate ring; other site 313595008552 basic sphincter; other site 313595008553 putative hydrophobic gate; other site 313595008554 periplasmic entrance; other site 313595008555 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 313595008556 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 313595008557 active site 313595008558 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 313595008559 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 313595008560 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 313595008561 metal binding site [ion binding]; metal-binding site 313595008562 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 313595008563 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 313595008564 substrate binding site [chemical binding]; other site 313595008565 glutamase interaction surface [polypeptide binding]; other site 313595008566 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 313595008567 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 313595008568 catalytic residues [active] 313595008569 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 313595008570 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 313595008571 putative active site [active] 313595008572 oxyanion strand; other site 313595008573 catalytic triad [active] 313595008574 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 313595008575 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 313595008576 active site 313595008577 motif I; other site 313595008578 motif II; other site 313595008579 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 313595008580 putative active site pocket [active] 313595008581 4-fold oligomerization interface [polypeptide binding]; other site 313595008582 metal binding residues [ion binding]; metal-binding site 313595008583 3-fold/trimer interface [polypeptide binding]; other site 313595008584 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 313595008585 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 313595008586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595008587 homodimer interface [polypeptide binding]; other site 313595008588 catalytic residue [active] 313595008589 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 313595008590 histidinol dehydrogenase; Region: hisD; TIGR00069 313595008591 NAD binding site [chemical binding]; other site 313595008592 dimerization interface [polypeptide binding]; other site 313595008593 product binding site; other site 313595008594 substrate binding site [chemical binding]; other site 313595008595 zinc binding site [ion binding]; other site 313595008596 catalytic residues [active] 313595008597 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 313595008598 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 313595008599 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 313595008600 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 313595008601 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 313595008602 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 313595008603 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 313595008604 NAD(P) binding site [chemical binding]; other site 313595008605 homotetramer interface [polypeptide binding]; other site 313595008606 homodimer interface [polypeptide binding]; other site 313595008607 active site 313595008608 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 313595008609 CoA binding domain; Region: CoA_binding; smart00881 313595008610 CoA-ligase; Region: Ligase_CoA; pfam00549 313595008611 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 313595008612 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 313595008613 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 313595008614 trimer interface [polypeptide binding]; other site 313595008615 active site 313595008616 UDP-GlcNAc binding site [chemical binding]; other site 313595008617 lipid binding site [chemical binding]; lipid-binding site 313595008618 elongation factor P; Validated; Region: PRK00529 313595008619 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 313595008620 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 313595008621 RNA binding site [nucleotide binding]; other site 313595008622 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 313595008623 RNA binding site [nucleotide binding]; other site 313595008624 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 313595008625 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 313595008626 active site 313595008627 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 313595008628 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 313595008629 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 313595008630 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 313595008631 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 313595008632 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 313595008633 trimer interface [polypeptide binding]; other site 313595008634 active site 313595008635 UDP-GlcNAc binding site [chemical binding]; other site 313595008636 lipid binding site [chemical binding]; lipid-binding site 313595008637 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 313595008638 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313595008639 Zn2+ binding site [ion binding]; other site 313595008640 Mg2+ binding site [ion binding]; other site 313595008641 Response regulator receiver domain; Region: Response_reg; pfam00072 313595008642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595008643 active site 313595008644 phosphorylation site [posttranslational modification] 313595008645 intermolecular recognition site; other site 313595008646 dimerization interface [polypeptide binding]; other site 313595008647 PglZ domain; Region: PglZ; pfam08665 313595008648 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313595008649 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 313595008650 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 313595008651 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 313595008652 hexamer interface [polypeptide binding]; other site 313595008653 ligand binding site [chemical binding]; other site 313595008654 putative active site [active] 313595008655 NAD(P) binding site [chemical binding]; other site 313595008656 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 313595008657 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 313595008658 substrate binding pocket [chemical binding]; other site 313595008659 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 313595008660 membrane-bound complex binding site; other site 313595008661 hinge residues; other site 313595008662 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 313595008663 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 313595008664 N-acetyl-D-glucosamine binding site [chemical binding]; other site 313595008665 catalytic residue [active] 313595008666 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 313595008667 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 313595008668 N-terminal plug; other site 313595008669 ligand-binding site [chemical binding]; other site 313595008670 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 313595008671 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595008672 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 313595008673 Clp amino terminal domain; Region: Clp_N; pfam02861 313595008674 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 313595008675 Walker A motif; other site 313595008676 ATP binding site [chemical binding]; other site 313595008677 Walker B motif; other site 313595008678 arginine finger; other site 313595008679 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 313595008680 Walker A motif; other site 313595008681 ATP binding site [chemical binding]; other site 313595008682 Walker B motif; other site 313595008683 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 313595008684 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 313595008685 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 313595008686 trimer interface [polypeptide binding]; other site 313595008687 putative metal binding site [ion binding]; other site 313595008688 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313595008689 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 313595008690 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313595008691 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 313595008692 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 313595008693 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313595008694 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 313595008695 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313595008696 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 313595008697 Response regulator receiver domain; Region: Response_reg; pfam00072 313595008698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595008699 active site 313595008700 phosphorylation site [posttranslational modification] 313595008701 intermolecular recognition site; other site 313595008702 dimerization interface [polypeptide binding]; other site 313595008703 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313595008704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595008705 Histidine kinase; Region: HisKA_2; pfam07568 313595008706 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313595008707 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 313595008708 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 313595008709 N-acetyl-D-glucosamine binding site [chemical binding]; other site 313595008710 catalytic residue [active] 313595008711 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 313595008712 Predicted acetyltransferase [General function prediction only]; Region: COG2388 313595008713 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 313595008714 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313595008715 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313595008716 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 313595008717 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 313595008718 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313595008719 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313595008720 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 313595008721 homodecamer interface [polypeptide binding]; other site 313595008722 GTP cyclohydrolase I; Provisional; Region: PLN03044 313595008723 active site 313595008724 putative catalytic site residues [active] 313595008725 zinc binding site [ion binding]; other site 313595008726 GTP-CH-I/GFRP interaction surface; other site 313595008727 methionine sulfoxide reductase A; Provisional; Region: PRK14054 313595008728 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313595008729 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313595008730 Walker A/P-loop; other site 313595008731 ATP binding site [chemical binding]; other site 313595008732 Q-loop/lid; other site 313595008733 ABC transporter signature motif; other site 313595008734 Walker B; other site 313595008735 D-loop; other site 313595008736 H-loop/switch region; other site 313595008737 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 313595008738 GAF domain; Region: GAF; pfam01590 313595008739 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313595008740 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595008741 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 313595008742 dimer interface [polypeptide binding]; other site 313595008743 phosphorylation site [posttranslational modification] 313595008744 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595008745 ATP binding site [chemical binding]; other site 313595008746 Mg2+ binding site [ion binding]; other site 313595008747 G-X-G motif; other site 313595008748 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 313595008749 dihydroorotase; Validated; Region: pyrC; PRK09357 313595008750 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 313595008751 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 313595008752 active site 313595008753 Tic20-like protein; Region: Tic20; pfam09685 313595008754 putative hydrolase; Provisional; Region: PRK11460 313595008755 Predicted esterase [General function prediction only]; Region: COG0400 313595008756 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 313595008757 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 313595008758 ATP-binding site [chemical binding]; other site 313595008759 Sugar specificity; other site 313595008760 Pyrimidine base specificity; other site 313595008761 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 313595008762 heterodimer interface [polypeptide binding]; other site 313595008763 substrate interaction site [chemical binding]; other site 313595008764 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 313595008765 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 313595008766 active site 313595008767 substrate binding site [chemical binding]; other site 313595008768 coenzyme B12 binding site [chemical binding]; other site 313595008769 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 313595008770 B12 binding site [chemical binding]; other site 313595008771 cobalt ligand [ion binding]; other site 313595008772 GH3 auxin-responsive promoter; Region: GH3; pfam03321 313595008773 HTH-like domain; Region: HTH_21; pfam13276 313595008774 Integrase core domain; Region: rve; pfam00665 313595008775 Integrase core domain; Region: rve_3; pfam13683 313595008776 Winged helix-turn helix; Region: HTH_29; pfam13551 313595008777 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 313595008778 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 313595008779 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 313595008780 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 313595008781 catalytic center binding site [active] 313595008782 ATP binding site [chemical binding]; other site 313595008783 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 313595008784 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 313595008785 Substrate-binding site [chemical binding]; other site 313595008786 Substrate specificity [chemical binding]; other site 313595008787 FAD dependent oxidoreductase; Region: DAO; pfam01266 313595008788 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313595008789 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 313595008790 serine O-acetyltransferase; Region: cysE; TIGR01172 313595008791 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 313595008792 trimer interface [polypeptide binding]; other site 313595008793 active site 313595008794 substrate binding site [chemical binding]; other site 313595008795 CoA binding site [chemical binding]; other site 313595008796 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 313595008797 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 313595008798 dimer interface [polypeptide binding]; other site 313595008799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313595008800 catalytic residue [active] 313595008801 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 313595008802 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 313595008803 dimer interface [polypeptide binding]; other site 313595008804 active site 313595008805 CoA binding pocket [chemical binding]; other site 313595008806 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 313595008807 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 313595008808 NAD binding site [chemical binding]; other site 313595008809 homotetramer interface [polypeptide binding]; other site 313595008810 homodimer interface [polypeptide binding]; other site 313595008811 substrate binding site [chemical binding]; other site 313595008812 active site 313595008813 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 313595008814 DNA polymerase III, delta subunit; Region: holA; TIGR01128 313595008815 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 313595008816 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 313595008817 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 313595008818 Probable Catalytic site; other site 313595008819 metal-binding site 313595008820 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313595008821 ligand binding site [chemical binding]; other site 313595008822 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 313595008823 non-specific DNA binding site [nucleotide binding]; other site 313595008824 salt bridge; other site 313595008825 sequence-specific DNA binding site [nucleotide binding]; other site 313595008826 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 313595008827 Catalytic site [active] 313595008828 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 313595008829 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 313595008830 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 313595008831 putative Mg++ binding site [ion binding]; other site 313595008832 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 313595008833 nucleotide binding region [chemical binding]; other site 313595008834 ATP-binding site [chemical binding]; other site 313595008835 Hevein or type 1 chitin binding domain; Region: ChtBD1; cl16916 313595008836 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 313595008837 Transposase IS200 like; Region: Y1_Tnp; pfam01797 313595008838 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595008839 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 313595008840 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313595008841 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 313595008842 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313595008843 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 313595008844 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 313595008845 putative active site [active] 313595008846 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313595008847 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313595008848 ligand binding site [chemical binding]; other site 313595008849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 313595008850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 313595008851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 313595008852 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 313595008853 Bacterial SH3 domain; Region: SH3_3; cl17532 313595008854 Caspase domain; Region: Peptidase_C14; pfam00656 313595008855 Uncharacterized conserved protein [Function unknown]; Region: COG4748 313595008856 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 313595008857 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 313595008858 RloB-like protein; Region: RloB; pfam13707 313595008859 AAA domain; Region: AAA_21; pfam13304 313595008860 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 313595008861 non-specific DNA binding site [nucleotide binding]; other site 313595008862 salt bridge; other site 313595008863 sequence-specific DNA binding site [nucleotide binding]; other site 313595008864 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 313595008865 CAAX protease self-immunity; Region: Abi; pfam02517 313595008866 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 313595008867 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 313595008868 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595008869 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 313595008870 dimer interface [polypeptide binding]; other site 313595008871 phosphorylation site [posttranslational modification] 313595008872 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595008873 ATP binding site [chemical binding]; other site 313595008874 Mg2+ binding site [ion binding]; other site 313595008875 G-X-G motif; other site 313595008876 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 313595008877 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 313595008878 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 313595008879 acyl-activating enzyme (AAE) consensus motif; other site 313595008880 putative AMP binding site [chemical binding]; other site 313595008881 putative active site [active] 313595008882 putative CoA binding site [chemical binding]; other site 313595008883 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595008884 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595008885 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 313595008886 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 313595008887 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595008888 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 313595008889 proposed catalytic triad [active] 313595008890 active site nucleophile [active] 313595008891 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 313595008892 trimer interface [polypeptide binding]; other site 313595008893 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595008894 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313595008895 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 313595008896 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 313595008897 Helix-turn-helix domain; Region: HTH_38; pfam13936 313595008898 Integrase core domain; Region: rve; pfam00665 313595008899 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 313595008900 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 313595008901 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 313595008902 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 313595008903 ThiC-associated domain; Region: ThiC-associated; pfam13667 313595008904 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 313595008905 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 313595008906 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 313595008907 G1 box; other site 313595008908 putative GEF interaction site [polypeptide binding]; other site 313595008909 GTP/Mg2+ binding site [chemical binding]; other site 313595008910 Switch I region; other site 313595008911 G2 box; other site 313595008912 G3 box; other site 313595008913 Switch II region; other site 313595008914 G4 box; other site 313595008915 G5 box; other site 313595008916 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 313595008917 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 313595008918 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313595008919 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313595008920 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313595008921 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313595008922 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313595008923 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313595008924 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313595008925 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 313595008926 binding surface 313595008927 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313595008928 TPR motif; other site 313595008929 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 313595008930 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 313595008931 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313595008932 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313595008933 Zn binding site [ion binding]; other site 313595008934 Winged helix-turn helix; Region: HTH_29; pfam13551 313595008935 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595008936 Homeodomain-like domain; Region: HTH_32; pfam13565 313595008937 Winged helix-turn helix; Region: HTH_33; pfam13592 313595008938 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595008939 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595008940 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 313595008941 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 313595008942 Walker A/P-loop; other site 313595008943 ATP binding site [chemical binding]; other site 313595008944 Q-loop/lid; other site 313595008945 ABC transporter signature motif; other site 313595008946 Walker B; other site 313595008947 D-loop; other site 313595008948 H-loop/switch region; other site 313595008949 Histidine kinase; Region: His_kinase; pfam06580 313595008950 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313595008951 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595008952 active site 313595008953 phosphorylation site [posttranslational modification] 313595008954 intermolecular recognition site; other site 313595008955 dimerization interface [polypeptide binding]; other site 313595008956 LytTr DNA-binding domain; Region: LytTR; smart00850 313595008957 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595008958 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595008959 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 313595008960 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 313595008961 Response regulator receiver domain; Region: Response_reg; pfam00072 313595008962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 313595008963 active site 313595008964 phosphorylation site [posttranslational modification] 313595008965 intermolecular recognition site; other site 313595008966 dimerization interface [polypeptide binding]; other site 313595008967 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595008968 dimer interface [polypeptide binding]; other site 313595008969 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 313595008970 phosphorylation site [posttranslational modification] 313595008971 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595008972 ATP binding site [chemical binding]; other site 313595008973 Mg2+ binding site [ion binding]; other site 313595008974 G-X-G motif; other site 313595008975 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313595008976 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 313595008977 PAS fold; Region: PAS; pfam00989 313595008978 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595008979 putative active site [active] 313595008980 heme pocket [chemical binding]; other site 313595008981 PAS fold; Region: PAS; pfam00989 313595008982 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 313595008983 putative active site [active] 313595008984 heme pocket [chemical binding]; other site 313595008985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595008986 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 313595008987 dimer interface [polypeptide binding]; other site 313595008988 phosphorylation site [posttranslational modification] 313595008989 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595008990 ATP binding site [chemical binding]; other site 313595008991 Mg2+ binding site [ion binding]; other site 313595008992 G-X-G motif; other site 313595008993 PAS fold; Region: PAS_3; pfam08447 313595008994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313595008995 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 313595008996 dimer interface [polypeptide binding]; other site 313595008997 phosphorylation site [posttranslational modification] 313595008998 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 313595008999 ATP binding site [chemical binding]; other site 313595009000 Mg2+ binding site [ion binding]; other site 313595009001 G-X-G motif; other site 313595009002 Heme NO binding; Region: HNOB; pfam07700 313595009003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 313595009004 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 313595009005 Protein of unknown function (DUF3997); Region: DUF3997; pfam13162 313595009006 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 313595009007 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313595009008 ligand binding site [chemical binding]; other site 313595009009 flexible hinge region; other site 313595009010 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 313595009011 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313595009012 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 313595009013 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 313595009014 cyclase homology domain; Region: CHD; cd07302 313595009015 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 313595009016 nucleotidyl binding site; other site 313595009017 metal binding site [ion binding]; metal-binding site 313595009018 dimer interface [polypeptide binding]; other site 313595009019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313595009020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 313595009021 Coenzyme A binding pocket [chemical binding]; other site 313595009022 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595009023 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595009024 Winged helix-turn helix; Region: HTH_29; pfam13551 313595009025 Helix-turn-helix domain; Region: HTH_28; pfam13518 313595009026 Homeodomain-like domain; Region: HTH_32; pfam13565 313595009027 Winged helix-turn helix; Region: HTH_33; pfam13592 313595009028 DDE superfamily endonuclease; Region: DDE_3; pfam13358 313595009029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 313595009030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313595009031 NAD(P) binding site [chemical binding]; other site 313595009032 active site 313595009033 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313595009034 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 313595009035 Helix-turn-helix domain; Region: HTH_18; pfam12833 313595009036 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 313595009037 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 313595009038 Amidohydrolase; Region: Amidohydro_4; pfam13147 313595009039 active site 313595009040 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313595009041 Beta-lactamase; Region: Beta-lactamase; pfam00144 313595009042 Helix-turn-helix domain; Region: HTH_18; pfam12833 313595009043 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313595009044 chaperone protein DnaJ; Provisional; Region: PRK14301