-- dump date 20111121_011604 -- class Genbank::misc_feature -- table misc_feature_note -- id note 713887000001 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 713887000002 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887000003 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 713887000004 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 713887000005 dimer interface [polypeptide binding]; other site 713887000006 active site 713887000007 metal binding site [ion binding]; metal-binding site 713887000008 glutathione binding site [chemical binding]; other site 713887000009 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 713887000010 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 713887000011 S-adenosylmethionine binding site [chemical binding]; other site 713887000012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 713887000013 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 713887000014 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 713887000015 active site 713887000016 phosphorylation site [posttranslational modification] 713887000017 intermolecular recognition site; other site 713887000018 dimerization interface [polypeptide binding]; other site 713887000019 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...; Region: trans_reg_C; cd00383 713887000020 DNA binding site [nucleotide binding] 713887000021 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 713887000022 putative GSH binding site [chemical binding]; other site 713887000023 catalytic residues [active] 713887000024 BolA-like protein; Region: BolA; cl00386 713887000025 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 713887000026 RNB domain; Region: RNB; pfam00773 713887000027 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 713887000028 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 713887000029 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 713887000030 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 713887000031 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 (...; Region: EcAsnRS_like_N; cd04318 713887000032 putative dimer interface [polypeptide binding]; other site 713887000033 putative anticodon binding site; other site 713887000034 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...; Region: AsxRS_core; cd00776 713887000035 homodimer interface [polypeptide binding]; other site 713887000036 motif 1; other site 713887000037 motif 2; other site 713887000038 active site 713887000039 motif 3; other site 713887000040 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 713887000041 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 713887000042 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 713887000043 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 713887000044 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 713887000045 substrate binding site [chemical binding]; other site 713887000046 hinge regions; other site 713887000047 ADP binding site [chemical binding]; other site 713887000048 catalytic site [active] 713887000049 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 713887000050 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 713887000051 HIGH motif; other site 713887000052 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 713887000053 active site 713887000054 KMSKS motif; other site 713887000055 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 713887000056 tRNA binding surface [nucleotide binding]; other site 713887000057 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 713887000058 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 713887000059 ATP binding site [chemical binding]; other site 713887000060 putative Mg++ binding site [ion binding]; other site 713887000061 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 713887000062 nucleotide binding region [chemical binding]; other site 713887000063 ATP-binding site [chemical binding]; other site 713887000064 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 713887000065 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 713887000066 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 713887000067 GIY-YIG motif/motif A; other site 713887000068 active site 713887000069 catalytic site [active] 713887000070 putative DNA binding site [nucleotide binding]; other site 713887000071 metal binding site [ion binding]; metal-binding site 713887000072 UvrB/uvrC motif; Region: UVR; pfam02151 713887000073 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 713887000074 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 713887000075 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 713887000076 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 713887000077 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...; Region: HNHc; cd00085 713887000078 active site 713887000079 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 713887000080 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 713887000081 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 713887000082 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 713887000083 dihydrodipicolinate synthase; Region: dapA; TIGR00674 713887000084 dimer interface [polypeptide binding]; other site 713887000085 active site 713887000086 catalytic residue [active] 713887000087 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 713887000088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887000089 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 713887000090 elongation factor P; Validated; Region: PRK00529 713887000091 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 713887000092 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 713887000093 RNA binding site [nucleotide binding]; other site 713887000094 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 713887000095 RNA binding site [nucleotide binding]; other site 713887000096 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 713887000097 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 713887000098 carboxyltransferase (CT) interaction site; other site 713887000099 biotinylation site [posttranslational modification]; other site 713887000100 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 713887000101 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887000102 Walker A/P-loop; other site 713887000103 ATP binding site [chemical binding]; other site 713887000104 Q-loop/lid; other site 713887000105 ABC transporter signature motif; other site 713887000106 Walker B; other site 713887000107 D-loop; other site 713887000108 H-loop/switch region; other site 713887000109 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 713887000110 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 713887000111 homodimer interface [polypeptide binding]; other site 713887000112 oligonucleotide binding site [chemical binding]; other site 713887000113 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 713887000114 photosystem I assembly protein Ycf3; Provisional; Region: PRK02603 713887000115 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 713887000116 binding surface 713887000117 TPR motif; other site 713887000118 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 713887000119 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...; Region: TM_PBP2; cd06261 713887000120 dimer interface [polypeptide binding]; other site 713887000121 conserved gate region; other site 713887000122 putative PBP binding loops; other site 713887000123 ABC-ATPase subunit interface; other site 713887000124 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 713887000125 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 713887000126 HIGH motif; other site 713887000127 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 713887000128 active site 713887000129 KMSKS motif; other site 713887000130 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 713887000131 tRNA binding surface [nucleotide binding]; other site 713887000132 anticodon binding site; other site 713887000133 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 713887000134 Recombination protein O N terminal; Region: RecO_N; pfam11967 713887000135 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 713887000136 Recombination protein O C terminal; Region: RecO_C; pfam02565 713887000137 Protein of unknown function (DUF751); Region: DUF751; pfam05421 713887000138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 713887000139 Uncharacterised BCR, COG1649; Region: DUF187; pfam02638 713887000140 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 713887000141 HflK protein; Region: hflK; TIGR01933 713887000142 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 713887000143 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 713887000144 Walker A/P-loop; other site 713887000145 ATP binding site [chemical binding]; other site 713887000146 Q-loop/lid; other site 713887000147 ABC transporter signature motif; other site 713887000148 Walker B; other site 713887000149 D-loop; other site 713887000150 H-loop/switch region; other site 713887000151 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 713887000152 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...; Region: SHMT; cd00378 713887000153 dimer interface [polypeptide binding]; other site 713887000154 glycine-pyridoxal phosphate binding site [chemical binding]; other site 713887000155 active site 713887000156 folate binding site [chemical binding]; other site 713887000157 Domain of unknown function (DUF697); Region: DUF697; cl12064 713887000158 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 713887000159 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 713887000160 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 713887000161 ATP binding site [chemical binding]; other site 713887000162 putative Mg++ binding site [ion binding]; other site 713887000163 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 713887000164 nucleotide binding region [chemical binding]; other site 713887000165 ATP-binding site [chemical binding]; other site 713887000166 TRCF domain; Region: TRCF; cl04088 713887000167 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 713887000168 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 713887000169 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 713887000170 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 713887000171 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 713887000172 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 713887000173 binding surface 713887000174 TPR motif; other site 713887000175 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 713887000176 binding surface 713887000177 TPR motif; other site 713887000178 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 713887000179 binding surface 713887000180 TPR motif; other site 713887000181 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 713887000182 dinuclear metal binding motif [ion binding]; other site 713887000183 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 713887000184 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 713887000185 active site 713887000186 HIGH motif; other site 713887000187 dimer interface [polypeptide binding]; other site 713887000188 KMSKS motif; other site 713887000189 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 713887000190 binding surface 713887000191 TPR motif; other site 713887000192 CTP synthetase; Validated; Region: pyrG; PRK05380 713887000193 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...; Region: CTGs; cd03113 713887000194 Catalytic site [active] 713887000195 Active site [active] 713887000196 UTP binding site [chemical binding]; other site 713887000197 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 713887000198 active site 713887000199 putative oxyanion hole; other site 713887000200 catalytic triad [active] 713887000201 Protein of unknown function (DUF1350); Region: DUF1350; pfam07082 713887000202 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14360 713887000203 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 713887000204 Substrate binding site [chemical binding]; other site 713887000205 Mg++ binding site [ion binding]; other site 713887000206 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 713887000207 active site 713887000208 substrate binding site [chemical binding]; other site 713887000209 CoA binding site [chemical binding]; other site 713887000210 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 713887000211 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 713887000212 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 713887000213 synthetase active site [active] 713887000214 NTP binding site [chemical binding]; other site 713887000215 metal binding site [ion binding]; metal-binding site 713887000216 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...; Region: TGS_RelA_SpoT; cd01668 713887000217 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 713887000218 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 713887000219 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 713887000220 [2Fe-2S] cluster binding site [ion binding]; other site 713887000221 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 713887000222 hydrophobic ligand binding site; other site 713887000223 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 713887000224 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 713887000225 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 713887000226 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 713887000227 B12 binding site [chemical binding]; other site 713887000228 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; cl15259 713887000229 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 713887000230 RimM N-terminal domain; Region: RimM; pfam01782 713887000231 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 713887000232 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 713887000233 anti sigma factor interaction site; other site 713887000234 regulatory phosphorylation site [posttranslational modification]; other site 713887000235 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 post-...; Region: RIBOc; cl00258 713887000236 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 713887000237 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 713887000238 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 713887000239 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 713887000240 Sulfatase; Region: Sulfatase; cl10460 713887000241 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 713887000242 RNA/DNA hybrid binding site [nucleotide binding]; other site 713887000243 active site 713887000244 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 713887000245 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 713887000246 FeS/SAM binding site; other site 713887000247 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 713887000248 GTP-binding protein LepA; Provisional; Region: PRK05433 713887000249 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 713887000250 G1 box; other site 713887000251 putative GEF interaction site [polypeptide binding]; other site 713887000252 GTP/Mg2+ binding site [chemical binding]; other site 713887000253 Switch I region; other site 713887000254 G2 box; other site 713887000255 G3 box; other site 713887000256 Switch II region; other site 713887000257 G4 box; other site 713887000258 G5 box; other site 713887000259 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-...; Region: lepA_II; cd03699 713887000260 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 713887000261 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 713887000262 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 713887000263 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2)...; Region: phosphohexomutase; cl03757 713887000264 active site 713887000265 metal binding site [ion binding]; metal-binding site 713887000266 substrate binding site [chemical binding]; other site 713887000267 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 713887000268 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 713887000269 active site 713887000270 (T/H)XGH motif; other site 713887000271 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 713887000272 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 713887000273 substrate binding pocket [chemical binding]; other site 713887000274 chain length determination region; other site 713887000275 substrate-Mg2+ binding site; other site 713887000276 catalytic residues [active] 713887000277 aspartate-rich region 1; other site 713887000278 active site lid residues [active] 713887000279 aspartate-rich region 2; other site 713887000280 Divergent PAP2 family; Region: DUF212; cl00855 713887000281 RNA polymerase sigma factor RpoD; Validated; Region: PRK07406 713887000282 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 713887000283 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 713887000284 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...; Region: Sigma70_r4; cd06171 713887000285 DNA binding residues [nucleotide binding] 713887000286 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 713887000287 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 713887000288 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 713887000289 catalytic loop [active] 713887000290 iron binding site [ion binding]; other site 713887000291 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 713887000292 Sodium:solute symporter family; Region: SSF; cl00456 713887000293 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 713887000294 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 713887000295 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 713887000296 active site residue [active] 713887000297 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 713887000298 HrcA protein C terminal domain; Region: HrcA; pfam01628 713887000299 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 713887000300 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; cl09110 713887000301 DctM-like transporters; Region: DctM; pfam06808 713887000302 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 713887000303 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 713887000304 Walker A/P-loop; other site 713887000305 ATP binding site [chemical binding]; other site 713887000306 Q-loop/lid; other site 713887000307 ABC transporter signature motif; other site 713887000308 Walker B; other site 713887000309 D-loop; other site 713887000310 H-loop/switch region; other site 713887000311 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 713887000312 mce related protein; Region: MCE; pfam02470 713887000313 Substrate binding subunit of ER-derived-lipid transporter; Provisional; Region: PLN03094 713887000314 Uncharacterized conserved protein [Function unknown]; Region: COG3349 713887000315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887000316 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 713887000317 active site lid residues [active] 713887000318 substrate binding pocket [chemical binding]; other site 713887000319 catalytic residues [active] 713887000320 substrate-Mg2+ binding site; other site 713887000321 aspartate-rich region 1; other site 713887000322 aspartate-rich region 2; other site 713887000323 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 713887000324 GTP-binding protein YchF; Reviewed; Region: PRK09601 713887000325 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 713887000326 G1 box; other site 713887000327 GTP/Mg2+ binding site [chemical binding]; other site 713887000328 Switch I region; other site 713887000329 G2 box; other site 713887000330 Switch II region; other site 713887000331 G3 box; other site 713887000332 G4 box; other site 713887000333 G5 box; other site 713887000334 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 713887000335 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 713887000336 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 713887000337 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 713887000338 dimer interface [polypeptide binding]; other site 713887000339 active site 713887000340 CoA binding pocket [chemical binding]; other site 713887000341 Acyl transferase domain; Region: Acyl_transf_1; cl08282 713887000342 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 713887000343 Hydrogenase formation hypA family; Region: HypD; cl12072 713887000344 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 713887000345 Fe-S metabolism associated domain; Region: SufE; cl00951 713887000346 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 713887000347 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 713887000348 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 713887000349 Predicted integral membrane protein [Function unknown]; Region: COG0392 713887000350 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 713887000351 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 713887000352 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 713887000353 G1 box; other site 713887000354 GTP/Mg2+ binding site [chemical binding]; other site 713887000355 Switch I region; other site 713887000356 G2 box; other site 713887000357 Switch II region; other site 713887000358 G3 box; other site 713887000359 G4 box; other site 713887000360 G5 box; other site 713887000361 Domain of unknown function (DUF697); Region: DUF697; cl12064 713887000362 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 713887000363 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 713887000364 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 713887000365 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 713887000366 active site 713887000367 O-Antigen ligase; Region: Wzy_C; cl04850 713887000368 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 713887000369 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 713887000370 Walker A/P-loop; other site 713887000371 ATP binding site [chemical binding]; other site 713887000372 Q-loop/lid; other site 713887000373 ABC transporter signature motif; other site 713887000374 Walker B; other site 713887000375 D-loop; other site 713887000376 H-loop/switch region; other site 713887000377 Protein of unknown function (DUF3134); Region: DUF3134; pfam11332 713887000378 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 713887000379 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 713887000380 Mg++ binding site [ion binding]; other site 713887000381 putative catalytic motif [active] 713887000382 putative substrate binding site [chemical binding]; other site 713887000383 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 713887000384 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 713887000385 RNA binding surface [nucleotide binding]; other site 713887000386 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887000387 DNA polymerase III subunit beta; Validated; Region: PRK05643 713887000388 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...; Region: beta_clamp; cd00140 713887000389 putative DNA binding surface [nucleotide binding]; other site 713887000390 dimer interface [polypeptide binding]; other site 713887000391 beta-clamp/clamp loader binding surface; other site 713887000392 beta-clamp/translesion DNA polymerase binding surface; other site 713887000393 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 713887000394 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 713887000395 dimer interface [polypeptide binding]; other site 713887000396 tetramer interface [polypeptide binding]; other site 713887000397 PYR/PP interface [polypeptide binding]; other site 713887000398 TPP binding site [chemical binding]; other site 713887000399 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 role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 713887000400 TPP-binding site; other site 713887000401 ATP synthase; Region: ATP-synt; cl00365 713887000402 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 713887000403 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 713887000404 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 713887000405 beta subunit interaction interface [polypeptide binding]; other site 713887000406 Walker A motif; other site 713887000407 ATP binding site [chemical binding]; other site 713887000408 Walker B motif; other site 713887000409 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 713887000410 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 713887000411 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 713887000412 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 713887000413 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 713887000414 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 713887000415 ATP synthase subunit C; Region: ATP-synt_C; cl00466 713887000416 ATP synthase A chain; Region: ATP-synt_A; cl00413 713887000417 ATP synthase I chain; Region: ATP_synt_I; cl09170 713887000418 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 713887000419 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 713887000420 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 713887000421 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 713887000422 putative active site [active] 713887000423 putative metal binding site [ion binding]; other site 713887000424 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 713887000425 UvrD/REP helicase; Region: UvrD-helicase; cl14126 713887000426 UvrD/REP helicase; Region: UvrD-helicase; cl14126 713887000427 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 713887000428 catalytic residues [active] 713887000429 dihydroorotase, multifunctional complex type; Region: pyrC_multi; TIGR00857 713887000430 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 713887000431 active site 713887000432 hypothetical protein; Validated; Region: PRK07682 713887000433 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 713887000434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887000435 homodimer interface [polypeptide binding]; other site 713887000436 catalytic residue [active] 713887000437 NAD(P)H-quinone oxidoreductase subunit D4; Validated; Region: PRK06473 713887000438 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 713887000439 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07390 713887000440 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 713887000441 CbiD; Region: CbiD; cl00828 713887000442 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 713887000443 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 713887000444 active site residue [active] 713887000445 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II/unknown domain fusion protein; Provisional; Region: PRK09319 713887000446 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 713887000447 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 713887000448 dimerization interface [polypeptide binding]; other site 713887000449 active site 713887000450 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 713887000451 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 713887000452 active site 713887000453 metal binding site [ion binding]; metal-binding site 713887000454 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 713887000455 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 713887000456 Ligand binding site [chemical binding]; other site 713887000457 Putative Catalytic site [active] 713887000458 DXD motif; other site 713887000459 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 713887000460 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 higher-...; Region: HU_IHF; cd00591 713887000461 IHF - DNA interface [nucleotide binding]; other site 713887000462 IHF dimer interface [polypeptide binding]; other site 713887000463 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 713887000464 Protein of unknown function (DUF3531); Region: DUF3531; pfam12049 713887000465 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 713887000466 GTPase RsgA; Reviewed; Region: PRK12289 713887000467 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 713887000468 GTPase/OB domain interface [polypeptide binding]; other site 713887000469 GTPase/Zn-binding domain interface [polypeptide binding]; other site 713887000470 GTP/Mg2+ binding site [chemical binding]; other site 713887000471 G4 box; other site 713887000472 G5 box; other site 713887000473 G1 box; other site 713887000474 Switch I region; other site 713887000475 G2 box; other site 713887000476 G3 box; other site 713887000477 Switch II region; other site 713887000478 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-...; Region: SirA_YedF_YeeD; cd00291 713887000479 CPxP motif; other site 713887000480 chaperone protein DnaJ; Provisional; Region: PRK14293 713887000481 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...; Region: DnaJ; cd06257 713887000482 HSP70 interaction site [polypeptide binding]; other site 713887000483 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 713887000484 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 713887000485 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 713887000486 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...; Region: AAA; cd00009 713887000487 Walker A motif; other site 713887000488 ATP binding site [chemical binding]; other site 713887000489 Walker B motif; other site 713887000490 arginine finger; other site 713887000491 Protein of unknown function (DUF3386); Region: DUF3386; pfam11866 713887000492 Domain of unknown function (DUF1995); Region: DUF1995; pfam09353 713887000493 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 713887000494 homopentamer interface [polypeptide binding]; other site 713887000495 active site 713887000496 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 713887000497 hinge region; other site 713887000498 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 713887000499 putative nucleotide binding site [chemical binding]; other site 713887000500 uridine monophosphate binding site [chemical binding]; other site 713887000501 homohexameric interface [polypeptide binding]; other site 713887000502 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 713887000503 methionine aminopeptidase; Reviewed; Region: PRK07281 713887000504 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 713887000505 active site 713887000506 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 713887000507 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 713887000508 active site 713887000509 metal binding site [ion binding]; metal-binding site 713887000510 DNA binding site [nucleotide binding] 713887000511 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 713887000512 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 713887000513 E3 interaction surface; other site 713887000514 lipoyl attachment site [posttranslational modification]; other site 713887000515 e3 binding domain; Region: E3_binding; pfam02817 713887000516 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 713887000517 bifunctional sterol desaturase/short chain dehydrogenase; Validated; Region: PRK07424 713887000518 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 713887000519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887000520 NAD(P) binding site [chemical binding]; other site 713887000521 active site 713887000522 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 713887000523 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 713887000524 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 713887000525 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 713887000526 anchoring element; other site 713887000527 dimer interface [polypeptide binding]; other site 713887000528 ATP binding site [chemical binding]; other site 713887000529 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 713887000530 active site 713887000531 putative metal-binding site [ion binding]; other site 713887000532 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 713887000533 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 713887000534 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a...; Region: CbiX_SirB_N; cd03416 713887000535 putative active site [active] 713887000536 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a...; Region: CbiX_SirB_N; cd03416 713887000537 putative active site [active] 713887000538 Protein of unknown function (DUF3038); Region: DUF3038; pfam11237 713887000539 recombination protein F; Reviewed; Region: recF; PRK00064 713887000540 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 713887000541 Walker A/P-loop; other site 713887000542 ATP binding site [chemical binding]; other site 713887000543 Q-loop/lid; other site 713887000544 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887000545 ABC transporter signature motif; other site 713887000546 Walker B; other site 713887000547 D-loop; other site 713887000548 H-loop/switch region; other site 713887000549 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 713887000550 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 713887000551 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 713887000552 catalytic site [active] 713887000553 subunit interface [polypeptide binding]; other site 713887000554 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 713887000555 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...; Region: RPE; cd00429 713887000556 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 713887000557 substrate binding site [chemical binding]; other site 713887000558 hexamer interface [polypeptide binding]; other site 713887000559 metal binding site [ion binding]; metal-binding site 713887000560 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 713887000561 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887000562 Walker A/P-loop; other site 713887000563 ATP binding site [chemical binding]; other site 713887000564 Q-loop/lid; other site 713887000565 ABC transporter signature motif; other site 713887000566 Walker B; other site 713887000567 D-loop; other site 713887000568 H-loop/switch region; other site 713887000569 TOBE domain; Region: TOBE_2; cl01440 713887000570 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 713887000571 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 713887000572 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 713887000573 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 713887000574 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 713887000575 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 713887000576 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 713887000577 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 713887000578 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 713887000579 CoA-binding site [chemical binding]; other site 713887000580 ATP-binding [chemical binding]; other site 713887000581 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...; Region: TM_PBP2; cd06261 713887000582 dimer interface [polypeptide binding]; other site 713887000583 conserved gate region; other site 713887000584 putative PBP binding loops; other site 713887000585 ABC-ATPase subunit interface; other site 713887000586 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 713887000587 Protein of unknown function (DUF565); Region: DUF565; pfam04483 713887000588 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 713887000589 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 713887000590 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 713887000591 Ribosome-binding factor A; Region: RBFA; cl00542 713887000592 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 713887000593 thiS-thiF/thiG interaction site; other site 713887000594 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 713887000595 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- (beta-...; Region: TMP_TenI; cd00564 713887000596 thiamine phosphate binding site [chemical binding]; other site 713887000597 active site 713887000598 pyrophosphate binding site [ion binding]; other site 713887000599 transaldolase-like protein; Provisional; Region: PTZ00411 713887000600 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 713887000601 active site 713887000602 dimer interface [polypeptide binding]; other site 713887000603 catalytic residue [active] 713887000604 Protein of unknown function (DUF3172); Region: DUF3172; pfam11371 713887000605 ScpA/B protein; Region: ScpA_ScpB; cl00598 713887000606 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 713887000607 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 713887000608 active site 713887000609 Substrate binding site [chemical binding]; other site 713887000610 Mg++ binding site [ion binding]; other site 713887000611 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 713887000612 putative trimer interface [polypeptide binding]; other site 713887000613 putative CoA binding site [chemical binding]; other site 713887000614 conserved hypothetical protein; Region: TIGR03492 713887000615 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 713887000616 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 713887000617 NAD binding site [chemical binding]; other site 713887000618 substrate binding site [chemical binding]; other site 713887000619 active site 713887000620 tocopherol O-methyltransferase; Region: PLN02244 713887000621 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 713887000622 S-adenosylmethionine binding site [chemical binding]; other site 713887000623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887000624 glucose-inhibited division protein A; Region: gidA; TIGR00136 713887000625 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 713887000626 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 713887000627 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 713887000628 Transglycosylase; Region: Transgly; cl07896 713887000629 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 713887000630 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 713887000631 DNA polymerase III subunit alpha; Reviewed; Region: PRK09532 713887000632 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 713887000633 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 713887000634 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cd00081 713887000635 thioester formation/cholesterol transfer; other site 713887000636 protein-splicing catalytic site; other site 713887000637 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 713887000638 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 713887000639 substrate binding pocket [chemical binding]; other site 713887000640 chain length determination region; other site 713887000641 substrate-Mg2+ binding site; other site 713887000642 catalytic residues [active] 713887000643 aspartate-rich region 1; other site 713887000644 active site lid residues [active] 713887000645 aspartate-rich region 2; other site 713887000646 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 713887000647 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 713887000648 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 713887000649 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 713887000650 gamma-glutamyl kinase; Provisional; Region: PRK05429 713887000651 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 713887000652 nucleotide binding site [chemical binding]; other site 713887000653 homotetrameric interface [polypeptide binding]; other site 713887000654 putative phosphate binding site [ion binding]; other site 713887000655 putative allosteric binding site; other site 713887000656 PUA domain; Region: PUA; cl00607 713887000657 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 713887000658 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 713887000659 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 713887000660 G1 box; other site 713887000661 putative GEF interaction site [polypeptide binding]; other site 713887000662 GTP/Mg2+ binding site [chemical binding]; other site 713887000663 Switch I region; other site 713887000664 G2 box; other site 713887000665 G3 box; other site 713887000666 Switch II region; other site 713887000667 G4 box; other site 713887000668 G5 box; other site 713887000669 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 713887000670 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...; Region: BipA_TypA_C; cd03710 713887000671 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 713887000672 dimer interface [polypeptide binding]; other site 713887000673 active site 713887000674 Schiff base residues; other site 713887000675 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 713887000676 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 713887000677 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 713887000678 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 713887000679 Zn2+ binding site [ion binding]; other site 713887000680 Mg2+ binding site [ion binding]; other site 713887000681 S-layer homology domain; Region: SLH; pfam00395 713887000682 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 713887000683 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 713887000684 inhibitor-cofactor binding pocket; inhibition site 713887000685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887000686 catalytic residue [active] 713887000687 cysteine synthases; Region: cysKM; TIGR01136 713887000688 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 713887000689 dimer interface [polypeptide binding]; other site 713887000690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887000691 catalytic residue [active] 713887000692 S-layer homology domain; Region: SLH; pfam00395 713887000693 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 713887000694 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 713887000695 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 713887000696 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 713887000697 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 713887000698 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 713887000699 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 713887000700 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 713887000701 ResB-like family; Region: ResB; pfam05140 713887000702 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 713887000703 L11 interface [polypeptide binding]; other site 713887000704 putative EF-Tu interaction site [polypeptide binding]; other site 713887000705 putative EF-G interaction site [polypeptide binding]; other site 713887000706 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...; Region: Ribosomal_L10; cd05797 713887000707 23S rRNA interface [nucleotide binding]; other site 713887000708 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 713887000709 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...; Region: Ribosomal_L1; cd00403 713887000710 mRNA/rRNA interface [nucleotide binding]; other site 713887000711 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 713887000712 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 713887000713 23S rRNA interface [nucleotide binding]; other site 713887000714 L7/L12 interface [polypeptide binding]; other site 713887000715 putative thiostrepton binding site; other site 713887000716 L25 interface [polypeptide binding]; other site 713887000717 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 713887000718 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 713887000719 putative homodimer interface [polypeptide binding]; other site 713887000720 KOW motif; Region: KOW; cl00354 713887000721 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 713887000722 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 713887000723 Cupin domain; Region: Cupin_2; cl09118 713887000724 photosystem I subunit VII; Region: psaC; CHL00065 713887000725 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 713887000726 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 713887000727 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 713887000728 binding surface 713887000729 TPR motif; other site 713887000730 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 713887000731 PsaD; Region: PsaD; cl03639 713887000732 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 713887000733 5S rRNA interface [nucleotide binding]; other site 713887000734 CTC domain interface [polypeptide binding]; other site 713887000735 L16 interface [polypeptide binding]; other site 713887000736 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 713887000737 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 713887000738 S-layer homology domain; Region: SLH; pfam00395 713887000739 ATP synthase CF1 epsilon subunit; Region: atpE; CHL00063 713887000740 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 713887000741 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 713887000742 ATP synthase CF1 beta subunit; Region: atpB; CHL00060 713887000743 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 713887000744 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 713887000745 alpha subunit interaction interface [polypeptide binding]; other site 713887000746 Walker A motif; other site 713887000747 ATP binding site [chemical binding]; other site 713887000748 Walker B motif; other site 713887000749 inhibitor binding site; inhibition site 713887000750 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 713887000751 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 713887000752 nucleoside/Zn binding site; other site 713887000753 dimer interface [polypeptide binding]; other site 713887000754 catalytic motif [active] 713887000755 DNA polymerase I; Provisional; Region: PRK05755 713887000756 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 713887000757 active site 713887000758 metal binding site 1 [ion binding]; metal-binding site 713887000759 putative 5' ssDNA interaction site; other site 713887000760 metal binding site 3; metal-binding site 713887000761 metal binding site 2 [ion binding]; metal-binding site 713887000762 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 713887000763 putative DNA binding site [nucleotide binding]; other site 713887000764 putative metal binding site [ion binding]; other site 713887000765 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 713887000766 active site 713887000767 catalytic site [active] 713887000768 substrate binding site [chemical binding]; other site 713887000769 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 713887000770 active site 713887000771 DNA binding site [nucleotide binding] 713887000772 catalytic site [active] 713887000773 Cysteine dioxygenase type I; Region: CDO_I; cl02350 713887000774 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 713887000775 Lumazine binding domain; Region: Lum_binding; pfam00677 713887000776 Lumazine binding domain; Region: Lum_binding; pfam00677 713887000777 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 713887000778 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887000779 cofactor binding site; other site 713887000780 DNA binding site [nucleotide binding] 713887000781 substrate interaction site [chemical binding]; other site 713887000782 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887000783 carboxyl-terminal processing protease; Provisional; Region: PLN00049 713887000784 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 713887000785 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 713887000786 protein binding site [polypeptide binding]; other site 713887000787 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 713887000788 Catalytic dyad [active] 713887000789 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 713887000790 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 713887000791 dimer interface [polypeptide binding]; other site 713887000792 motif 1; other site 713887000793 active site 713887000794 motif 2; other site 713887000795 motif 3; other site 713887000796 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 713887000797 GIY-YIG motif/motif A; other site 713887000798 active site 713887000799 catalytic site [active] 713887000800 signal recognition particle protein; Provisional; Region: PRK10867 713887000801 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 713887000802 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 713887000803 P loop; other site 713887000804 GTP binding site [chemical binding]; other site 713887000805 Signal peptide binding domain; Region: SRP_SPB; pfam02978 713887000806 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 713887000807 Domain of unknown function DUF37; Region: DUF37; cl00506 713887000808 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 713887000809 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 713887000810 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 713887000811 putative metal binding site [ion binding]; other site 713887000812 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 713887000813 binding surface 713887000814 TPR motif; other site 713887000815 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 713887000816 binding surface 713887000817 TPR motif; other site 713887000818 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 713887000819 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 713887000820 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 713887000821 Predicted methyltransferases [General function prediction only]; Region: COG0313 713887000822 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 713887000823 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...; Region: DUS_like_FMN; cd02801 713887000824 FMN binding site [chemical binding]; other site 713887000825 active site 713887000826 catalytic residues [active] 713887000827 substrate binding site [chemical binding]; other site 713887000828 GMP synthase; Reviewed; Region: guaA; PRK00074 713887000829 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 713887000830 AMP/PPi binding site [chemical binding]; other site 713887000831 candidate oxyanion hole; other site 713887000832 catalytic triad [active] 713887000833 potential glutamine specificity residues [chemical binding]; other site 713887000834 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 713887000835 ATP Binding subdomain [chemical binding]; other site 713887000836 Ligand Binding sites [chemical binding]; other site 713887000837 Dimerization subdomain; other site 713887000838 phage shock protein PspA; Provisional; Region: PRK10698 713887000839 phage shock protein A; Region: phageshock_pspA; TIGR02977 713887000840 ABC-2 type transporter; Region: ABC2_membrane; cl11417 713887000841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887000842 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 713887000843 Walker A/P-loop; other site 713887000844 ATP binding site [chemical binding]; other site 713887000845 Q-loop/lid; other site 713887000846 ABC transporter signature motif; other site 713887000847 Walker B; other site 713887000848 D-loop; other site 713887000849 H-loop/switch region; other site 713887000850 Ferredoxin-dependent bilin reductase; Region: Fe_bilin_red; cl07930 713887000851 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 713887000852 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 713887000853 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 713887000854 Photosystem I reaction centre subunit IV / PsaE; Region: PSI_PsaE; cl03585 713887000855 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK13945 713887000856 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 713887000857 DNA binding site [nucleotide binding] 713887000858 catalytic residue [active] 713887000859 H2TH interface [polypeptide binding]; other site 713887000860 putative catalytic residues [active] 713887000861 turnover-facilitating residue; other site 713887000862 intercalation triad [nucleotide binding]; other site 713887000863 8OG recognition residue [nucleotide binding]; other site 713887000864 putative reading head residues; other site 713887000865 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 713887000866 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 713887000867 DNA gyrase, A subunit; Region: gyrA; TIGR01063 713887000868 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 713887000869 CAP-like domain; other site 713887000870 Active site [active] 713887000871 primary dimer interface [polypeptide binding]; other site 713887000872 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 713887000873 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 713887000874 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 713887000875 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 713887000876 dimer interface [polypeptide binding]; other site 713887000877 decamer (pentamer of dimers) interface [polypeptide binding]; other site 713887000878 catalytic triad [active] 713887000879 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 713887000880 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 713887000881 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 713887000882 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 713887000883 nickel binding site [ion binding]; other site 713887000884 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 713887000885 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 713887000886 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887000887 homodimer interface [polypeptide binding]; other site 713887000888 catalytic residue [active] 713887000889 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 higher-...; Region: HU_IHF; cd00591 713887000890 IHF dimer interface [polypeptide binding]; other site 713887000891 IHF - DNA interface [nucleotide binding]; other site 713887000892 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 713887000893 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 713887000894 TPP-binding site; other site 713887000895 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 713887000896 PYR/PP interface [polypeptide binding]; other site 713887000897 dimer interface [polypeptide binding]; other site 713887000898 TPP binding site [chemical binding]; other site 713887000899 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 713887000900 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 713887000901 Domain of unknown function (DUF309); Region: DUF309; cl00667 713887000902 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02654 713887000903 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 713887000904 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 713887000905 Ribonuclease P; Region: Ribonuclease_P; cl00457 713887000906 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 713887000907 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 713887000908 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 713887000909 catalytic residue [active] 713887000910 putative FPP diphosphate binding site; other site 713887000911 putative FPP binding hydrophobic cleft; other site 713887000912 dimer interface [polypeptide binding]; other site 713887000913 putative IPP diphosphate binding site; other site 713887000914 TIGR00159 family protein; Region: TIGR00159 713887000915 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 713887000916 diaminopimelate decarboxylase; Region: lysA; TIGR01048 713887000917 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 713887000918 active site 713887000919 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 713887000920 substrate binding site [chemical binding]; other site 713887000921 catalytic residues [active] 713887000922 dimer interface [polypeptide binding]; other site 713887000923 30S ribosomal protein S1; Reviewed; Region: PRK07400 713887000924 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 713887000925 RNA binding site [nucleotide binding]; other site 713887000926 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 713887000927 RNA binding site [nucleotide binding]; other site 713887000928 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 713887000929 RNA binding site [nucleotide binding]; other site 713887000930 16S rRNA methyltransferase B; Provisional; Region: PRK14901 713887000931 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 713887000932 putative RNA binding site [nucleotide binding]; other site 713887000933 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 713887000934 S-adenosylmethionine binding site [chemical binding]; other site 713887000935 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 713887000936 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 713887000937 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 713887000938 RNA binding surface [nucleotide binding]; other site 713887000939 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 713887000940 amidohydrolase; Region: amidohydrolases; TIGR01891 713887000941 metal binding site [ion binding]; metal-binding site 713887000942 dimer interface [polypeptide binding]; other site 713887000943 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 713887000944 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 713887000945 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 713887000946 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the...; Region: mcbC-like_oxidoreductase; cd02142 713887000947 NADPH bind site [chemical binding]; other site 713887000948 putative FMN binding site [chemical binding]; other site 713887000949 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the...; Region: mcbC-like_oxidoreductase; cd02142 713887000950 putative FMN binding site [chemical binding]; other site 713887000951 NADPH bind site [chemical binding]; other site 713887000952 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 713887000953 light-harvesting-like protein 3; Provisional; Region: PLN00014 713887000954 Protein of unknown function (DUF3288); Region: DUF3288; pfam11691 713887000955 Beta-carotene hydroxylase (CrtR), the carotenoid zeaxanthin biosynthetic enzyme catalyzes the addition of hydroxyl groups to the beta-ionone rings of beta-carotene to form zeaxanthin and is found in bacteria and red algae. Carotenoids are important...; Region: CrtR_beta-carotene-hydroxylase; cd03514 713887000956 Fatty acid desaturase; Region: FA_desaturase; pfam00487 713887000957 putative di-iron ligands [ion binding]; other site 713887000958 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02705 713887000959 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 713887000960 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 713887000961 DNA gyrase subunit A; Validated; Region: PRK05560 713887000962 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 713887000963 CAP-like domain; other site 713887000964 Active site [active] 713887000965 primary dimer interface [polypeptide binding]; other site 713887000966 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 713887000967 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 713887000968 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 713887000969 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 713887000970 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 713887000971 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 713887000972 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 713887000973 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...; Region: AAA; cd00009 713887000974 Walker A motif; other site 713887000975 ATP binding site [chemical binding]; other site 713887000976 Walker B motif; other site 713887000977 arginine finger; other site 713887000978 Peptidase family M41; Region: Peptidase_M41; pfam01434 713887000979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 713887000980 active site 713887000981 phosphorylation site [posttranslational modification] 713887000982 intermolecular recognition site; other site 713887000983 dimerization interface [polypeptide binding]; other site 713887000984 Protein of unknown function (DUF3685); Region: DUF3685; pfam12452 713887000985 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 713887000986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887000987 NAD(P) binding site [chemical binding]; other site 713887000988 active site 713887000989 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...; Region: URO-D; cd00717 713887000990 substrate binding site [chemical binding]; other site 713887000991 active site 713887000992 Rhomboid family; Region: Rhomboid; cl11446 713887000993 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 713887000994 homooctamer interface [polypeptide binding]; other site 713887000995 active site 713887000996 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 713887000997 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 713887000998 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 713887000999 homodimer interface [polypeptide binding]; other site 713887001000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887001001 catalytic residue [active] 713887001002 NADH-quinone oxidoreductase cyanobacterial subunit N; Region: NdhN; pfam11909 713887001003 recombination protein RecR; Reviewed; Region: recR; PRK00076 713887001004 RecR protein; Region: RecR; pfam02132 713887001005 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 713887001006 putative active site [active] 713887001007 putative metal-binding site [ion binding]; other site 713887001008 tetramer interface [polypeptide binding]; other site 713887001009 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 713887001010 active site 713887001011 motif I; other site 713887001012 motif II; other site 713887001013 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 713887001014 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 713887001015 Walker A/P-loop; other site 713887001016 ATP binding site [chemical binding]; other site 713887001017 Q-loop/lid; other site 713887001018 ABC transporter signature motif; other site 713887001019 Walker B; other site 713887001020 D-loop; other site 713887001021 H-loop/switch region; other site 713887001022 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 713887001023 Walker A/P-loop; other site 713887001024 ATP binding site [chemical binding]; other site 713887001025 Q-loop/lid; other site 713887001026 ABC transporter signature motif; other site 713887001027 Walker B; other site 713887001028 D-loop; other site 713887001029 H-loop/switch region; other site 713887001030 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 713887001031 Septum formation topological specificity factor MinE; Region: MinE; cl00538 713887001032 septum site-determining protein MinD; Region: minD_bact; TIGR01968 713887001033 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a...; Region: MinD; cd02036 713887001034 P-loop; other site 713887001035 ADP binding residues [chemical binding]; other site 713887001036 Switch I; other site 713887001037 Switch II; other site 713887001038 septum formation inhibitor; Reviewed; Region: minC; PRK00513 713887001039 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 713887001040 glutathione reductase; Validated; Region: PRK06116 713887001041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887001042 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 713887001043 Ycf4; Region: Ycf4; cl03567 713887001044 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; cl00197 713887001045 active site 713887001046 polyphosphate kinase; Provisional; Region: PRK05443 713887001047 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 713887001048 putative domain interface [polypeptide binding]; other site 713887001049 putative active site [active] 713887001050 catalytic site [active] 713887001051 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 713887001052 putative domain interface [polypeptide binding]; other site 713887001053 putative active site [active] 713887001054 catalytic site [active] 713887001055 Domain of unknown function (DUF205); Region: DUF205; cl00410 713887001056 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 713887001057 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a...; Region: GT1_AviGT4_like; cd03802 713887001058 putative ADP-binding pocket [chemical binding]; other site 713887001059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 713887001060 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 713887001061 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 713887001062 Walker A/P-loop; other site 713887001063 ATP binding site [chemical binding]; other site 713887001064 Q-loop/lid; other site 713887001065 ABC transporter signature motif; other site 713887001066 Walker B; other site 713887001067 D-loop; other site 713887001068 H-loop/switch region; other site 713887001069 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 713887001070 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 713887001071 Walker A/P-loop; other site 713887001072 ATP binding site [chemical binding]; other site 713887001073 Q-loop/lid; other site 713887001074 ABC transporter signature motif; other site 713887001075 Walker B; other site 713887001076 D-loop; other site 713887001077 H-loop/switch region; other site 713887001078 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 713887001079 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 713887001080 binding surface 713887001081 TPR motif; other site 713887001082 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 713887001083 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 713887001084 binding surface 713887001085 TPR motif; other site 713887001086 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 713887001087 TPR motif; other site 713887001088 binding surface 713887001089 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 713887001090 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 713887001091 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 713887001092 active site 713887001093 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 713887001094 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 713887001095 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a...; Region: CobA_CobO_BtuR; cd00561 713887001096 homodimer interface [polypeptide binding]; other site 713887001097 Walker A motif; other site 713887001098 ATP binding site [chemical binding]; other site 713887001099 hydroxycobalamin binding site [chemical binding]; other site 713887001100 Walker B motif; other site 713887001101 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 713887001102 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...; Region: GFAT; cd00714 713887001103 glutaminase active site [active] 713887001104 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 713887001105 dimer interface [polypeptide binding]; other site 713887001106 active site 713887001107 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 713887001108 dimer interface [polypeptide binding]; other site 713887001109 active site 713887001110 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 713887001111 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 post-...; Region: RIBOc; cd00593 713887001112 dimerization interface [polypeptide binding]; other site 713887001113 active site 713887001114 metal binding site [ion binding]; metal-binding site 713887001115 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...; Region: DSRM; cd00048 713887001116 dsRNA binding site [nucleotide binding]; other site 713887001117 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 713887001118 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 N-...; Region: GltS; cd00713 713887001119 active site 713887001120 dimer interface [polypeptide binding]; other site 713887001121 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 713887001122 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...; Region: GltS_FMN; cd02808 713887001123 active site 713887001124 FMN binding site [chemical binding]; other site 713887001125 substrate binding site [chemical binding]; other site 713887001126 3Fe-4S cluster binding site [ion binding]; other site 713887001127 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 713887001128 domain interface; other site 713887001129 magnesium chelatase subunit H; Provisional; Region: PRK12493 713887001130 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 713887001131 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 713887001132 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 713887001133 active site 713887001134 dimer interface [polypeptide binding]; other site 713887001135 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 713887001136 dimer interface [polypeptide binding]; other site 713887001137 active site 713887001138 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 713887001139 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 713887001140 chloroplast envelope protein translocase, IAP75 family; Region: 3a0901s03IAP75; TIGR00992 713887001141 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 713887001142 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 713887001143 Surface antigen; Region: Bac_surface_Ag; cl03097 713887001144 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...; Region: GlcN6P_deaminase; cd01399 713887001145 active site 713887001146 trimer interface [polypeptide binding]; other site 713887001147 allosteric site; other site 713887001148 active site lid [active] 713887001149 hexamer (dimer of trimers) interface [polypeptide binding]; other site 713887001150 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 713887001151 Major Facilitator Superfamily; Region: MFS_1; pfam07690 713887001152 putative substrate translocation pore; other site 713887001153 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 713887001154 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 713887001155 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 713887001156 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 713887001157 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 713887001158 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; cl09966 713887001159 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...; Region: DnaE_OBF; cd04485 713887001160 generic binding surface II; other site 713887001161 generic binding surface I; other site 713887001162 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 713887001163 THUMP domain; Region: THUMP; cl12076 713887001164 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887001165 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 713887001166 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 713887001167 putative ADP-binding pocket [chemical binding]; other site 713887001168 Bacterial sugar transferase; Region: Bac_transf; cl00939 713887001169 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 713887001170 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 713887001171 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 713887001172 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 713887001173 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 713887001174 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 713887001175 cytidylate kinase; Provisional; Region: cmk; PRK00023 713887001176 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 713887001177 CMP-binding site; other site 713887001178 The sites determining sugar specificity; other site 713887001179 hypothetical protein; Provisional; Region: PRK08185 713887001180 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose...; Region: TBP_aldolase_IIB; cd00947 713887001181 intersubunit interface [polypeptide binding]; other site 713887001182 active site 713887001183 zinc binding site [ion binding]; other site 713887001184 Na+ binding site [ion binding]; other site 713887001185 NaMN:DMB phosphoribosyltransferase [Coenzyme metabolism]; Region: CobT; COG2038 713887001186 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 713887001187 putative dimer interface [polypeptide binding]; other site 713887001188 active site pocket [active] 713887001189 putative cataytic base [active] 713887001190 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 713887001191 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 713887001192 putative active site [active] 713887001193 metal binding site [ion binding]; metal-binding site 713887001194 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 713887001195 dimer interface [polypeptide binding]; other site 713887001196 ssDNA binding site [nucleotide binding]; other site 713887001197 tetramer (dimer of dimers) interface [polypeptide binding]; other site 713887001198 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 713887001199 dimer interface [polypeptide binding]; other site 713887001200 substrate binding site [chemical binding]; other site 713887001201 metal binding sites [ion binding]; metal-binding site 713887001202 Cyanobacterial and plastid NDH-1 subunit M; Region: NdhM; pfam10664 713887001203 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 713887001204 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...; Region: TM_PBP2; cd06261 713887001205 dimer interface [polypeptide binding]; other site 713887001206 conserved gate region; other site 713887001207 ABC-ATPase subunit interface; other site 713887001208 thiamine monophosphate kinase; Provisional; Region: PRK05731 713887001209 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 713887001210 ATP binding site [chemical binding]; other site 713887001211 dimerization interface [polypeptide binding]; other site 713887001212 iron-sulfur cluster binding protein, putative; Region: TIGR00276 713887001213 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 713887001214 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 713887001215 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 713887001216 ligand binding site [chemical binding]; other site 713887001217 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 713887001218 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 713887001219 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 713887001220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887001221 homoserine dehydrogenase; Provisional; Region: PRK06349 713887001222 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 713887001223 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 713887001224 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-...; Region: EriC; cd01031 713887001225 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 713887001226 Cl- selectivity filter; other site 713887001227 Cl- binding residues [ion binding]; other site 713887001228 pore gating glutamate residue; other site 713887001229 dimer interface [polypeptide binding]; other site 713887001230 H+/Cl- coupling transport residue; other site 713887001231 FOG: CBS domain [General function prediction only]; Region: COG0517 713887001232 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_assoc; cd04612 713887001233 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 713887001234 active site 713887001235 putative DNA-binding cleft [nucleotide binding]; other site 713887001236 dimer interface [polypeptide binding]; other site 713887001237 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 713887001238 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 713887001239 ring oligomerisation interface [polypeptide binding]; other site 713887001240 ATP/Mg binding site [chemical binding]; other site 713887001241 stacking interactions; other site 713887001242 hinge regions; other site 713887001243 Protein of unknown function (DUF1092); Region: DUF1092; pfam06485 713887001244 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 713887001245 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 713887001246 Ligand binding site [chemical binding]; other site 713887001247 Putative Catalytic site [active] 713887001248 DXD motif; other site 713887001249 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 713887001250 Ligand binding site [chemical binding]; other site 713887001251 Putative Catalytic site [active] 713887001252 DXD motif; other site 713887001253 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887001254 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 713887001255 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-...; Region: AGAT_like; cd06451 713887001256 homodimer interface [polypeptide binding]; other site 713887001257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887001258 catalytic residue [active] 713887001259 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 713887001260 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 713887001261 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-2,3-...; Region: LbH_LpxD; cd03352 713887001262 trimer interface [polypeptide binding]; other site 713887001263 active site 713887001264 UDP-GlcNAc binding site [chemical binding]; other site 713887001265 lipid binding site [chemical binding]; lipid-binding site 713887001266 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 713887001267 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 713887001268 GatB domain; Region: GatB_Yqey; cl11497 713887001269 phosphate transporter ATP-binding protein; Provisional; Region: PRK14243 713887001270 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 713887001271 Walker A/P-loop; other site 713887001272 ATP binding site [chemical binding]; other site 713887001273 Q-loop/lid; other site 713887001274 ABC transporter signature motif; other site 713887001275 Walker B; other site 713887001276 D-loop; other site 713887001277 H-loop/switch region; other site 713887001278 phosphate transporter ATP-binding protein; Provisional; Region: PRK14243 713887001279 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 713887001280 Walker A/P-loop; other site 713887001281 ATP binding site [chemical binding]; other site 713887001282 Q-loop/lid; other site 713887001283 ABC transporter signature motif; other site 713887001284 Walker B; other site 713887001285 D-loop; other site 713887001286 H-loop/switch region; other site 713887001287 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 713887001288 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...; Region: TM_PBP2; cd06261 713887001289 dimer interface [polypeptide binding]; other site 713887001290 conserved gate region; other site 713887001291 putative PBP binding loops; other site 713887001292 ABC-ATPase subunit interface; other site 713887001293 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 713887001294 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...; Region: TM_PBP2; cd06261 713887001295 dimer interface [polypeptide binding]; other site 713887001296 conserved gate region; other site 713887001297 putative PBP binding loops; other site 713887001298 ABC-ATPase subunit interface; other site 713887001299 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 713887001300 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 713887001301 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 713887001302 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...; Region: TM_PBP2; cl00427 713887001303 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...; Region: TM_PBP2; cd06261 713887001304 dimer interface [polypeptide binding]; other site 713887001305 conserved gate region; other site 713887001306 putative PBP binding loops; other site 713887001307 ABC-ATPase subunit interface; other site 713887001308 elongation factor G; Reviewed; Region: PRK00007 713887001309 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 713887001310 G1 box; other site 713887001311 putative GEF interaction site [polypeptide binding]; other site 713887001312 GTP/Mg2+ binding site [chemical binding]; other site 713887001313 Switch I region; other site 713887001314 G2 box; other site 713887001315 G3 box; other site 713887001316 Switch II region; other site 713887001317 G4 box; other site 713887001318 G5 box; other site 713887001319 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...; Region: EFG_mtEFG_II; cd04088 713887001320 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...; Region: EFG_mtEFG1_IV; cd01434 713887001321 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...; Region: EFG_mtEFG_C; cd03713 713887001322 Stage II sporulation protein; Region: SpoIID; cl07201 713887001323 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 713887001324 ATP cone domain; Region: ATP-cone; pfam03477 713887001325 ribonucleoside-diphosphate reductase, alpha subunit; Region: NrdE_NrdA; TIGR02506 713887001326 Class I ribonucleotide reductase; Region: RNR_I; cd01679 713887001327 active site 713887001328 dimer interface [polypeptide binding]; other site 713887001329 catalytic residues [active] 713887001330 effector binding site; other site 713887001331 R2 peptide binding site; other site 713887001332 Ycf66 protein N-terminus; Region: Ycf66_N; pfam07444 713887001333 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 713887001334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887001335 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 713887001336 ribose-phosphate pyrophosphokinase; Region: PLN02369 713887001337 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 713887001338 Cyanobacterial and plant NDH-1 subunit O; Region: NdhO; pfam11910 713887001339 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 713887001340 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 713887001341 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 C-...; Region: PDZ_serine_protease; cd00987 713887001342 protein binding site [polypeptide binding]; other site 713887001343 Integral membrane protein DUF92; Region: DUF92; cl00793 713887001344 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 713887001345 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 713887001346 binding surface 713887001347 TPR motif; other site 713887001348 BtpA family; Region: BtpA; cl00440 713887001349 Vitamin K epoxide reductase family; Region: VKOR; cl01729 713887001350 DNA polymerase III subunit delta; Validated; Region: PRK07452 713887001351 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 713887001352 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 713887001353 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...; Region: GT1_MurG; cd03785 713887001354 active site 713887001355 homodimer interface [polypeptide binding]; other site 713887001356 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 713887001357 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 713887001358 exonuclease SbcC; Region: sbcc; TIGR00618 713887001359 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887001360 Walker A/P-loop; other site 713887001361 ATP binding site [chemical binding]; other site 713887001362 Q-loop/lid; other site 713887001363 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887001364 ABC transporter signature motif; other site 713887001365 Walker B; other site 713887001366 D-loop; other site 713887001367 H-loop/switch region; other site 713887001368 replicative DNA helicase; Region: DnaB; TIGR00665 713887001369 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 713887001370 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 713887001371 Walker A motif; other site 713887001372 ATP binding site [chemical binding]; other site 713887001373 Walker B motif; other site 713887001374 DNA binding loops [nucleotide binding] 713887001375 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 713887001376 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 713887001377 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 713887001378 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 713887001379 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 713887001380 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 713887001381 C-terminal peptidase (prc); Region: prc; TIGR00225 713887001382 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 713887001383 protein binding site [polypeptide binding]; other site 713887001384 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 713887001385 Catalytic dyad [active] 713887001386 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 713887001387 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 713887001388 cytochrome b6-f complex iron-sulfur subunit; Provisional; Region: PRK13474 713887001389 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 713887001390 Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium...; Region: Rieske_cytochrome_b6f; cd03471 713887001391 cytochrome b subunit interaction site [polypeptide binding]; other site 713887001392 [2Fe-2S] cluster binding site [ion binding]; other site 713887001393 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...; Region: GT1_TPS; cd03788 713887001394 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 713887001395 active site 713887001396 homotetramer interface [polypeptide binding]; other site 713887001397 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 713887001398 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 713887001399 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 713887001400 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 713887001401 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 713887001402 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 713887001403 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 713887001404 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 trans-...; Region: HisKA; cl00080 713887001405 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 713887001406 Protein of unknown function (DUF3252); Region: DUF3252; pfam11623 713887001407 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; cl09110 713887001408 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 713887001409 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; cl09110 713887001410 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; cl09110 713887001411 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 713887001412 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 713887001413 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 713887001414 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 713887001415 An uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the the M14 family of metallocarboxypeptidases. This subgroup includes Pseudomonas aeruginosa AotO and related proteins. ASTE...; Region: M14_PaAOTO_like; cd06250 713887001416 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 713887001417 putative active site [active] 713887001418 Zn-binding site [ion binding]; other site 713887001419 glycine dehydrogenase; Provisional; Region: PRK05367 713887001420 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...; Region: GDC-P; cd00613 713887001421 tetramer interface [polypeptide binding]; other site 713887001422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887001423 catalytic residue [active] 713887001424 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...; Region: GDC-P; cd00613 713887001425 tetramer interface [polypeptide binding]; other site 713887001426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887001427 catalytic residue [active] 713887001428 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 713887001429 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 713887001430 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 713887001431 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 713887001432 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 713887001433 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 713887001434 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 713887001435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887001436 NDF6 (NDH-dependent flow 6); Provisional; Region: PLN00180 713887001437 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 713887001438 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...; Region: TM_PBP2; cd06261 713887001439 dimer interface [polypeptide binding]; other site 713887001440 conserved gate region; other site 713887001441 putative PBP binding loops; other site 713887001442 ABC-ATPase subunit interface; other site 713887001443 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 713887001444 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 713887001445 catalytic triad [active] 713887001446 dimer interface [polypeptide binding]; other site 713887001447 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 713887001448 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 713887001449 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 713887001450 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 713887001451 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 713887001452 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 713887001453 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 713887001454 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 713887001455 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 713887001456 nucleic acid binding region [nucleotide binding]; other site 713887001457 G-X-X-G motif; other site 713887001458 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 713887001459 RNA binding site [nucleotide binding]; other site 713887001460 domain interface; other site 713887001461 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 713887001462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887001463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887001464 Protein of unknown function (DUF3177); Region: DUF3177; pfam11375 713887001465 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 713887001466 putative active site [active] 713887001467 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 713887001468 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 713887001469 NAD(P)H-quinone oxidoreductase subunit 2; Provisional; Region: PRK02504 713887001470 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 713887001471 Protein of unknown function (DUF721); Region: DUF721; cl02324 713887001472 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 713887001473 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 713887001474 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 713887001475 catalytic residue [active] 713887001476 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 713887001477 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 713887001478 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 713887001479 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 713887001480 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...; Region: Sigma70_r4; cd06171 713887001481 DNA binding residues [nucleotide binding] 713887001482 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 713887001483 diaminopimelate epimerase; Region: PLN02536 713887001484 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 713887001485 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5549 713887001486 elongation factor Ts; Reviewed; Region: tsf; PRK12332 713887001487 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 713887001488 Elongation factor TS; Region: EF_TS; pfam00889 713887001489 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 713887001490 rRNA interaction site [nucleotide binding]; other site 713887001491 S8 interaction site; other site 713887001492 putative laminin-1 binding site; other site 713887001493 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 713887001494 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 713887001495 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 713887001496 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 713887001497 active site 713887001498 interdomain interaction site; other site 713887001499 putative metal-binding site [ion binding]; other site 713887001500 nucleotide binding site [chemical binding]; other site 713887001501 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...; Region: TOP1Ac; cl11986 713887001502 domain I; other site 713887001503 phosphate binding site [ion binding]; other site 713887001504 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...; Region: TOP1Ac; cd00186 713887001505 domain III; other site 713887001506 nucleotide binding site [chemical binding]; other site 713887001507 DNA binding groove [nucleotide binding] 713887001508 catalytic site [active] 713887001509 domain II; other site 713887001510 domain IV; other site 713887001511 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 713887001512 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 713887001513 active site 713887001514 Riboflavin kinase; Region: Flavokinase; cl03312 713887001515 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 713887001516 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...; Region: GT1_like_2; cd03814 713887001517 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid...; Region: MECDP_synthase; cd00554 713887001518 homotrimer interaction site [polypeptide binding]; other site 713887001519 zinc binding site [ion binding]; other site 713887001520 CDP-binding sites; other site 713887001521 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 713887001522 Clp amino terminal domain; Region: Clp_N; pfam02861 713887001523 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...; Region: AAA; cd00009 713887001524 Walker A motif; other site 713887001525 ATP binding site [chemical binding]; other site 713887001526 Walker B motif; other site 713887001527 arginine finger; other site 713887001528 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...; Region: AAA; cd00009 713887001529 Walker A motif; other site 713887001530 ATP binding site [chemical binding]; other site 713887001531 Walker B motif; other site 713887001532 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 713887001533 Cupin domain; Region: Cupin_2; cl09118 713887001534 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 713887001535 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 713887001536 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 713887001537 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK02546 713887001538 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 713887001539 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...; Region: PDZ_metalloprotease; cd00989 713887001540 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 713887001541 Protein of unknown function (DUF512); Region: DUF512; pfam04459 713887001542 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 713887001543 C-terminal peptidase (prc); Region: prc; TIGR00225 713887001544 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 713887001545 protein binding site [polypeptide binding]; other site 713887001546 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 713887001547 Catalytic dyad [active] 713887001548 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 713887001549 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 713887001550 cell division protein FtsZ; Validated; Region: PRK09330 713887001551 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...; Region: FtsZ_type1; cd02201 713887001552 nucleotide binding site [chemical binding]; other site 713887001553 SulA interaction site; other site 713887001554 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 713887001555 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 713887001556 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 713887001557 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 713887001558 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 713887001559 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 713887001560 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 713887001561 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 713887001562 IMP binding site; other site 713887001563 dimer interface [polypeptide binding]; other site 713887001564 interdomain contacts; other site 713887001565 partial ornithine binding site; other site 713887001566 GTP-binding protein Der; Reviewed; Region: PRK00093 713887001567 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 713887001568 G1 box; other site 713887001569 GTP/Mg2+ binding site [chemical binding]; other site 713887001570 Switch I region; other site 713887001571 G2 box; other site 713887001572 Switch II region; other site 713887001573 G3 box; other site 713887001574 G4 box; other site 713887001575 G5 box; other site 713887001576 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 713887001577 G1 box; other site 713887001578 GTP/Mg2+ binding site [chemical binding]; other site 713887001579 Switch I region; other site 713887001580 G2 box; other site 713887001581 G3 box; other site 713887001582 Switch II region; other site 713887001583 G4 box; other site 713887001584 G5 box; other site 713887001585 photochlorophyllide reductase subunit B; Region: chlB; CHL00076 713887001586 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls...; Region: Pchlide_reductase_B; cd01981 713887001587 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 713887001588 Beta-lactamase; Region: Beta-lactamase; cl01009 713887001589 UbiA prenyltransferase family; Region: UbiA; cl00337 713887001590 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 713887001591 chorismate binding enzyme; Region: Chorismate_bind; cl10555 713887001592 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 713887001593 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 713887001594 Ligand binding site [chemical binding]; other site 713887001595 Putative Catalytic site [active] 713887001596 DXD motif; other site 713887001597 GUN4-like; Region: GUN4; pfam05419 713887001598 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 713887001599 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 713887001600 GTP/Mg2+ binding site [chemical binding]; other site 713887001601 G4 box; other site 713887001602 G5 box; other site 713887001603 G1 box; other site 713887001604 Switch I region; other site 713887001605 G2 box; other site 713887001606 G3 box; other site 713887001607 Switch II region; other site 713887001608 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 713887001609 DHH family; Region: DHH; pfam01368 713887001610 UbiA prenyltransferase family; Region: UbiA; cl00337 713887001611 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 713887001612 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 713887001613 arginine-tRNA ligase; Region: PLN02286 713887001614 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 713887001615 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 713887001616 active site 713887001617 HIGH motif; other site 713887001618 KMSK motif region; other site 713887001619 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 713887001620 tRNA binding surface [nucleotide binding]; other site 713887001621 anticodon binding site; other site 713887001622 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 713887001623 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 713887001624 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 713887001625 dimerization interface [polypeptide binding]; other site 713887001626 FAD binding pocket [chemical binding]; other site 713887001627 FAD binding motif [chemical binding]; other site 713887001628 catalytic residues [active] 713887001629 NAD binding pocket [chemical binding]; other site 713887001630 phosphate binding motif [ion binding]; other site 713887001631 beta-alpha-beta structure motif; other site 713887001632 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 713887001633 O-Antigen ligase; Region: Wzy_C; cl04850 713887001634 O-Antigen ligase; Region: Wzy_C; cl04850 713887001635 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 713887001636 substrate binding site [chemical binding]; other site 713887001637 dimer interface [polypeptide binding]; other site 713887001638 catalytic triad [active] 713887001639 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 713887001640 dihydropteroate synthase; Region: DHPS; TIGR01496 713887001641 substrate binding pocket [chemical binding]; other site 713887001642 dimer interface [polypeptide binding]; other site 713887001643 inhibitor binding site; inhibition site 713887001644 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 713887001645 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a...; Region: CbiX_SirB_N; cd03416 713887001646 putative active site [active] 713887001647 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a...; Region: CbiX_SirB_C; cd03414 713887001648 putative active site [active] 713887001649 Protein of unknown function (DUF3148); Region: DUF3148; pfam11347 713887001650 Peptidase family M48; Region: Peptidase_M48; cl12018 713887001651 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 713887001652 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 713887001653 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 713887001654 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 713887001655 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 713887001656 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 713887001657 Mg++ binding site [ion binding]; other site 713887001658 putative catalytic motif [active] 713887001659 substrate binding site [chemical binding]; other site 713887001660 Photosystem I reaction centre subunit XI; Region: PsaL; cl03651 713887001661 HupF/HypC family; Region: HupF_HypC; cl00394 713887001662 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 713887001663 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 713887001664 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 713887001665 catalytic residue [active] 713887001666 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 713887001667 Di-iron ligands [ion binding]; other site 713887001668 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 713887001669 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 713887001670 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 713887001671 active site 713887001672 dimer interface [polypeptide binding]; other site 713887001673 metal binding site [ion binding]; metal-binding site 713887001674 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 713887001675 oligomer interface [polypeptide binding]; other site 713887001676 active site residues [active] 713887001677 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 713887001678 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 713887001679 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...; Region: AAA; cd00009 713887001680 Walker A motif; other site 713887001681 ATP binding site [chemical binding]; other site 713887001682 Walker B motif; other site 713887001683 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 713887001684 SOS regulatory protein LexA; Region: lexA; TIGR00498 713887001685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 713887001686 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 713887001687 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 713887001688 non-specific DNA binding site [nucleotide binding]; other site 713887001689 salt bridge; other site 713887001690 sequence-specific DNA binding site [nucleotide binding]; other site 713887001691 Protein of unknown function (DUF502); Region: DUF502; cl01107 713887001692 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 713887001693 putative RNA binding site [nucleotide binding]; other site 713887001694 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 713887001695 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 713887001696 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 713887001697 RNA binding surface [nucleotide binding]; other site 713887001698 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 713887001699 active site 713887001700 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 713887001701 dimer interface [polypeptide binding]; other site 713887001702 active site 713887001703 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 713887001704 catalytic residues [active] 713887001705 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 713887001706 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 713887001707 spermidine synthase; Provisional; Region: PRK00811 713887001708 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 713887001709 S-adenosylmethionine binding site [chemical binding]; other site 713887001710 Arginase family; Region: Arginase; cl00306 713887001711 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 713887001712 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 713887001713 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 713887001714 ATP binding site [chemical binding]; other site 713887001715 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 713887001716 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 713887001717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 713887001718 active site 713887001719 phosphorylation site [posttranslational modification] 713887001720 intermolecular recognition site; other site 713887001721 dimerization interface [polypeptide binding]; other site 713887001722 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...; Region: trans_reg_C; cd00383 713887001723 DNA binding site [nucleotide binding] 713887001724 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 713887001725 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 713887001726 substrate binding site [chemical binding]; other site 713887001727 oxyanion hole (OAH) forming residues; other site 713887001728 trimer interface [polypeptide binding]; other site 713887001729 primosome assembly protein PriA; Validated; Region: PRK05580 713887001730 primosome assembly protein PriA; Validated; Region: PRK05580 713887001731 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 713887001732 ATP binding site [chemical binding]; other site 713887001733 putative Mg++ binding site [ion binding]; other site 713887001734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887001735 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 713887001736 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 713887001737 inhibitor-cofactor binding pocket; inhibition site 713887001738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887001739 catalytic residue [active] 713887001740 NurA domain; Region: NurA; cl09134 713887001741 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 713887001742 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 713887001743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887001744 acyl-ACP reductase; Provisional; Region: PRK14982 713887001745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887001746 NAD(P) binding pocket [chemical binding]; other site 713887001747 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 713887001748 dinuclear metal binding motif [ion binding]; other site 713887001749 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 713887001750 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 713887001751 B12 binding site [chemical binding]; other site 713887001752 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; cl15259 713887001753 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 713887001754 active site 713887001755 dimer interface [polypeptide binding]; other site 713887001756 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 713887001757 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 713887001758 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 713887001759 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 713887001760 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 713887001761 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 713887001762 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 713887001763 RPB1 interaction site [polypeptide binding]; other site 713887001764 RPB10 interaction site [polypeptide binding]; other site 713887001765 RPB11 interaction site [polypeptide binding]; other site 713887001766 RPB3 interaction site [polypeptide binding]; other site 713887001767 RPB12 interaction site [polypeptide binding]; other site 713887001768 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 713887001769 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 713887001770 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 713887001771 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 713887001772 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 713887001773 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 713887001774 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 713887001775 DNA binding site [nucleotide binding] 713887001776 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 713887001777 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 713887001778 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 713887001779 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 713887001780 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 713887001781 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 713887001782 putative active site [active] 713887001783 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 713887001784 putative acyl-acceptor binding pocket; other site 713887001785 Acylphosphatase; Region: Acylphosphatase; cl00551 713887001786 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 713887001787 HypF finger; Region: zf-HYPF; pfam07503 713887001788 HypF finger; Region: zf-HYPF; pfam07503 713887001789 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 713887001790 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 L-...; Region: GCS_H; cd06848 713887001791 lipoyl attachment site [posttranslational modification]; other site 713887001792 LytB protein; Region: LYTB; cl00507 713887001793 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 713887001794 Protein of unknown function (DUF3082); Region: DUF3082; pfam11282 713887001795 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 713887001796 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 713887001797 active site 713887001798 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 713887001799 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 713887001800 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 713887001801 active site 713887001802 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 713887001803 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 713887001804 G1 box; other site 713887001805 GTP/Mg2+ binding site [chemical binding]; other site 713887001806 Switch I region; other site 713887001807 G2 box; other site 713887001808 Switch II region; other site 713887001809 G3 box; other site 713887001810 G4 box; other site 713887001811 G5 box; other site 713887001812 Domain of unknown function (DUF697); Region: DUF697; cl12064 713887001813 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 713887001814 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 713887001815 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 713887001816 PetM family of cytochrome b6f complex subunit 7; Region: PetM; pfam08041 713887001817 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that...; Region: ArsC_15kD; cd03033 713887001818 putative catalytic residues [active] 713887001819 NifT/FixU protein; Region: NifT; cl02351 713887001820 NifZ domain; Region: NifZ; pfam04319 713887001821 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 713887001822 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 713887001823 active site 713887001824 catalytic residues [active] 713887001825 metal binding site [ion binding]; metal-binding site 713887001826 Protein of unknown function (DUF2949); Region: DUF2949; pfam11165 713887001827 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 713887001828 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 713887001829 FeS/SAM binding site; other site 713887001830 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 713887001831 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 713887001832 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 713887001833 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 713887001834 catalytic residue [active] 713887001835 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 713887001836 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 713887001837 trimerization site [polypeptide binding]; other site 713887001838 active site 713887001839 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 713887001840 NifU-like domain; Region: NifU; cl00484 713887001841 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 713887001842 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 713887001843 Nucleotide-binding sites [chemical binding]; other site 713887001844 Walker A motif; other site 713887001845 Switch I region of nucleotide binding site; other site 713887001846 Fe4S4 binding sites [ion binding]; other site 713887001847 Switch II region of nucleotide binding site; other site 713887001848 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 713887001849 MoFe protein alpha/beta subunit interactions; other site 713887001850 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 713887001851 Alpha subunit P cluster binding residues; other site 713887001852 FeMoco binding residues [chemical binding]; other site 713887001853 MoFe protein alpha subunit/Fe protein contacts; other site 713887001854 MoFe protein dimer/ dimer interactions; other site 713887001855 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 713887001856 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 713887001857 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-...; Region: Nitrogenase_MoFe_beta; cd01974 713887001858 MoFe protein beta/alpha subunit interactions; other site 713887001859 Beta subunit P cluster binding residues; other site 713887001860 MoFe protein beta subunit/Fe protein contacts; other site 713887001861 MoFe protein dimer/ dimer interactions; other site 713887001862 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 713887001863 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent...; Region: Oxidoreductase_nitrogenase; cl02775 713887001864 nitrogenase molybdenum-iron cofactor biosynthesis protein NifN; Region: nifN; TIGR01285 713887001865 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in...; Region: Nitrogenase_NifN_1; cd01966 713887001866 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 713887001867 Protein of unknown function (DUF683); Region: DUF683; cl02247 713887001868 Nitrogen fixation protein NifW; Region: NifW; cl03935 713887001869 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 713887001870 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 713887001871 ATP binding site [chemical binding]; other site 713887001872 substrate interface [chemical binding]; other site 713887001873 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 713887001874 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 713887001875 catalytic loop [active] 713887001876 iron binding site [ion binding]; other site 713887001877 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...; Region: TM_PBP2; cd06261 713887001878 dimer interface [polypeptide binding]; other site 713887001879 conserved gate region; other site 713887001880 putative PBP binding loops; other site 713887001881 ABC-ATPase subunit interface; other site 713887001882 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887001883 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 713887001884 Walker A/P-loop; other site 713887001885 ATP binding site [chemical binding]; other site 713887001886 Q-loop/lid; other site 713887001887 ABC transporter signature motif; other site 713887001888 Walker B; other site 713887001889 D-loop; other site 713887001890 H-loop/switch region; other site 713887001891 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 713887001892 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 713887001893 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 713887001894 YGGT family; Region: YGGT; cl00508 713887001895 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 713887001896 dimer interface [polypeptide binding]; other site 713887001897 ssDNA binding site [nucleotide binding]; other site 713887001898 tetramer (dimer of dimers) interface [polypeptide binding]; other site 713887001899 Photosystem I reaction centre subunit III; Region: PSI_PsaF; cl03627 713887001900 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 713887001901 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 713887001902 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 713887001903 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 713887001904 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 713887001905 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...; Region: TM_PBP2; cd06261 713887001906 dimer interface [polypeptide binding]; other site 713887001907 conserved gate region; other site 713887001908 putative PBP binding loops; other site 713887001909 ABC-ATPase subunit interface; other site 713887001910 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 713887001911 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 713887001912 active site 713887001913 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 713887001914 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 713887001915 active site 713887001916 HIGH motif; other site 713887001917 nucleotide binding site [chemical binding]; other site 713887001918 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 713887001919 active site 713887001920 KMSKS motif; other site 713887001921 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 713887001922 tRNA binding surface [nucleotide binding]; other site 713887001923 anticodon binding site; other site 713887001924 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 713887001925 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 713887001926 S-adenosylmethionine binding site [chemical binding]; other site 713887001927 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 713887001928 Competence-damaged protein; Region: CinA; cl00666 713887001929 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 713887001930 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 713887001931 FeS/SAM binding site; other site 713887001932 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 713887001933 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 713887001934 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 713887001935 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 713887001936 FeS/SAM binding site; other site 713887001937 helicase 45; Provisional; Region: PTZ00424 713887001938 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 713887001939 ATP binding site [chemical binding]; other site 713887001940 Mg++ binding site [ion binding]; other site 713887001941 motif III; other site 713887001942 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 713887001943 nucleotide binding region [chemical binding]; other site 713887001944 ATP-binding site [chemical binding]; other site 713887001945 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 713887001946 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 713887001947 Protein of unknown function (DUF3285); Region: DUF3285; pfam11688 713887001948 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 713887001949 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 713887001950 K-Cl cotransporter; Region: 2a30; TIGR00930 713887001951 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 713887001952 Thylakoid formation protein; Region: ThylakoidFormat; cl12138 713887001953 photosystem II biogenesis protein Psp29; Region: PS_II_psb29; TIGR03060 713887001954 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 713887001955 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 713887001956 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...; Region: DUS_like_FMN; cd02801 713887001957 FMN binding site [chemical binding]; other site 713887001958 active site 713887001959 catalytic residues [active] 713887001960 substrate binding site [chemical binding]; other site 713887001961 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 713887001962 homodecamer interface [polypeptide binding]; other site 713887001963 active site 713887001964 putative catalytic site residues [active] 713887001965 zinc binding site [ion binding]; other site 713887001966 GTP-CH-I/GFRP interaction surface; other site 713887001967 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 713887001968 classical (c) SDRs; Region: SDR_c; cd05233 713887001969 NAD(P) binding site [chemical binding]; other site 713887001970 active site 713887001971 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 713887001972 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 713887001973 binding surface 713887001974 TPR motif; other site 713887001975 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 713887001976 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 713887001977 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 713887001978 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 713887001979 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 713887001980 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 713887001981 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 713887001982 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 713887001983 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 713887001984 adaptive-response sensory kinase; Validated; Region: PRK09303 713887001985 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as...; Region: KaiB_like; cd02978 713887001986 tetramer interface [polypeptide binding]; other site 713887001987 dimer interface [polypeptide binding]; other site 713887001988 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 trans-...; Region: HisKA; cl00080 713887001989 Histidine kinase-like ATPases; This family includes several ATP-binding 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 713887001990 ATP binding site [chemical binding]; other site 713887001991 Mg2+ binding site [ion binding]; other site 713887001992 G-X-G motif; other site 713887001993 Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); Region: PSRP-3_Ycf65; cl04793 713887001994 Hypothetical chloroplast protein Ycf34; Region: Ycf34; pfam10718 713887001995 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 713887001996 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 713887001997 active site 713887001998 NTP binding site [chemical binding]; other site 713887001999 metal binding triad [ion binding]; metal-binding site 713887002000 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 713887002001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 713887002002 pyruvate dehydrogenase E1 component beta subunit; Validated; Region: odpB; CHL00144 713887002003 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 713887002004 alpha subunit interface [polypeptide binding]; other site 713887002005 TPP binding site [chemical binding]; other site 713887002006 heterodimer interface [polypeptide binding]; other site 713887002007 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 713887002008 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 713887002009 Protein export membrane protein; Region: SecD_SecF; cl14618 713887002010 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 713887002011 Protein export membrane protein; Region: SecD_SecF; cl14618 713887002012 UGMP family protein; Validated; Region: PRK09604 713887002013 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 713887002014 ferrochelatase; Reviewed; Region: hemH; PRK00035 713887002015 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 713887002016 active site 713887002017 C-terminal domain interface [polypeptide binding]; other site 713887002018 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 713887002019 active site 713887002020 N-terminal domain interface [polypeptide binding]; other site 713887002021 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 713887002022 UbiA prenyltransferase family; Region: UbiA; cl00337 713887002023 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 713887002024 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 four-...; Region: RecG_wedge_OBF; cd04488 713887002025 generic binding surface II; other site 713887002026 ssDNA binding site; other site 713887002027 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 713887002028 ATP binding site [chemical binding]; other site 713887002029 putative Mg++ binding site [ion binding]; other site 713887002030 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 713887002031 nucleotide binding region [chemical binding]; other site 713887002032 ATP-binding site [chemical binding]; other site 713887002033 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 713887002034 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 713887002035 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 713887002036 ThiS interaction site; other site 713887002037 putative active site [active] 713887002038 tetramer interface [polypeptide binding]; other site 713887002039 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 713887002040 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 713887002041 Photosystem I psaG / psaK; Region: PSI_PSAK; cl11425 713887002042 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 713887002043 UvrD/REP helicase; Region: UvrD-helicase; cl14126 713887002044 enolase; Provisional; Region: eno; PRK00077 713887002045 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 713887002046 dimer interface [polypeptide binding]; other site 713887002047 metal binding site [ion binding]; metal-binding site 713887002048 substrate binding pocket [chemical binding]; other site 713887002049 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK07364 713887002050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887002051 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 713887002052 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; cl15259 713887002053 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 713887002054 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 713887002055 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 713887002056 anti sigma factor interaction site; other site 713887002057 regulatory phosphorylation site [posttranslational modification]; other site 713887002058 RDD family; Region: RDD; cl00746 713887002059 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 713887002060 lipoprotein signal peptidase; Provisional; Region: PRK14787 713887002061 BioY family; Region: BioY; cl00560 713887002062 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(...; Region: Pep_deformylase; cd00487 713887002063 active site 713887002064 catalytic residues [active] 713887002065 metal binding site [ion binding]; metal-binding site 713887002066 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 713887002067 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 713887002068 active site 713887002069 HIGH motif; other site 713887002070 dimer interface [polypeptide binding]; other site 713887002071 KMSKS motif; other site 713887002072 S-adenosylmethionine synthetase; Validated; Region: PRK05250 713887002073 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 713887002074 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 713887002075 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 713887002076 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887002077 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 713887002078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887002079 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 713887002080 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 713887002081 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 713887002082 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 713887002083 G1 box; other site 713887002084 GTP/Mg2+ binding site [chemical binding]; other site 713887002085 Switch I region; other site 713887002086 G2 box; other site 713887002087 Switch II region; other site 713887002088 G3 box; other site 713887002089 G4 box; other site 713887002090 G5 box; other site 713887002091 Domain of unknown function (DUF697); Region: DUF697; cl12064 713887002092 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 713887002093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887002094 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 713887002095 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 713887002096 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 713887002097 transketolase; Region: PLN02790 713887002098 TPP-binding site [chemical binding]; other site 713887002099 dimer interface [polypeptide binding]; other site 713887002100 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 713887002101 PYR/PP interface [polypeptide binding]; other site 713887002102 dimer interface [polypeptide binding]; other site 713887002103 TPP binding site [chemical binding]; other site 713887002104 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 713887002105 cell division protein; Validated; Region: ftsH; CHL00176 713887002106 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...; Region: AAA; cd00009 713887002107 Walker A motif; other site 713887002108 ATP binding site [chemical binding]; other site 713887002109 Walker B motif; other site 713887002110 arginine finger; other site 713887002111 Peptidase family M41; Region: Peptidase_M41; pfam01434 713887002112 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 713887002113 binding surface 713887002114 TPR motif; other site 713887002115 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...; Region: PBPb; cd00134 713887002116 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 713887002117 substrate binding pocket [chemical binding]; other site 713887002118 membrane-bound complex binding site; other site 713887002119 hinge residues; other site 713887002120 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 713887002121 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 713887002122 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 713887002123 G1 box; other site 713887002124 GTP/Mg2+ binding site [chemical binding]; other site 713887002125 Switch I region; other site 713887002126 G2 box; other site 713887002127 Switch II region; other site 713887002128 G3 box; other site 713887002129 G4 box; other site 713887002130 G5 box; other site 713887002131 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 713887002132 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 713887002133 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 713887002134 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 713887002135 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 713887002136 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 713887002137 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 713887002138 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 713887002139 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 713887002140 RuvA N terminal domain; Region: RuvA_N; pfam01330 713887002141 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 713887002142 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 713887002143 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...; Region: 4HBT; cd00586 713887002144 active site 713887002145 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 713887002146 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 713887002147 metal-binding site [ion binding] 713887002148 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 713887002149 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; cl11391 713887002150 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 713887002151 oligomer interface [polypeptide binding]; other site 713887002152 active site residues [active] 713887002153 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 713887002154 oligomer interface [polypeptide binding]; other site 713887002155 active site residues [active] 713887002156 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 713887002157 substrate binding pocket [chemical binding]; other site 713887002158 substrate-Mg2+ binding site; other site 713887002159 aspartate-rich region 1; other site 713887002160 aspartate-rich region 2; other site 713887002161 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 713887002162 NusA N-terminal domain; Region: NusA_N; pfam08529 713887002163 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 713887002164 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...; Region: S1_NusA; cd04455 713887002165 RNA binding site [nucleotide binding]; other site 713887002166 homodimer interface [polypeptide binding]; other site 713887002167 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 713887002168 G-X-X-G motif; other site 713887002169 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 713887002170 translation initiation factor IF-2; Region: IF-2; TIGR00487 713887002171 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 713887002172 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 713887002173 G1 box; other site 713887002174 putative GEF interaction site [polypeptide binding]; other site 713887002175 GTP/Mg2+ binding site [chemical binding]; other site 713887002176 Switch I region; other site 713887002177 G2 box; other site 713887002178 G3 box; other site 713887002179 Switch II region; other site 713887002180 G4 box; other site 713887002181 G5 box; other site 713887002182 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...; Region: IF2_mtIF2_II; cd03702 713887002183 Translation-initiation factor 2; Region: IF-2; pfam11987 713887002184 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...; Region: mtIF2_IVc; cd03692 713887002185 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 713887002186 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 713887002187 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 713887002188 active site 713887002189 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 713887002190 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 713887002191 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 713887002192 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 713887002193 active site 713887002194 NTP binding site [chemical binding]; other site 713887002195 metal binding triad [ion binding]; metal-binding site 713887002196 Domain of unknown function (DUF370); Region: DUF370; cl00898 713887002197 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...; Region: GMPK; cd00071 713887002198 catalytic site [active] 713887002199 G-X2-G-X-G-K; other site 713887002200 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14457 713887002201 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; cl15259 713887002202 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 713887002203 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; cl15259 713887002204 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 713887002205 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 713887002206 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 713887002207 Walker A/P-loop; other site 713887002208 ATP binding site [chemical binding]; other site 713887002209 Q-loop/lid; other site 713887002210 ABC transporter signature motif; other site 713887002211 Walker B; other site 713887002212 D-loop; other site 713887002213 H-loop/switch region; other site 713887002214 conserved hypothetical protein; Region: TIGR03492 713887002215 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 713887002216 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 713887002217 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 713887002218 catalytic residue [active] 713887002219 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 713887002220 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 713887002221 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 713887002222 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 713887002223 Walker A/P-loop; other site 713887002224 ATP binding site [chemical binding]; other site 713887002225 Q-loop/lid; other site 713887002226 ABC transporter signature motif; other site 713887002227 Walker B; other site 713887002228 D-loop; other site 713887002229 H-loop/switch region; other site 713887002230 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 713887002231 putative ABC transporter; Region: ycf24; CHL00085 713887002232 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12902 713887002233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887002234 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 713887002235 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 713887002236 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 713887002237 active site 713887002238 HIGH motif; other site 713887002239 KMSKS motif; other site 713887002240 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 713887002241 tRNA binding surface [nucleotide binding]; other site 713887002242 anticodon binding site; other site 713887002243 Uncharacterized conserved protein [Function unknown]; Region: COG1432 713887002244 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 713887002245 putative metal binding site [ion binding]; other site 713887002246 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 713887002247 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 713887002248 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 713887002249 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 713887002250 inhibitor-cofactor binding pocket; inhibition site 713887002251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887002252 catalytic residue [active] 713887002253 acetyl-CoA synthetase; Provisional; Region: PRK00174 713887002254 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 713887002255 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 713887002256 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 713887002257 Photosystem I protein M (PsaM); Region: PsaM; cl06482 713887002258 Membrane protein of unknown function; Region: DUF360; cl00850 713887002259 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 713887002260 Outer membrane efflux protein; Region: OEP; pfam02321 713887002261 Outer membrane efflux protein; Region: OEP; pfam02321 713887002262 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...; Region: cpn10; cd00320 713887002263 oligomerisation interface [polypeptide binding]; other site 713887002264 mobile loop; other site 713887002265 roof hairpin; other site 713887002266 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 713887002267 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 713887002268 ring oligomerisation interface [polypeptide binding]; other site 713887002269 ATP/Mg binding site [chemical binding]; other site 713887002270 stacking interactions; other site 713887002271 hinge regions; other site 713887002272 circadian clock protein KaiC; Reviewed; Region: PRK09302 713887002273 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 713887002274 Walker A motif; other site 713887002275 ATP binding site [chemical binding]; other site 713887002276 Walker B motif; other site 713887002277 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887002278 ATP binding site [chemical binding]; other site 713887002279 Walker B motif; other site 713887002280 KaiA domain; Region: KaiA; pfam07688 713887002281 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 713887002282 CemA family; Region: CemA; cl03855 713887002283 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 713887002284 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...; Region: DnaJ; cl02542 713887002285 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 713887002286 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 713887002287 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 713887002288 tetramer interface [polypeptide binding]; other site 713887002289 TPP-binding site [chemical binding]; other site 713887002290 heterodimer interface [polypeptide binding]; other site 713887002291 phosphorylation loop region [posttranslational modification] 713887002292 Protein of function (DUF2518); Region: DUF2518; pfam10726 713887002293 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 713887002294 Precorrin-8X methylmutase; Region: CbiC; pfam02570 713887002295 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 713887002296 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 713887002297 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887002298 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 important for the assimilation...; Region: APSK; cd02027 713887002299 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 713887002300 ligand-binding site [chemical binding]; other site 713887002301 phage shock protein PspA; Provisional; Region: PRK10698 713887002302 serine O-acetyltransferase; Region: cysE; TIGR01172 713887002303 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 L-...; Region: LbH_SAT; cd03354 713887002304 trimer interface [polypeptide binding]; other site 713887002305 active site 713887002306 substrate binding site [chemical binding]; other site 713887002307 CoA binding site [chemical binding]; other site 713887002308 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 713887002309 Catalytic site [active] 713887002310 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 713887002311 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 713887002312 putative active site [active] 713887002313 catalytic triad [active] 713887002314 putative dimer interface [polypeptide binding]; other site 713887002315 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 713887002316 Protein of unknown function (DUF3067); Region: DUF3067; pfam11267 713887002317 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 713887002318 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 713887002319 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 713887002320 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 713887002321 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 713887002322 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 713887002323 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 713887002324 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 713887002325 Ferredoxin [Energy production and conversion]; Region: COG1146 713887002326 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 alpha-; Region: HCP_like; cl14655 713887002327 photochlorophyllide reductase subunit L; Region: chlL; CHL00072 713887002328 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB...; Region: Bchl_like; cd02032 713887002329 P-loop; other site 713887002330 Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls...; Region: Pchlide_reductase_N; cd01979 713887002331 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 713887002332 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 713887002333 catalytic loop [active] 713887002334 iron binding site [ion binding]; other site 713887002335 cobyric acid synthase; Provisional; Region: PRK00784 713887002336 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 713887002337 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 713887002338 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 713887002339 catalytic triad [active] 713887002340 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...; Region: PRX_BCP; cd03017 713887002341 catalytic triad [active] 713887002342 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 713887002343 Exoribonuclease R [Transcription]; Region: VacB; COG0557 713887002344 RNB domain; Region: RNB; pfam00773 713887002345 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 713887002346 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 713887002347 trimer interface [polypeptide binding]; other site 713887002348 active site 713887002349 dimer interface [polypeptide binding]; other site 713887002350 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 713887002351 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 713887002352 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 713887002353 active site 713887002354 dimer interface [polypeptide binding]; other site 713887002355 motif 1; other site 713887002356 motif 2; other site 713887002357 motif 3; other site 713887002358 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 713887002359 anticodon binding site; other site 713887002360 seryl-tRNA synthetase; Provisional; Region: PRK05431 713887002361 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 713887002362 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 713887002363 dimer interface [polypeptide binding]; other site 713887002364 active site 713887002365 motif 1; other site 713887002366 motif 2; other site 713887002367 motif 3; other site 713887002368 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...; Region: PRX_BCP; cd03017 713887002369 catalytic triad [active] 713887002370 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 713887002371 Domain of unknown function DUF59; Region: DUF59; cl00941 713887002372 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 713887002373 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 713887002374 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 713887002375 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 713887002376 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 713887002377 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 713887002378 S-adenosylmethionine binding site [chemical binding]; other site 713887002379 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887002380 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 713887002381 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 713887002382 ligand binding site [chemical binding]; other site 713887002383 oligomer interface [polypeptide binding]; other site 713887002384 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 rate-...; Region: LbH_G1P_AT_C; cd04651 713887002385 dimer interface [polypeptide binding]; other site 713887002386 N-terminal domain interface [polypeptide binding]; other site 713887002387 sulfate 1 binding site; other site 713887002388 excinuclease ABC subunit B; Provisional; Region: PRK05298 713887002389 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 713887002390 ATP binding site [chemical binding]; other site 713887002391 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 713887002392 nucleotide binding region [chemical binding]; other site 713887002393 ATP-binding site [chemical binding]; other site 713887002394 Ultra-violet resistance protein B; Region: UvrB; pfam12344 713887002395 UvrB/uvrC motif; Region: UVR; pfam02151 713887002396 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 713887002397 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 713887002398 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_20; cd08519 713887002399 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]; Region: MET3; COG2046 713887002400 ATP-sulfurylase; Region: ATPS; cd00517 713887002401 active site 713887002402 HXXH motif; other site 713887002403 flexible loop; other site 713887002404 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 713887002405 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 713887002406 Protein of unknown function (DUF3769); Region: DUF3769; pfam12600 713887002407 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 713887002408 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 713887002409 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 713887002410 Protein of unknown function (DUF2996); Region: DUF2996; pfam11210 713887002411 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 713887002412 FAD binding domain; Region: FAD_binding_4; pfam01565 713887002413 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 713887002414 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 713887002415 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 713887002416 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 713887002417 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 713887002418 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 713887002419 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 713887002420 NAD(P) binding site [chemical binding]; other site 713887002421 homotetramer interface [polypeptide binding]; other site 713887002422 homodimer interface [polypeptide binding]; other site 713887002423 active site 713887002424 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 713887002425 DHH family; Region: DHH; pfam01368 713887002426 Hypothetical methyltransferase; Region: Methyltransf_13; pfam08421 713887002427 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 713887002428 S-adenosylmethionine binding site [chemical binding]; other site 713887002429 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 713887002430 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 713887002431 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 713887002432 Ligand binding site [chemical binding]; other site 713887002433 Putative Catalytic site [active] 713887002434 DXD motif; other site 713887002435 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887002436 Predicted integral membrane protein [Function unknown]; Region: COG5617 713887002437 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 713887002438 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 713887002439 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 713887002440 S17 interaction site [polypeptide binding]; other site 713887002441 S8 interaction site; other site 713887002442 16S rRNA interaction site [nucleotide binding]; other site 713887002443 streptomycin interaction site [chemical binding]; other site 713887002444 23S rRNA interaction site [nucleotide binding]; other site 713887002445 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 713887002446 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 713887002447 elongation factor G; Reviewed; Region: PRK00007 713887002448 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 713887002449 G1 box; other site 713887002450 putative GEF interaction site [polypeptide binding]; other site 713887002451 GTP/Mg2+ binding site [chemical binding]; other site 713887002452 Switch I region; other site 713887002453 G2 box; other site 713887002454 G3 box; other site 713887002455 Switch II region; other site 713887002456 G4 box; other site 713887002457 G5 box; other site 713887002458 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...; Region: EFG_mtEFG_II; cd04088 713887002459 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...; Region: EFG_mtEFG1_IV; cd01434 713887002460 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...; Region: EFG_mtEFG_C; cd03713 713887002461 elongation factor Tu; Region: tufA; CHL00071 713887002462 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 713887002463 G1 box; other site 713887002464 GEF interaction site [polypeptide binding]; other site 713887002465 GTP/Mg2+ binding site [chemical binding]; other site 713887002466 Switch I region; other site 713887002467 G2 box; other site 713887002468 G3 box; other site 713887002469 Switch II region; other site 713887002470 G4 box; other site 713887002471 G5 box; other site 713887002472 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 713887002473 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 713887002474 Antibiotic Binding Site [chemical binding]; other site 713887002475 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 713887002476 NnrU protein; Region: NnrU; cl01697 713887002477 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 713887002478 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 713887002479 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 713887002480 putative dimerization interface [polypeptide binding]; other site 713887002481 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 713887002482 catalytic loop [active] 713887002483 iron binding site [ion binding]; other site 713887002484 hypothetical protein; Validated; Region: PRK07411 713887002485 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 713887002486 ATP binding site [chemical binding]; other site 713887002487 substrate interface [chemical binding]; other site 713887002488 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 713887002489 active site residue [active] 713887002490 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 713887002491 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 connected by an extended linker. The...; Region: HAMP; cd06225 713887002492 dimerization interface [polypeptide binding]; other site 713887002493 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 trans-...; Region: HisKA; cd00082 713887002494 dimer interface [polypeptide binding]; other site 713887002495 phosphorylation site [posttranslational modification] 713887002496 Histidine kinase-like ATPases; This family includes several ATP-binding 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 713887002497 ATP binding site [chemical binding]; other site 713887002498 Mg2+ binding site [ion binding]; other site 713887002499 G-X-G motif; other site 713887002500 recombinase A; Provisional; Region: recA; PRK09354 713887002501 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 713887002502 hexamer interface [polypeptide binding]; other site 713887002503 Walker A motif; other site 713887002504 ATP binding site [chemical binding]; other site 713887002505 Walker B motif; other site 713887002506 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 713887002507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887002508 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; cl01017 713887002509 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 713887002510 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 713887002511 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 713887002512 NADH-plastoquinone oxidoreductase subunit I protein; Region: ndhI; TIGR00403 713887002513 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 alpha-; Region: HCP_like; cl14655 713887002514 NADH dehydrogenase; Region: NADHdh; cl00469 713887002515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887002516 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 713887002517 NAD(P) binding site [chemical binding]; other site 713887002518 active site 713887002519 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 713887002520 dimer interface [polypeptide binding]; other site 713887002521 active site 713887002522 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 713887002523 active site 713887002524 motif I; other site 713887002525 motif II; other site 713887002526 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 713887002527 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 713887002528 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 713887002529 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 713887002530 alanine dehydrogenase; Region: alaDH; TIGR00518 713887002531 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 713887002532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887002533 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 713887002534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887002535 Walker A/P-loop; other site 713887002536 ATP binding site [chemical binding]; other site 713887002537 Q-loop/lid; other site 713887002538 ABC transporter signature motif; other site 713887002539 Walker B; other site 713887002540 D-loop; other site 713887002541 H-loop/switch region; other site 713887002542 Smr domain; Region: Smr; cl02619 713887002543 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 713887002544 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 713887002545 Predicted domain in sensory proteins (DUF2308); Region: DUF2308; cl01731 713887002546 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 713887002547 GAF domain; Region: GAF; cl00853 713887002548 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 trans-...; Region: HisKA; cd00082 713887002549 dimer interface [polypeptide binding]; other site 713887002550 phosphorylation site [posttranslational modification] 713887002551 Histidine kinase-like ATPases; This family includes several ATP-binding 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 713887002552 ATP binding site [chemical binding]; other site 713887002553 Mg2+ binding site [ion binding]; other site 713887002554 G-X-G motif; other site 713887002555 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 713887002556 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 713887002557 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 713887002558 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...; Region: TM_PBP2; cl00427 713887002559 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 713887002560 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 713887002561 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 713887002562 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 713887002563 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 713887002564 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 713887002565 intersubunit interface [polypeptide binding]; other site 713887002566 active site 713887002567 catalytic residue [active] 713887002568 sensor protein KdpD; Provisional; Region: PRK10490 713887002569 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 trans-...; Region: HisKA; cl00080 713887002570 Histidine kinase-like ATPases; This family includes several ATP-binding 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 713887002571 ATP binding site [chemical binding]; other site 713887002572 Mg2+ binding site [ion binding]; other site 713887002573 G-X-G motif; other site 713887002574 Protein of unknown function (DUF3155); Region: DUF3155; pfam11352 713887002575 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 713887002576 Tic22-like family; Region: Tic22; cl04468 713887002577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887002578 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 713887002579 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 713887002580 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 713887002581 Walker A/P-loop; other site 713887002582 ATP binding site [chemical binding]; other site 713887002583 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 713887002584 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 713887002585 Q-loop/lid; other site 713887002586 ABC transporter signature motif; other site 713887002587 Walker B; other site 713887002588 D-loop; other site 713887002589 H-loop/switch region; other site 713887002590 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK02534 713887002591 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 713887002592 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 713887002593 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 713887002594 dimer interface [polypeptide binding]; other site 713887002595 motif 1; other site 713887002596 active site 713887002597 motif 2; other site 713887002598 motif 3; other site 713887002599 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 713887002600 anticodon binding site; other site 713887002601 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 713887002602 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 713887002603 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 713887002604 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 713887002605 dimer interface [polypeptide binding]; other site 713887002606 anticodon binding site; other site 713887002607 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 713887002608 homodimer interface [polypeptide binding]; other site 713887002609 motif 1; other site 713887002610 active site 713887002611 motif 2; other site 713887002612 GAD domain; Region: GAD; pfam02938 713887002613 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 713887002614 active site 713887002615 motif 3; other site 713887002616 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 713887002617 FO synthase subunit 2; Reviewed; Region: PRK07360 713887002618 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; cl15259 713887002619 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 713887002620 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 713887002621 NAD binding site [chemical binding]; other site 713887002622 homodimer interface [polypeptide binding]; other site 713887002623 active site 713887002624 substrate binding site [chemical binding]; other site 713887002625 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 713887002626 diiron binding motif [ion binding]; other site 713887002627 Protein of unknown function (DUF2930); Region: DUF2930; pfam11152 713887002628 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 713887002629 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 713887002630 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 713887002631 Walker A/P-loop; other site 713887002632 ATP binding site [chemical binding]; other site 713887002633 Q-loop/lid; other site 713887002634 ABC transporter signature motif; other site 713887002635 Walker B; other site 713887002636 D-loop; other site 713887002637 H-loop/switch region; other site 713887002638 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 713887002639 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 713887002640 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 713887002641 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 713887002642 active site 713887002643 homodimer interface [polypeptide binding]; other site 713887002644 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 713887002645 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 713887002646 active site 713887002647 HIGH motif; other site 713887002648 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 713887002649 KMSKS motif; other site 713887002650 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 713887002651 tRNA binding surface [nucleotide binding]; other site 713887002652 anticodon binding site; other site 713887002653 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 713887002654 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 713887002655 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 713887002656 P loop; other site 713887002657 GTP binding site [chemical binding]; other site 713887002658 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...; Region: Ribosomal_S15p_S13e; cd00353 713887002659 16S/18S rRNA binding site [nucleotide binding]; other site 713887002660 S13e-L30e interaction site [polypeptide binding]; other site 713887002661 25S rRNA binding site [nucleotide binding]; other site 713887002662 UbiA prenyltransferase family; Region: UbiA; cl00337 713887002663 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 713887002664 active site 713887002665 putative substrate binding region [chemical binding]; other site 713887002666 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-...; Region: CBS_pair; cl09141 713887002667 Photosystem II protein; Region: PSII; cl08223 713887002668 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 713887002669 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 713887002670 NAD binding site [chemical binding]; other site 713887002671 homotetramer interface [polypeptide binding]; other site 713887002672 homodimer interface [polypeptide binding]; other site 713887002673 substrate binding site [chemical binding]; other site 713887002674 active site 713887002675 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 713887002676 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 713887002677 ligand binding site [chemical binding]; other site 713887002678 flexible hinge region; other site 713887002679 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 713887002680 putative switch regulator; other site 713887002681 non-specific DNA interactions [nucleotide binding]; other site 713887002682 DNA binding site [nucleotide binding] 713887002683 sequence specific DNA binding site [nucleotide binding]; other site 713887002684 putative cAMP binding site [chemical binding]; other site 713887002685 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 713887002686 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 713887002687 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 713887002688 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 713887002689 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 713887002690 motif 1; other site 713887002691 active site 713887002692 motif 2; other site 713887002693 motif 3; other site 713887002694 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 713887002695 DHHA1 domain; Region: DHHA1; pfam02272 713887002696 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 713887002697 Peptidase family M48; Region: Peptidase_M48; cl12018 713887002698 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 713887002699 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 713887002700 nucleotide binding pocket [chemical binding]; other site 713887002701 K-X-D-G motif; other site 713887002702 catalytic site [active] 713887002703 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 713887002704 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 713887002705 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 713887002706 Dimer interface [polypeptide binding]; other site 713887002707 BRCT sequence motif; other site 713887002708 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 713887002709 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 713887002710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 713887002711 active site 713887002712 phosphorylation site [posttranslational modification] 713887002713 intermolecular recognition site; other site 713887002714 dimerization interface [polypeptide binding]; other site 713887002715 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...; Region: LuxR_C_like; cd06170 713887002716 DNA binding residues [nucleotide binding] 713887002717 dimerization interface [polypeptide binding]; other site 713887002718 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 713887002719 Adenosine/AMP deaminase. Adenosine deaminases (ADAs) are present in pro- and eukaryotic organisms and catalyze the zinc dependent irreversible deamination of adenosine nucleosides to inosine nucleosides and ammonia. The eukaryotic AMP deaminase...; Region: ADA_AMPD; cd00443 713887002720 active site 713887002721 Clp protease ATP binding subunit; Region: clpC; CHL00095 713887002722 Clp amino terminal domain; Region: Clp_N; pfam02861 713887002723 Clp amino terminal domain; Region: Clp_N; pfam02861 713887002724 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...; Region: AAA; cd00009 713887002725 Walker A motif; other site 713887002726 ATP binding site [chemical binding]; other site 713887002727 Walker B motif; other site 713887002728 arginine finger; other site 713887002729 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...; Region: AAA; cd00009 713887002730 Walker A motif; other site 713887002731 ATP binding site [chemical binding]; other site 713887002732 Walker B motif; other site 713887002733 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 713887002734 homoserine kinase; Provisional; Region: PRK01212 713887002735 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 713887002736 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 713887002737 peptide chain release factor 2; Validated; Region: prfB; PRK00578 713887002738 RF-1 domain; Region: RF-1; cl02875 713887002739 RF-1 domain; Region: RF-1; cl02875 713887002740 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 713887002741 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 713887002742 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 713887002743 aspartate kinase; Provisional; Region: PRK07431 713887002744 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli (...; Region: AAK_AK-DapG-like; cd04246 713887002745 putative catalytic residues [active] 713887002746 putative nucleotide binding site [chemical binding]; other site 713887002747 putative aspartate binding site [chemical binding]; other site 713887002748 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 713887002749 putative allosteric regulatory site; other site 713887002750 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 713887002751 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 713887002752 putative allosteric regulatory site; other site 713887002753 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 713887002754 putative allosteric regulatory residue; other site 713887002755 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 713887002756 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 713887002757 Active site cavity [active] 713887002758 catalytic acid [active] 713887002759 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 713887002760 putative hydrophobic ligand binding site [chemical binding]; other site 713887002761 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 713887002762 active site 713887002763 oxyanion hole [active] 713887002764 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 713887002765 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 713887002766 Walker A/P-loop; other site 713887002767 ATP binding site [chemical binding]; other site 713887002768 Q-loop/lid; other site 713887002769 ABC transporter signature motif; other site 713887002770 Walker B; other site 713887002771 D-loop; other site 713887002772 H-loop/switch region; other site 713887002773 TOBE domain; Region: TOBE_2; cl01440 713887002774 Cobalt transport protein; Region: CbiQ; cl00463 713887002775 Bacitracin resistance protein BacA; Region: BacA; cl00858 713887002776 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 713887002777 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 713887002778 HIGH motif; other site 713887002779 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 713887002780 active site 713887002781 KMSKS motif; other site 713887002782 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 713887002783 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 713887002784 Walker A/P-loop; other site 713887002785 ATP binding site [chemical binding]; other site 713887002786 Q-loop/lid; other site 713887002787 ABC transporter signature motif; other site 713887002788 Walker B; other site 713887002789 D-loop; other site 713887002790 H-loop/switch region; other site 713887002791 NADH-ubiquinone oxidoreductase chain 4, amino terminus; Region: Oxidored_q5_N; pfam01059 713887002792 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK12561 713887002793 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 713887002794 Domain of unknown function (DUF1817); Region: DUF1817; cl02292 713887002795 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 713887002796 catalytic center binding site [active] 713887002797 ATP binding site [chemical binding]; other site 713887002798 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 713887002799 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 713887002800 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 713887002801 Active Sites [active] 713887002802 Ycf27; Reviewed; Region: orf27; CHL00148 713887002803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 713887002804 active site 713887002805 phosphorylation site [posttranslational modification] 713887002806 intermolecular recognition site; other site 713887002807 dimerization interface [polypeptide binding]; other site 713887002808 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...; Region: trans_reg_C; cd00383 713887002809 DNA binding site [nucleotide binding] 713887002810 DNA repair protein RadA; Provisional; Region: PRK11823 713887002811 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 713887002812 Walker A motif/ATP binding site; other site 713887002813 ATP binding site [chemical binding]; other site 713887002814 Walker B motif; other site 713887002815 OstA-like protein; Region: OstA; cl00844 713887002816 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 713887002817 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 713887002818 Walker A/P-loop; other site 713887002819 ATP binding site [chemical binding]; other site 713887002820 Q-loop/lid; other site 713887002821 ABC transporter signature motif; other site 713887002822 Walker B; other site 713887002823 D-loop; other site 713887002824 H-loop/switch region; other site 713887002825 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 713887002826 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 713887002827 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 713887002828 catalytic triad [active] 713887002829 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 713887002830 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 713887002831 tRNA; other site 713887002832 putative tRNA binding site [nucleotide binding]; other site 713887002833 putative NADP binding site [chemical binding]; other site 713887002834 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 713887002835 Predicted transcriptional regulators [Transcription]; Region: COG1725 713887002836 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 713887002837 DNA-binding site [nucleotide binding]; DNA binding site 713887002838 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 713887002839 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 713887002840 putative acyl-acceptor binding pocket; other site 713887002841 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 713887002842 active site 713887002843 catalytic residues [active] 713887002844 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887002845 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 713887002846 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 713887002847 extended (e) SDRs; Region: SDR_e; cd08946 713887002848 NAD(P) binding site [chemical binding]; other site 713887002849 active site 713887002850 substrate binding site [chemical binding]; other site 713887002851 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 713887002852 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 713887002853 Walker A/P-loop; other site 713887002854 ATP binding site [chemical binding]; other site 713887002855 Q-loop/lid; other site 713887002856 ABC transporter signature motif; other site 713887002857 Walker B; other site 713887002858 D-loop; other site 713887002859 H-loop/switch region; other site 713887002860 ABC-2 type transporter; Region: ABC2_membrane; cl11417 713887002861 Protein of unknown function (DUF2862); Region: DUF2862; pfam11061 713887002862 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 713887002863 ATP binding site [chemical binding]; other site 713887002864 dimerization interface [polypeptide binding]; other site 713887002865 Metal binding site [ion binding]; metal-binding site 713887002866 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 713887002867 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 713887002868 G1 box; other site 713887002869 putative GEF interaction site [polypeptide binding]; other site 713887002870 GTP/Mg2+ binding site [chemical binding]; other site 713887002871 Switch I region; other site 713887002872 G2 box; other site 713887002873 G3 box; other site 713887002874 Switch II region; other site 713887002875 G4 box; other site 713887002876 G5 box; other site 713887002877 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 713887002878 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 713887002879 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 713887002880 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 713887002881 DNA binding site [nucleotide binding] 713887002882 Int/Topo IB signature motif; other site 713887002883 active site 713887002884 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 713887002885 Double zinc ribbon; Region: DZR; pfam12773 713887002886 geranylgeranyl reductase; Region: ChlP; TIGR02028 713887002887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887002888 GTPase CgtA; Reviewed; Region: obgE; PRK12299 713887002889 GTP1/OBG; Region: GTP1_OBG; pfam01018 713887002890 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 713887002891 G1 box; other site 713887002892 GTP/Mg2+ binding site [chemical binding]; other site 713887002893 Switch I region; other site 713887002894 G2 box; other site 713887002895 G3 box; other site 713887002896 Switch II region; other site 713887002897 G4 box; other site 713887002898 G5 box; other site 713887002899 Family of unknown function (DUF490); Region: DUF490; pfam04357 713887002900 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 713887002901 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 713887002902 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 713887002903 glutathione synthetase; Provisional; Region: PRK05246 713887002904 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 713887002905 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 713887002906 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 713887002907 GSH binding site [chemical binding]; other site 713887002908 catalytic residues [active] 713887002909 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 713887002910 active site 713887002911 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 713887002912 active site 713887002913 photosystem I P subunit (PSI-P); Region: PLN02777 713887002914 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cd00284 713887002915 Qi binding site; other site 713887002916 intrachain domain interface; other site 713887002917 interchain domain interface [polypeptide binding]; other site 713887002918 heme bH binding site [chemical binding]; other site 713887002919 heme bL binding site [chemical binding]; other site 713887002920 Qo binding site; other site 713887002921 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: cytochrome_b_C; cd00290 713887002922 interchain domain interface [polypeptide binding]; other site 713887002923 intrachain domain interface; other site 713887002924 Qi binding site; other site 713887002925 Qo binding site; other site 713887002926 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 713887002927 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...; Region: HemD; cd06578 713887002928 active site 713887002929 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 713887002930 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 713887002931 active site 713887002932 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 713887002933 tetramer (dimer of dimers) interface [polypeptide binding]; other site 713887002934 active site 713887002935 dimer interface [polypeptide binding]; other site 713887002936 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 713887002937 RNA/DNA binding site [nucleotide binding]; other site 713887002938 RRM dimerization site [polypeptide binding]; other site 713887002939 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 713887002940 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 713887002941 domain interfaces; other site 713887002942 active site 713887002943 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 713887002944 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 713887002945 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 713887002946 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 713887002947 N-acetyl-D-glucosamine binding site [chemical binding]; other site 713887002948 catalytic residue [active] 713887002949 S-layer homology domain; Region: SLH; pfam00395 713887002950 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 713887002951 FtsH Extracellular; Region: FtsH_ext; pfam06480 713887002952 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 713887002953 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...; Region: AAA; cd00009 713887002954 Walker A motif; other site 713887002955 ATP binding site [chemical binding]; other site 713887002956 Walker B motif; other site 713887002957 arginine finger; other site 713887002958 Peptidase family M41; Region: Peptidase_M41; pfam01434 713887002959 YGGT family; Region: YGGT; cl00508 713887002960 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 713887002961 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 713887002962 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887002963 Walker A/P-loop; other site 713887002964 ATP binding site [chemical binding]; other site 713887002965 Q-loop/lid; other site 713887002966 ABC transporter signature motif; other site 713887002967 Walker B; other site 713887002968 D-loop; other site 713887002969 H-loop/switch region; other site 713887002970 sulfite reductase subunit beta; Provisional; Region: PRK13504 713887002971 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 713887002972 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 713887002973 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 713887002974 MgtE intracellular N domain; Region: MgtE_N; cl15244 713887002975 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 713887002976 Divalent cation transporter; Region: MgtE; cl00786 713887002977 Divalent cation transporter; Region: MgtE; cl00786 713887002978 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 713887002979 Tetramer interface [polypeptide binding]; other site 713887002980 Active site [active] 713887002981 FMN-binding site [chemical binding]; other site 713887002982 Protein of unknown function (DUF2555); Region: DUF2555; pfam10742 713887002983 hypothetical protein; Provisional; Region: PRK13683 713887002984 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 713887002985 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 713887002986 C-terminal; Region: SpoU_methylas_C; pfam12105 713887002987 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 713887002988 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 713887002989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887002990 homodimer interface [polypeptide binding]; other site 713887002991 catalytic residue [active] 713887002992 Protein of unknown function (DUF3153); Region: DUF3153; pfam11353 713887002993 Exoribonuclease R [Transcription]; Region: VacB; COG0557 713887002994 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 713887002995 RNB domain; Region: RNB; pfam00773 713887002996 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 713887002997 RNA binding site [nucleotide binding]; other site 713887002998 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 713887002999 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 713887003000 Ligand Binding Site [chemical binding]; other site 713887003001 TilS substrate binding domain; Region: TilS; pfam09179 713887003002 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 713887003003 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 713887003004 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...; Region: AAA; cd00009 713887003005 Walker A motif; other site 713887003006 ATP binding site [chemical binding]; other site 713887003007 Walker B motif; other site 713887003008 arginine finger; other site 713887003009 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 713887003010 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 713887003011 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 713887003012 putative active site [active] 713887003013 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 713887003014 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 713887003015 active site 713887003016 (T/H)XGH motif; other site 713887003017 NAD synthetase; Provisional; Region: PRK13981 713887003018 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 713887003019 multimer interface [polypeptide binding]; other site 713887003020 active site 713887003021 catalytic triad [active] 713887003022 protein interface 1 [polypeptide binding]; other site 713887003023 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...; Region: NAD_synthase; cd00553 713887003024 homodimer interface [polypeptide binding]; other site 713887003025 NAD binding pocket [chemical binding]; other site 713887003026 ATP binding pocket [chemical binding]; other site 713887003027 Mg binding site [ion binding]; other site 713887003028 active-site loop [active] 713887003029 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 713887003030 dimer interface [polypeptide binding]; other site 713887003031 catalytic triad [active] 713887003032 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 713887003033 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 713887003034 putative NADP binding site [chemical binding]; other site 713887003035 putative substrate binding site [chemical binding]; other site 713887003036 active site 713887003037 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 713887003038 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 713887003039 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 713887003040 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 713887003041 metal-binding site [ion binding] 713887003042 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 713887003043 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; cl11391 713887003044 DNA polymerase III subunit delta'; Validated; Region: PRK07399 713887003045 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 713887003046 GAF domain; Region: GAF; cl00853 713887003047 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 trans-...; Region: HisKA; cd00082 713887003048 dimer interface [polypeptide binding]; other site 713887003049 phosphorylation site [posttranslational modification] 713887003050 Histidine kinase-like ATPases; This family includes several ATP-binding 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 713887003051 ATP binding site [chemical binding]; other site 713887003052 Mg2+ binding site [ion binding]; other site 713887003053 G-X-G motif; other site 713887003054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 713887003055 active site 713887003056 phosphorylation site [posttranslational modification] 713887003057 intermolecular recognition site; other site 713887003058 dimerization interface [polypeptide binding]; other site 713887003059 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 713887003060 Nickel-containing superoxide dismutase; Region: Sod_Ni; cl07609 713887003061 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 713887003062 Catalytic site [active] 713887003063 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 713887003064 active site 713887003065 CobD/Cbib protein; Region: CobD_Cbib; cl00561 713887003066 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 713887003067 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...; Region: DnaJ; cd06257 713887003068 HSP70 interaction site [polypeptide binding]; other site 713887003069 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 713887003070 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14317 713887003071 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-...; Region: GlmM; cd05802 713887003072 active site 713887003073 substrate binding site [chemical binding]; other site 713887003074 metal binding site [ion binding]; metal-binding site 713887003075 methionine aminopeptidase; Reviewed; Region: PRK07281 713887003076 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 713887003077 active site 713887003078 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...; Region: TM_PBP2; cl00427 713887003079 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 713887003080 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...; Region: TM_PBP2; cd06261 713887003081 dimer interface [polypeptide binding]; other site 713887003082 conserved gate region; other site 713887003083 putative PBP binding loops; other site 713887003084 ABC-ATPase subunit interface; other site 713887003085 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 713887003086 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 713887003087 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 713887003088 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 713887003089 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...; Region: AAA; cd00009 713887003090 Walker A motif; other site 713887003091 ATP binding site [chemical binding]; other site 713887003092 Walker B motif; other site 713887003093 R3H domain of a group of proteins with unknown function, who also contain a AAA-ATPase (AAA) domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is...; Region: R3H_AAA; cd02645 713887003094 RxxxH motif; other site 713887003095 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 713887003096 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 713887003097 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 713887003098 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 713887003099 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 713887003100 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 713887003101 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 713887003102 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 713887003103 putative translocon binding site; other site 713887003104 protein-rRNA interface [nucleotide binding]; other site 713887003105 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 713887003106 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...; Region: 30S_S3_KH; cd02412 713887003107 G-X-X-G motif; other site 713887003108 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 713887003109 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 713887003110 23S rRNA interface [nucleotide binding]; other site 713887003111 5S rRNA interface [nucleotide binding]; other site 713887003112 putative antibiotic binding site [chemical binding]; other site 713887003113 L25 interface [polypeptide binding]; other site 713887003114 L27 interface [polypeptide binding]; other site 713887003115 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...; Region: Ribosomal_L29_HIP; cd00427 713887003116 L23 interface [polypeptide binding]; other site 713887003117 signal recognition particle (SRP54) interaction site; other site 713887003118 trigger factor interaction site; other site 713887003119 23S rRNA interface [nucleotide binding]; other site 713887003120 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 713887003121 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 713887003122 KOW motif; Region: KOW; cl00354 713887003123 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 713887003124 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 713887003125 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 713887003126 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 713887003127 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 713887003128 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 713887003129 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 713887003130 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 713887003131 23S rRNA interface [nucleotide binding]; other site 713887003132 L21e interface [polypeptide binding]; other site 713887003133 5S rRNA interface [nucleotide binding]; other site 713887003134 L27 interface [polypeptide binding]; other site 713887003135 L5 interface [polypeptide binding]; other site 713887003136 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 713887003137 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 713887003138 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 713887003139 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 713887003140 preprotein translocase subunit SecY; Validated; Region: secY; CHL00161 713887003141 SecY translocase; Region: SecY; pfam00344 713887003142 adenylate kinase; Provisional; Region: adk; PRK02496 713887003143 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 713887003144 AMP-binding site [chemical binding]; other site 713887003145 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 713887003146 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 713887003147 rRNA binding site [nucleotide binding]; other site 713887003148 predicted 30S ribosome binding site; other site 713887003149 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 713887003150 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 713887003151 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 713887003152 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 713887003153 alphaNTD homodimer interface [polypeptide binding]; other site 713887003154 alphaNTD - beta interaction site [polypeptide binding]; other site 713887003155 alphaNTD - beta' interaction site [polypeptide binding]; other site 713887003156 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 713887003157 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 713887003158 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 713887003159 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 713887003160 dimerization interface 3.5A [polypeptide binding]; other site 713887003161 active site 713887003162 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 713887003163 23S rRNA interface [nucleotide binding]; other site 713887003164 L3 interface [polypeptide binding]; other site 713887003165 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 713887003166 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 713887003167 peptide chain release factor 1; Validated; Region: prfA; PRK00591 713887003168 RF-1 domain; Region: RF-1; cl02875 713887003169 RF-1 domain; Region: RF-1; cl02875 713887003170 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 713887003171 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 713887003172 Protein of unknown function (DUF3038); Region: DUF3038; pfam11237 713887003173 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 713887003174 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 713887003175 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 713887003176 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14333 713887003177 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 713887003178 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 713887003179 FeS/SAM binding site; other site 713887003180 TRAM domain; Region: TRAM; cl01282 713887003181 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 713887003182 Stage II sporulation protein; Region: SpoIID; cl07201 713887003183 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 713887003184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887003185 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 713887003186 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 713887003187 Protein of unknown function (DUF3571); Region: DUF3571; pfam12095 713887003188 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 713887003189 RNA/DNA binding site [nucleotide binding]; other site 713887003190 RRM dimerization site [polypeptide binding]; other site 713887003191 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 713887003192 RNA/DNA binding site [nucleotide binding]; other site 713887003193 RRM dimerization site [polypeptide binding]; other site 713887003194 integral membrane protein MviN; Region: mviN; TIGR01695 713887003195 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 713887003196 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 713887003197 Ferredoxin thioredoxin reductase variable alpha chain; Region: FeThRed_A; pfam02941 713887003198 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 713887003199 PQ loop repeat; Region: PQ-loop; cl12056 713887003200 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 713887003201 dimerization interface [polypeptide binding]; other site 713887003202 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 713887003203 ATP binding site [chemical binding]; other site 713887003204 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 713887003205 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 713887003206 catalytic residue [active] 713887003207 FO synthase subunit 1; Reviewed; Region: cofG; PRK06245 713887003208 Ycf46; Provisional; Region: ycf46; CHL00195 713887003209 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...; Region: AAA; cd00009 713887003210 Walker A motif; other site 713887003211 ATP binding site [chemical binding]; other site 713887003212 Walker B motif; other site 713887003213 arginine finger; other site 713887003214 Protein of unknown function (DUF1257); Region: DUF1257; cl06088 713887003215 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 713887003216 SmpB-tmRNA interface; other site 713887003217 heat shock protein 90; Provisional; Region: PRK05218 713887003218 Histidine kinase-like ATPases; This family includes several ATP-binding 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 713887003219 ATP binding site [chemical binding]; other site 713887003220 Mg2+ binding site [ion binding]; other site 713887003221 G-X-G motif; other site 713887003222 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 713887003223 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 713887003224 putative peptidoglycan binding site; other site 713887003225 Peptidase family M23; Region: Peptidase_M23; pfam01551 713887003226 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 713887003227 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 713887003228 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 713887003229 NAD(P) binding site [chemical binding]; other site 713887003230 catalytic residues [active] 713887003231 multifunctional aminopeptidase A; Provisional; Region: PRK00913 713887003232 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein...; Region: Peptidase_M17; cd00433 713887003233 interface (dimer of trimers) [polypeptide binding]; other site 713887003234 Substrate-binding/catalytic site; other site 713887003235 Zn-binding sites [ion binding]; other site 713887003236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 713887003237 magnesium chelatase ATPase subunit D; Region: BchD-ChlD; TIGR02031 713887003238 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase...; Region: vWA_Magnesium_chelatase; cd01451 713887003239 metal ion-dependent adhesion site (MIDAS); other site 713887003240 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 713887003241 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 713887003242 binding surface 713887003243 TPR motif; other site 713887003244 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 713887003245 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 713887003246 RNA/DNA binding site [nucleotide binding]; other site 713887003247 RRM dimerization site [polypeptide binding]; other site 713887003248 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887003249 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 713887003250 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 713887003251 GTPase Era; Reviewed; Region: era; PRK00089 713887003252 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 713887003253 GTP/Mg2+ binding site [chemical binding]; other site 713887003254 G1 box; other site 713887003255 Switch I region; other site 713887003256 G2 box; other site 713887003257 Switch II region; other site 713887003258 G3 box; other site 713887003259 G4 box; other site 713887003260 G5 box; other site 713887003261 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 713887003262 calmodulin; Provisional; Region: PTZ00184 713887003263 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cd00051 713887003264 Ca2+ binding site [ion binding]; other site 713887003265 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cd00051 713887003266 Ca2+ binding site [ion binding]; other site 713887003267 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 713887003268 active site 713887003269 Fe-S cluster binding site [ion binding]; other site 713887003270 Domain of unknown function DUF20; Region: UPF0118; cl00465 713887003271 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 713887003272 Domain of unknown function DUF140; Region: DUF140; cl00510 713887003273 Ubiquitin-like proteins; Region: UBQ; cl00155 713887003274 charged pocket; other site 713887003275 hydrophobic patch; other site 713887003276 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 713887003277 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 713887003278 Walker A/P-loop; other site 713887003279 ATP binding site [chemical binding]; other site 713887003280 Q-loop/lid; other site 713887003281 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 713887003282 ABC transporter signature motif; other site 713887003283 Walker B; other site 713887003284 D-loop; other site 713887003285 H-loop/switch region; other site 713887003286 CO2 hydration protein (ChpXY); Region: ChpXY; cl10905 713887003287 NADH dehydrogenase transmembrane subunit; Region: NdhL; pfam10716 713887003288 Protein of unknown function (DUF3007); Region: DUF3007; pfam11460 713887003289 chaperone protein DnaJ; Provisional; Region: PRK14299 713887003290 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...; Region: DnaJ; cd06257 713887003291 HSP70 interaction site [polypeptide binding]; other site 713887003292 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 713887003293 L-asparaginase II; Region: Asparaginase_II; cl01842 713887003294 Protein of unknown function (DUF1230); Region: DUF1230; pfam06799 713887003295 Domain of unknown function DUF143; Region: DUF143; cl00519 713887003296 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 713887003297 primosome assembly protein PriA; Validated; Region: PRK05580 713887003298 NeuB family; Region: NeuB; cl00496 713887003299 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 713887003300 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 713887003301 tandem repeat interface [polypeptide binding]; other site 713887003302 oligomer interface [polypeptide binding]; other site 713887003303 active site residues [active] 713887003304 Protein of unknown function (DUF552); Region: DUF552; cl00775 713887003305 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 713887003306 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 713887003307 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; cd05120 713887003308 active site 713887003309 ATP binding site [chemical binding]; other site 713887003310 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 713887003311 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 713887003312 Substrate binding site [chemical binding]; other site 713887003313 Cupin domain; Region: Cupin_2; cl09118 713887003314 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02755 713887003315 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 713887003316 RNA binding site [nucleotide binding]; other site 713887003317 active site 713887003318 alanine racemase; Reviewed; Region: alr; PRK00053 713887003319 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 713887003320 active site 713887003321 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 713887003322 dimer interface [polypeptide binding]; other site 713887003323 substrate binding site [chemical binding]; other site 713887003324 catalytic residues [active] 713887003325 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 713887003326 GIY-YIG domain found in CAXIP1-like proteins, iron-sulfur cluster assembly proteins, and similar proteins; Region: GIY-YIG_AtGrxS16_like; cd10450 713887003327 GIY-YIG motif/motif A; other site 713887003328 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 713887003329 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 713887003330 Catalytic site [active] 713887003331 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 713887003332 chaperone protein DnaJ; Provisional; Region: PRK14299 713887003333 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...; Region: DnaJ; cd06257 713887003334 HSP70 interaction site [polypeptide binding]; other site 713887003335 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 713887003336 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 713887003337 molecular chaperone DnaK; Provisional; Region: PRK13410 713887003338 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 713887003339 NifU-like domain; Region: NifU; cl00484 713887003340 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 713887003341 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-...; Region: LysRS_N; cd04322 713887003342 dimer interface [polypeptide binding]; other site 713887003343 putative anticodon binding site; other site 713887003344 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 713887003345 motif 1; other site 713887003346 active site 713887003347 motif 2; other site 713887003348 motif 3; other site 713887003349 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 713887003350 Cation transport protein; Region: TrkH; cl10514 713887003351 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 713887003352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887003353 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; cl09110 713887003354 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 713887003355 catalytic motif [active] 713887003356 Zn binding site [ion binding]; other site 713887003357 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 713887003358 trimer interface [polypeptide binding]; other site 713887003359 active site 713887003360 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 713887003361 dimerization interface [polypeptide binding]; other site 713887003362 active site 713887003363 dihydropteroate synthase-related protein; Region: TIGR00284 713887003364 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 713887003365 active site 713887003366 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...; Region: PDZ_metalloprotease; cd00989 713887003367 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 713887003368 putative substrate binding region [chemical binding]; other site 713887003369 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 713887003370 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a...; Region: PGM_like2; cd05800 713887003371 active site 713887003372 substrate binding site [chemical binding]; other site 713887003373 metal binding site [ion binding]; metal-binding site 713887003374 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 713887003375 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 713887003376 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 713887003377 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 713887003378 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 713887003379 homotrimer interface [polypeptide binding]; other site 713887003380 Walker A motif; other site 713887003381 GTP binding site [chemical binding]; other site 713887003382 Walker B motif; other site 713887003383 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 713887003384 active site 713887003385 catalytic triad [active] 713887003386 shikimate kinase; Reviewed; Region: aroK; PRK00131 713887003387 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...; Region: SK; cd00464 713887003388 ADP binding site [chemical binding]; other site 713887003389 magnesium binding site [ion binding]; other site 713887003390 putative shikimate binding site; other site 713887003391 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 713887003392 Ligand Binding Site [chemical binding]; other site 713887003393 Domain of unknown function DUF20; Region: UPF0118; cl00465 713887003394 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 713887003395 Substrate binding site [chemical binding]; other site 713887003396 Mg++ binding site [ion binding]; other site 713887003397 metal binding site [ion binding]; metal-binding site 713887003398 Mg++ binding site [ion binding]; other site 713887003399 metal binding site [ion binding]; metal-binding site 713887003400 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 713887003401 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 713887003402 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 713887003403 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 713887003404 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 713887003405 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 713887003406 phosphate binding site [ion binding]; other site 713887003407 putative substrate binding pocket [chemical binding]; other site 713887003408 dimer interface [polypeptide binding]; other site 713887003409 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 713887003410 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 713887003411 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 713887003412 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 713887003413 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 713887003414 Predicted membrane protein (DUF2079); Region: DUF2079; cl01374 713887003415 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 713887003416 active site 713887003417 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 713887003418 MutS domain I; Region: MutS_I; pfam01624 713887003419 MutS domain II; Region: MutS_II; pfam05188 713887003420 MutS family domain IV; Region: MutS_IV; pfam05190 713887003421 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 713887003422 Walker A/P-loop; other site 713887003423 ATP binding site [chemical binding]; other site 713887003424 Q-loop/lid; other site 713887003425 ABC transporter signature motif; other site 713887003426 Walker B; other site 713887003427 D-loop; other site 713887003428 H-loop/switch region; other site 713887003429 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 713887003430 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 713887003431 dimer interface [polypeptide binding]; other site 713887003432 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 713887003433 Ion channel; Region: Ion_trans_2; cl11596 713887003434 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 713887003435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887003436 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; cl09110 713887003437 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 713887003438 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 713887003439 putative tRNA-binding site [nucleotide binding]; other site 713887003440 B3/4 domain; Region: B3_4; cl11458 713887003441 tRNA synthetase B5 domain; Region: B5; cl08394 713887003442 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 713887003443 dimer interface [polypeptide binding]; other site 713887003444 motif 1; other site 713887003445 motif 3; other site 713887003446 motif 2; other site 713887003447 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 713887003448 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 713887003449 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 713887003450 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 713887003451 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 713887003452 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 713887003453 hinge; other site 713887003454 active site 713887003455 Phosphopantetheine attachment site; Region: PP-binding; cl09936 713887003456 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 713887003457 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 713887003458 dimer interface [polypeptide binding]; other site 713887003459 active site 713887003460 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 713887003461 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 713887003462 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 713887003463 dimer interface [polypeptide binding]; other site 713887003464 motif 1; other site 713887003465 active site 713887003466 motif 2; other site 713887003467 motif 3; other site 713887003468 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 713887003469 pyruvate kinase; Provisional; Region: PRK06354 713887003470 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 713887003471 domain interfaces; other site 713887003472 active site 713887003473 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 713887003474 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 713887003475 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 713887003476 NAD binding site [chemical binding]; other site 713887003477 putative substrate binding site 2 [chemical binding]; other site 713887003478 putative substrate binding site 1 [chemical binding]; other site 713887003479 active site 713887003480 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 713887003481 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 713887003482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887003483 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 713887003484 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 713887003485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887003486 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 713887003487 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 713887003488 FeS/SAM binding site; other site 713887003489 HemN C-terminal region; Region: HemN_C; pfam06969 713887003490 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 713887003491 diiron binding motif [ion binding]; other site 713887003492 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 713887003493 GIY-YIG motif/motif A; other site 713887003494 putative active site [active] 713887003495 putative metal binding site [ion binding]; other site 713887003496 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 713887003497 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 713887003498 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 713887003499 dimer interface [polypeptide binding]; other site 713887003500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 713887003501 catalytic residue [active] 713887003502 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 713887003503 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 713887003504 23S rRNA binding site [nucleotide binding]; other site 713887003505 L21 binding site [polypeptide binding]; other site 713887003506 L13 binding site [polypeptide binding]; other site 713887003507 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 713887003508 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 713887003509 glutamine synthetase, type I; Region: GlnA; TIGR00653 713887003510 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 713887003511 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 713887003512 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 713887003513 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 713887003514 ligand binding site [chemical binding]; other site 713887003515 flexible hinge region; other site 713887003516 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 713887003517 oligomer interface [polypeptide binding]; other site 713887003518 active site residues [active] 713887003519 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 713887003520 dimerization interface [polypeptide binding]; other site 713887003521 putative DNA binding site [nucleotide binding]; other site 713887003522 putative Zn2+ binding site [ion binding]; other site 713887003523 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 713887003524 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 713887003525 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 713887003526 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 713887003527 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 713887003528 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 713887003529 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 713887003530 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 713887003531 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 713887003532 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 713887003533 opcA protein; Region: OpcA; TIGR00534 713887003534 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 713887003535 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 713887003536 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...; Region: DHOD_2_like; cd04738 713887003537 quinone interaction residues [chemical binding]; other site 713887003538 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 713887003539 active site 713887003540 catalytic residues [active] 713887003541 FMN binding site [chemical binding]; other site 713887003542 substrate binding site [chemical binding]; other site 713887003543 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 713887003544 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 713887003545 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 713887003546 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 713887003547 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 713887003548 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 713887003549 active site 713887003550 Zn binding site [ion binding]; other site 713887003551 PetN; Region: PetN; pfam03742 713887003552 Protein of unknown function (DUF2488); Region: Ycf54; pfam10674 713887003553 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 713887003554 active site 713887003555 hydrophilic channel; other site 713887003556 dimerization interface [polypeptide binding]; other site 713887003557 catalytic residues [active] 713887003558 active site lid [active] 713887003559 Predicted membrane protein (DUF2079); Region: DUF2079; cl01374 713887003560 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 713887003561 HerA helicase [Replication, recombination, and repair]; Region: COG0433 713887003562 Domain of unknown function DUF87; Region: DUF87; pfam01935 713887003563 prolyl-tRNA synthetase; Provisional; Region: PRK09194 713887003564 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 713887003565 dimer interface [polypeptide binding]; other site 713887003566 motif 1; other site 713887003567 active site 713887003568 motif 2; other site 713887003569 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-...; Region: ProRS-INS; cd04334 713887003570 putative deacylase active site [active] 713887003571 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 713887003572 active site 713887003573 motif 3; other site 713887003574 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-...; Region: ProRS_anticodon_short; cd00861 713887003575 anticodon binding site; other site 713887003576 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 713887003577 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 713887003578 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 713887003579 shikimate binding site; other site 713887003580 NAD(P) binding site [chemical binding]; other site 713887003581 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 713887003582 Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase...; Region: ArsA_ATPase; cd00550 713887003583 ATP binding site [chemical binding]; other site 713887003584 dimerization interface [polypeptide binding]; other site 713887003585 Metal binding site [ion binding]; metal-binding site 713887003586 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 713887003587 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 713887003588 TM2 domain; Region: TM2; cl00984 713887003589 Domain of unknown function (DUF1825); Region: DUF1825; pfam08855 713887003590 Predicted dehydrogenase [General function prediction only]; Region: COG0579 713887003591 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 713887003592 aromatic acid decarboxylase; Validated; Region: PRK05920 713887003593 Flavoprotein; Region: Flavoprotein; cl08021 713887003594 Flavoprotein; Region: Flavoprotein; cl08021 713887003595 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 713887003596 Ligand binding site [chemical binding]; other site 713887003597 Putative Catalytic site [active] 713887003598 DXD motif; other site 713887003599 GtrA-like protein; Region: GtrA; cl00971 713887003600 DNA primase; Validated; Region: dnaG; PRK05667 713887003601 CHC2 zinc finger; Region: zf-CHC2; cl02597 713887003602 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 713887003603 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 713887003604 active site 713887003605 metal binding site [ion binding]; metal-binding site 713887003606 interdomain interaction site; other site 713887003607 Cobalt transport protein; Region: CbiQ; cl00463 713887003608 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 713887003609 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 713887003610 Walker A/P-loop; other site 713887003611 ATP binding site [chemical binding]; other site 713887003612 Q-loop/lid; other site 713887003613 ABC transporter signature motif; other site 713887003614 Walker B; other site 713887003615 D-loop; other site 713887003616 H-loop/switch region; other site 713887003617 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 713887003618 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 713887003619 Walker A/P-loop; other site 713887003620 ATP binding site [chemical binding]; other site 713887003621 Q-loop/lid; other site 713887003622 ABC transporter signature motif; other site 713887003623 Walker B; other site 713887003624 D-loop; other site 713887003625 H-loop/switch region; other site 713887003626 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 713887003627 active site 713887003628 dimer interface [polypeptide binding]; other site 713887003629 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 713887003630 active site 713887003631 metal binding site [ion binding]; metal-binding site 713887003632 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 713887003633 Subunit I/III interface [polypeptide binding]; other site 713887003634 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 713887003635 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 713887003636 D-pathway; other site 713887003637 Low-spin heme binding site [chemical binding]; other site 713887003638 Putative water exit pathway; other site 713887003639 Binuclear center (active site) [active] 713887003640 K-pathway; other site 713887003641 Putative proton exit pathway; other site 713887003642 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 713887003643 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 713887003644 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 713887003645 TRAM domain; Region: TRAM; cl01282 713887003646 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 713887003647 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 713887003648 S-adenosylmethionine binding site [chemical binding]; other site 713887003649 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 713887003650 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 713887003651 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 713887003652 putative NAD(P) binding site [chemical binding]; other site 713887003653 active site 713887003654 putative substrate binding site [chemical binding]; other site 713887003655 Beta-lactamase; Region: Beta-lactamase; cl01009 713887003656 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 713887003657 active site 713887003658 multimer interface [polypeptide binding]; other site 713887003659 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 713887003660 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 713887003661 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 713887003662 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 713887003663 Membrane transport protein; Region: Mem_trans; cl09117 713887003664 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 713887003665 dimer interface [polypeptide binding]; other site 713887003666 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 713887003667 putative radical transfer pathway; other site 713887003668 diiron center [ion binding]; other site 713887003669 tyrosyl radical; other site 713887003670 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 713887003671 active site 713887003672 putative substrate binding region [chemical binding]; other site 713887003673 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 713887003674 Clp amino terminal domain; Region: Clp_N; pfam02861 713887003675 Clp amino terminal domain; Region: Clp_N; pfam02861 713887003676 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...; Region: AAA; cd00009 713887003677 Walker A motif; other site 713887003678 ATP binding site [chemical binding]; other site 713887003679 Walker B motif; other site 713887003680 arginine finger; other site 713887003681 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...; Region: AAA; cd00009 713887003682 Walker A motif; other site 713887003683 ATP binding site [chemical binding]; other site 713887003684 Walker B motif; other site 713887003685 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 713887003686 RNA polymerase sigma factor SigD; Validated; Region: PRK07405 713887003687 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 713887003688 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 713887003689 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 713887003690 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...; Region: Sigma70_r4; cd06171 713887003691 DNA binding residues [nucleotide binding] 713887003692 Protein of unknown function (DUF760); Region: DUF760; pfam05542 713887003693 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 713887003694 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 713887003695 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 713887003696 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 713887003697 catalytic loop [active] 713887003698 iron binding site [ion binding]; other site 713887003699 Predicted bile acid beta-glucosidase [Carbohydrate transport and metabolism]; Region: COG4354 713887003700 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 713887003701 Domain of unknown function DUF21; Region: DUF21; pfam01595 713887003702 FOG: CBS domain [General function prediction only]; Region: COG0517 713887003703 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 713887003704 ribosomal protein L32; Validated; Region: rpl32; CHL00152 713887003705 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 713887003706 PUCC protein; Region: PUCC; pfam03209 713887003707 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 713887003708 active site 713887003709 putative substrate binding region [chemical binding]; other site 713887003710 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 713887003711 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 713887003712 putative active site [active] 713887003713 Protein of unknown function (DUF3110); Region: DUF3110; pfam11360 713887003714 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 713887003715 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 713887003716 StbA protein; Region: StbA; pfam06406 713887003717 dihydrodipicolinate reductase; Provisional; Region: PRK00048 713887003718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887003719 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 713887003720 Uncharacterized conserved protein [Function unknown]; Region: COG1565 713887003721 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 713887003722 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 713887003723 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 713887003724 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 713887003725 catalytic triad [active] 713887003726 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 713887003727 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 713887003728 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 713887003729 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 713887003730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 713887003731 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 713887003732 putative L-serine binding site [chemical binding]; other site 713887003733 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 713887003734 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 713887003735 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 713887003736 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