-- dump date 20140619_163348 -- class Genbank::misc_feature -- table misc_feature_note -- id note 272831000001 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 272831000002 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 272831000003 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 272831000004 Pilin (bacterial filament); Region: Pilin; pfam00114 272831000005 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 272831000006 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 272831000007 Predicted membrane protein [Function unknown]; Region: COG3205 272831000008 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 272831000009 glycerate dehydrogenase; Provisional; Region: PRK06487 272831000010 putative ligand binding site [chemical binding]; other site 272831000011 putative NAD binding site [chemical binding]; other site 272831000012 catalytic site [active] 272831000013 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 272831000014 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 272831000015 active site 272831000016 HIGH motif; other site 272831000017 KMSKS motif; other site 272831000018 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 272831000019 tRNA binding surface [nucleotide binding]; other site 272831000020 anticodon binding site; other site 272831000021 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 272831000022 dimer interface [polypeptide binding]; other site 272831000023 putative tRNA-binding site [nucleotide binding]; other site 272831000024 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 272831000025 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 272831000026 glutaminase active site [active] 272831000027 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 272831000028 dimer interface [polypeptide binding]; other site 272831000029 active site 272831000030 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 272831000031 dimer interface [polypeptide binding]; other site 272831000032 active site 272831000033 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 272831000034 MltA specific insert domain; Region: MltA; pfam03562 272831000035 3D domain; Region: 3D; pfam06725 272831000036 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 272831000037 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 272831000038 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 272831000039 Imelysin; Region: Peptidase_M75; pfam09375 272831000040 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 272831000041 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 272831000042 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 272831000043 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 272831000044 PhnA protein; Region: PhnA; pfam03831 272831000045 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 272831000046 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 272831000047 Substrate binding site; other site 272831000048 Mg++ binding site; other site 272831000049 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 272831000050 active site 272831000051 substrate binding site [chemical binding]; other site 272831000052 CoA binding site [chemical binding]; other site 272831000053 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 272831000054 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 272831000055 motif II; other site 272831000056 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 272831000057 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272831000058 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 272831000059 Conserved TM helix; Region: TM_helix; pfam05552 272831000060 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272831000061 Competence-damaged protein; Region: CinA; pfam02464 272831000062 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 272831000063 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 272831000064 catalytic residues [active] 272831000065 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 272831000066 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 272831000067 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 272831000068 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 272831000069 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 272831000070 P loop; other site 272831000071 GTP binding site [chemical binding]; other site 272831000072 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272831000073 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272831000074 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272831000075 Zonular occludens toxin (Zot); Region: Zot; cl17485 272831000076 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 272831000077 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 272831000078 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 272831000079 Replication initiation factor; Region: Rep_trans; pfam02486 272831000080 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 272831000081 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 272831000082 TIGR01666 family membrane protein; Region: YCCS 272831000083 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 272831000084 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 272831000085 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 272831000086 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 272831000087 Walker A motif; other site 272831000088 ATP binding site [chemical binding]; other site 272831000089 Walker B motif; other site 272831000090 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 272831000091 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 272831000092 Walker A motif; other site 272831000093 ATP binding site [chemical binding]; other site 272831000094 Walker B motif; other site 272831000095 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 272831000096 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272831000097 catalytic residue [active] 272831000098 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 272831000099 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 272831000100 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 272831000101 comEA protein; Region: comE; TIGR01259 272831000102 Helix-hairpin-helix motif; Region: HHH; pfam00633 272831000103 chaperone protein DnaJ; Provisional; Region: PRK10767 272831000104 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 272831000105 HSP70 interaction site [polypeptide binding]; other site 272831000106 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 272831000107 substrate binding site [polypeptide binding]; other site 272831000108 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 272831000109 Zn binding sites [ion binding]; other site 272831000110 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272831000111 dimer interface [polypeptide binding]; other site 272831000112 Predicted membrane protein [Function unknown]; Region: COG1297 272831000113 putative oligopeptide transporter, OPT family; Region: TIGR00733 272831000114 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 272831000115 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 272831000116 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 272831000117 substrate binding site; other site 272831000118 tetramer interface; other site 272831000119 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 272831000120 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 272831000121 NAD binding site [chemical binding]; other site 272831000122 substrate binding site [chemical binding]; other site 272831000123 homodimer interface [polypeptide binding]; other site 272831000124 active site 272831000125 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 272831000126 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 272831000127 NAD binding site [chemical binding]; other site 272831000128 homodimer interface [polypeptide binding]; other site 272831000129 active site 272831000130 substrate binding site [chemical binding]; other site 272831000131 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272831000132 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272831000133 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 272831000134 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 272831000135 NeuB family; Region: NeuB; pfam03102 272831000136 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 272831000137 NeuB binding interface [polypeptide binding]; other site 272831000138 putative substrate binding site [chemical binding]; other site 272831000139 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 272831000140 ligand binding site; other site 272831000141 tetramer interface; other site 272831000142 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 272831000143 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 272831000144 active site 272831000145 homodimer interface [polypeptide binding]; other site 272831000146 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 272831000147 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272831000148 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 272831000149 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 272831000150 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 272831000151 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272831000152 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 272831000153 Walker A/P-loop; other site 272831000154 ATP binding site [chemical binding]; other site 272831000155 Q-loop/lid; other site 272831000156 ABC transporter signature motif; other site 272831000157 Walker B; other site 272831000158 D-loop; other site 272831000159 H-loop/switch region; other site 272831000160 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 272831000161 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 272831000162 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 272831000163 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 272831000164 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 272831000165 RNA binding site [nucleotide binding]; other site 272831000166 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 272831000167 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 272831000168 NAD binding site [chemical binding]; other site 272831000169 substrate binding site [chemical binding]; other site 272831000170 homodimer interface [polypeptide binding]; other site 272831000171 active site 272831000172 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 272831000173 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 272831000174 substrate binding site; other site 272831000175 tetramer interface; other site 272831000176 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 272831000177 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 272831000178 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 272831000179 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 272831000180 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272831000181 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272831000182 Sel1-like repeats; Region: SEL1; smart00671 272831000183 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272831000184 Sel1-like repeats; Region: SEL1; smart00671 272831000185 Sel1-like repeats; Region: SEL1; smart00671 272831000186 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 272831000187 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 272831000188 cyanate hydratase; Validated; Region: PRK02866 272831000189 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 272831000190 pyruvate kinase; Provisional; Region: PRK05826 272831000191 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 272831000192 domain interfaces; other site 272831000193 active site 272831000194 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 272831000195 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272831000196 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272831000197 HlyD family secretion protein; Region: HlyD_3; pfam13437 272831000198 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 272831000199 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 272831000200 putative active site [active] 272831000201 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272831000202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272831000203 Walker A/P-loop; other site 272831000204 ATP binding site [chemical binding]; other site 272831000205 Q-loop/lid; other site 272831000206 ABC transporter signature motif; other site 272831000207 Walker B; other site 272831000208 D-loop; other site 272831000209 H-loop/switch region; other site 272831000210 Transposase domain (DUF772); Region: DUF772; pfam05598 272831000211 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831000212 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 272831000213 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 272831000214 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 272831000215 putative active site [active] 272831000216 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 272831000217 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272831000218 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272831000219 Coenzyme A binding pocket [chemical binding]; other site 272831000220 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 272831000221 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272831000222 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 272831000223 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 272831000224 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 272831000225 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 272831000226 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272831000227 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 272831000228 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 272831000229 active site 272831000230 catalytic residues [active] 272831000231 metal binding site [ion binding]; metal-binding site 272831000232 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 272831000233 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 272831000234 putative active site [active] 272831000235 substrate binding site [chemical binding]; other site 272831000236 putative cosubstrate binding site; other site 272831000237 catalytic site [active] 272831000238 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 272831000239 substrate binding site [chemical binding]; other site 272831000240 16S rRNA methyltransferase B; Provisional; Region: PRK10901 272831000241 NusB family; Region: NusB; pfam01029 272831000242 putative RNA binding site [nucleotide binding]; other site 272831000243 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 272831000244 S-adenosylmethionine binding site [chemical binding]; other site 272831000245 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 272831000246 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 272831000247 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 272831000248 dimerization interface [polypeptide binding]; other site 272831000249 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272831000250 dimer interface [polypeptide binding]; other site 272831000251 phosphorylation site [posttranslational modification] 272831000252 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 272831000253 ATP binding site [chemical binding]; other site 272831000254 Mg2+ binding site [ion binding]; other site 272831000255 G-X-G motif; other site 272831000256 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272831000257 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 272831000258 active site 272831000259 phosphorylation site [posttranslational modification] 272831000260 intermolecular recognition site; other site 272831000261 dimerization interface [polypeptide binding]; other site 272831000262 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 272831000263 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 272831000264 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 272831000265 DNA protecting protein DprA; Region: dprA; TIGR00732 272831000266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Smg; COG2922 272831000267 DNA topoisomerase I; Validated; Region: PRK06599 272831000268 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 272831000269 active site 272831000270 interdomain interaction site; other site 272831000271 putative metal-binding site [ion binding]; other site 272831000272 nucleotide binding site [chemical binding]; other site 272831000273 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 272831000274 domain I; other site 272831000275 DNA binding groove [nucleotide binding] 272831000276 phosphate binding site [ion binding]; other site 272831000277 domain II; other site 272831000278 domain III; other site 272831000279 nucleotide binding site [chemical binding]; other site 272831000280 catalytic site [active] 272831000281 domain IV; other site 272831000282 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272831000283 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 272831000284 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272831000285 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272831000286 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272831000287 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 272831000288 non-specific DNA binding site [nucleotide binding]; other site 272831000289 salt bridge; other site 272831000290 sequence-specific DNA binding site [nucleotide binding]; other site 272831000291 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 272831000292 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 272831000293 S-adenosylmethionine binding site [chemical binding]; other site 272831000294 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272831000295 elongation factor Tu; Reviewed; Region: PRK00049 272831000296 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 272831000297 G1 box; other site 272831000298 GEF interaction site [polypeptide binding]; other site 272831000299 GTP/Mg2+ binding site [chemical binding]; other site 272831000300 Switch I region; other site 272831000301 G2 box; other site 272831000302 G3 box; other site 272831000303 Switch II region; other site 272831000304 G4 box; other site 272831000305 G5 box; other site 272831000306 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 272831000307 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 272831000308 Antibiotic Binding Site [chemical binding]; other site 272831000309 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 272831000310 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 272831000311 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 272831000312 putative homodimer interface [polypeptide binding]; other site 272831000313 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 272831000314 heterodimer interface [polypeptide binding]; other site 272831000315 homodimer interface [polypeptide binding]; other site 272831000316 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 272831000317 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 272831000318 23S rRNA interface [nucleotide binding]; other site 272831000319 L7/L12 interface [polypeptide binding]; other site 272831000320 putative thiostrepton binding site; other site 272831000321 L25 interface [polypeptide binding]; other site 272831000322 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 272831000323 mRNA/rRNA interface [nucleotide binding]; other site 272831000324 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 272831000325 23S rRNA interface [nucleotide binding]; other site 272831000326 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 272831000327 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 272831000328 core dimer interface [polypeptide binding]; other site 272831000329 peripheral dimer interface [polypeptide binding]; other site 272831000330 L10 interface [polypeptide binding]; other site 272831000331 L11 interface [polypeptide binding]; other site 272831000332 putative EF-Tu interaction site [polypeptide binding]; other site 272831000333 putative EF-G interaction site [polypeptide binding]; other site 272831000334 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 272831000335 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 272831000336 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 272831000337 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 272831000338 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 272831000339 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 272831000340 RPB3 interaction site [polypeptide binding]; other site 272831000341 RPB1 interaction site [polypeptide binding]; other site 272831000342 RPB11 interaction site [polypeptide binding]; other site 272831000343 RPB10 interaction site [polypeptide binding]; other site 272831000344 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 272831000345 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 272831000346 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 272831000347 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 272831000348 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 272831000349 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 272831000350 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 272831000351 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 272831000352 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 272831000353 DNA binding site [nucleotide binding] 272831000354 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 272831000355 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 272831000356 S17 interaction site [polypeptide binding]; other site 272831000357 S8 interaction site; other site 272831000358 16S rRNA interaction site [nucleotide binding]; other site 272831000359 streptomycin interaction site [chemical binding]; other site 272831000360 23S rRNA interaction site [nucleotide binding]; other site 272831000361 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 272831000362 30S ribosomal protein S7; Validated; Region: PRK05302 272831000363 elongation factor G; Reviewed; Region: PRK00007 272831000364 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 272831000365 G1 box; other site 272831000366 putative GEF interaction site [polypeptide binding]; other site 272831000367 GTP/Mg2+ binding site [chemical binding]; other site 272831000368 Switch I region; other site 272831000369 G2 box; other site 272831000370 G3 box; other site 272831000371 Switch II region; other site 272831000372 G4 box; other site 272831000373 G5 box; other site 272831000374 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 272831000375 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 272831000376 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 272831000377 elongation factor Tu; Reviewed; Region: PRK00049 272831000378 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 272831000379 G1 box; other site 272831000380 GEF interaction site [polypeptide binding]; other site 272831000381 GTP/Mg2+ binding site [chemical binding]; other site 272831000382 Switch I region; other site 272831000383 G2 box; other site 272831000384 G3 box; other site 272831000385 Switch II region; other site 272831000386 G4 box; other site 272831000387 G5 box; other site 272831000388 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 272831000389 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 272831000390 Antibiotic Binding Site [chemical binding]; other site 272831000391 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 272831000392 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 272831000393 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 272831000394 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 272831000395 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 272831000396 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 272831000397 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 272831000398 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 272831000399 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 272831000400 putative translocon binding site; other site 272831000401 protein-rRNA interface [nucleotide binding]; other site 272831000402 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 272831000403 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 272831000404 G-X-X-G motif; other site 272831000405 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 272831000406 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 272831000407 23S rRNA interface [nucleotide binding]; other site 272831000408 5S rRNA interface [nucleotide binding]; other site 272831000409 putative antibiotic binding site [chemical binding]; other site 272831000410 L25 interface [polypeptide binding]; other site 272831000411 L27 interface [polypeptide binding]; other site 272831000412 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 272831000413 23S rRNA interface [nucleotide binding]; other site 272831000414 putative translocon interaction site; other site 272831000415 signal recognition particle (SRP54) interaction site; other site 272831000416 L23 interface [polypeptide binding]; other site 272831000417 trigger factor interaction site; other site 272831000418 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 272831000419 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 272831000420 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 272831000421 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 272831000422 RNA binding site [nucleotide binding]; other site 272831000423 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 272831000424 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 272831000425 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 272831000426 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 272831000427 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 272831000428 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 272831000429 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272831000430 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272831000431 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 272831000432 5S rRNA interface [nucleotide binding]; other site 272831000433 23S rRNA interface [nucleotide binding]; other site 272831000434 L5 interface [polypeptide binding]; other site 272831000435 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 272831000436 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 272831000437 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 272831000438 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 272831000439 23S rRNA binding site [nucleotide binding]; other site 272831000440 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 272831000441 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 272831000442 SecY translocase; Region: SecY; pfam00344 272831000443 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 272831000444 rRNA binding site [nucleotide binding]; other site 272831000445 predicted 30S ribosome binding site; other site 272831000446 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 272831000447 30S ribosomal protein S13; Region: bact_S13; TIGR03631 272831000448 30S ribosomal protein S11; Validated; Region: PRK05309 272831000449 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 272831000450 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272831000451 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 272831000452 RNA binding surface [nucleotide binding]; other site 272831000453 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 272831000454 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 272831000455 alphaNTD homodimer interface [polypeptide binding]; other site 272831000456 alphaNTD - beta interaction site [polypeptide binding]; other site 272831000457 alphaNTD - beta' interaction site [polypeptide binding]; other site 272831000458 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 272831000459 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 272831000460 septum formation inhibitor; Reviewed; Region: minC; PRK04516 272831000461 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 272831000462 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 272831000463 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 272831000464 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 272831000465 Switch I; other site 272831000466 Switch II; other site 272831000467 cell division topological specificity factor MinE; Provisional; Region: PRK13989 272831000468 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272831000469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272831000470 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 272831000471 dimerization interface [polypeptide binding]; other site 272831000472 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 272831000473 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 272831000474 HIGH motif; other site 272831000475 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 272831000476 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 272831000477 active site 272831000478 KMSKS motif; other site 272831000479 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 272831000480 tRNA binding surface [nucleotide binding]; other site 272831000481 anticodon binding site; other site 272831000482 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 272831000483 zinc transporter ZupT; Provisional; Region: PRK04201 272831000484 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 272831000485 hydroxyglutarate oxidase; Provisional; Region: PRK11728 272831000486 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 272831000487 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272831000488 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 272831000489 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 272831000490 active site 272831000491 Abi-like protein; Region: Abi_2; pfam07751 272831000492 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 272831000493 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 272831000494 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 272831000495 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 272831000496 trimer interface [polypeptide binding]; other site 272831000497 active site 272831000498 UDP-GlcNAc binding site [chemical binding]; other site 272831000499 lipid binding site [chemical binding]; lipid-binding site 272831000500 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 272831000501 periplasmic chaperone; Provisional; Region: PRK10780 272831000502 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 272831000503 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 272831000504 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 272831000505 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 272831000506 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 272831000507 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 272831000508 Surface antigen; Region: Bac_surface_Ag; pfam01103 272831000509 zinc metallopeptidase RseP; Provisional; Region: PRK10779 272831000510 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 272831000511 active site 272831000512 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 272831000513 protein binding site [polypeptide binding]; other site 272831000514 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 272831000515 protein binding site [polypeptide binding]; other site 272831000516 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 272831000517 putative substrate binding region [chemical binding]; other site 272831000518 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 272831000519 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 272831000520 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 272831000521 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 272831000522 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 272831000523 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 272831000524 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 272831000525 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 272831000526 catalytic residue [active] 272831000527 putative FPP diphosphate binding site; other site 272831000528 putative FPP binding hydrophobic cleft; other site 272831000529 dimer interface [polypeptide binding]; other site 272831000530 putative IPP diphosphate binding site; other site 272831000531 ribosome recycling factor; Reviewed; Region: frr; PRK00083 272831000532 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 272831000533 hinge region; other site 272831000534 Predicted membrane protein [Function unknown]; Region: COG1289 272831000535 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 272831000536 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 272831000537 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 272831000538 S-adenosylmethionine binding site [chemical binding]; other site 272831000539 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272831000540 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272831000541 P-loop; other site 272831000542 Magnesium ion binding site [ion binding]; other site 272831000543 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 272831000544 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272831000545 Magnesium ion binding site [ion binding]; other site 272831000546 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 272831000547 RNA/DNA hybrid binding site [nucleotide binding]; other site 272831000548 active site 272831000549 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 272831000550 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 272831000551 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 272831000552 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 272831000553 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 272831000554 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 272831000555 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 272831000556 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 272831000557 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 272831000558 homodimer interface [polypeptide binding]; other site 272831000559 oligonucleotide binding site [chemical binding]; other site 272831000560 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 272831000561 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 272831000562 RNA binding surface [nucleotide binding]; other site 272831000563 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 272831000564 active site 272831000565 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 272831000566 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 272831000567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 272831000568 dihydrodipicolinate reductase; Provisional; Region: PRK00048 272831000569 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 272831000570 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 272831000571 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 272831000572 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 272831000573 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272831000574 metal binding site 2 [ion binding]; metal-binding site 272831000575 putative DNA binding helix; other site 272831000576 metal binding site 1 [ion binding]; metal-binding site 272831000577 dimer interface [polypeptide binding]; other site 272831000578 structural Zn2+ binding site [ion binding]; other site 272831000579 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 272831000580 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 272831000581 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 272831000582 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272831000583 ferredoxin; Provisional; Region: PRK08764 272831000584 Putative Fe-S cluster; Region: FeS; cl17515 272831000585 4Fe-4S binding domain; Region: Fer4; pfam00037 272831000586 4Fe-4S binding domain; Region: Fer4; pfam00037 272831000587 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 272831000588 putative cation:proton antiport protein; Provisional; Region: PRK10669 272831000589 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 272831000590 TrkA-N domain; Region: TrkA_N; pfam02254 272831000591 TrkA-C domain; Region: TrkA_C; pfam02080 272831000592 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 272831000593 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 272831000594 Mg2+ binding site [ion binding]; other site 272831000595 G-X-G motif; other site 272831000596 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 272831000597 anchoring element; other site 272831000598 dimer interface [polypeptide binding]; other site 272831000599 ATP binding site [chemical binding]; other site 272831000600 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 272831000601 active site 272831000602 putative metal-binding site [ion binding]; other site 272831000603 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272831000604 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 272831000605 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272831000606 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 272831000607 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 272831000608 active site 272831000609 Zn binding site [ion binding]; other site 272831000610 Predicted membrane protein [Function unknown]; Region: COG1971 272831000611 Domain of unknown function DUF; Region: DUF204; pfam02659 272831000612 Domain of unknown function DUF; Region: DUF204; pfam02659 272831000613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 272831000614 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 272831000615 Pilin (bacterial filament); Region: Pilin; pfam00114 272831000616 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 272831000617 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 272831000618 tetramer interface [polypeptide binding]; other site 272831000619 heme binding pocket [chemical binding]; other site 272831000620 NADPH binding site [chemical binding]; other site 272831000621 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 272831000622 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 272831000623 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 272831000624 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272831000625 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 272831000626 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 272831000627 putative substrate translocation pore; other site 272831000628 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 272831000629 Sodium Bile acid symporter family; Region: SBF; cl17470 272831000630 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 272831000631 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 272831000632 dimer interface [polypeptide binding]; other site 272831000633 active site 272831000634 acyl carrier protein; Provisional; Region: acpP; PRK00982 272831000635 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 272831000636 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 272831000637 quinone interaction residues [chemical binding]; other site 272831000638 active site 272831000639 catalytic residues [active] 272831000640 FMN binding site [chemical binding]; other site 272831000641 substrate binding site [chemical binding]; other site 272831000642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 272831000643 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 272831000644 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272831000645 metal binding triad; other site 272831000646 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272831000647 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272831000648 metal binding triad; other site 272831000649 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 272831000650 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 272831000651 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 272831000652 putative active site [active] 272831000653 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 272831000654 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 272831000655 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 272831000656 DNA helicase II; Region: uvrD; TIGR01075 272831000657 Part of AAA domain; Region: AAA_19; pfam13245 272831000658 Family description; Region: UvrD_C_2; pfam13538 272831000659 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 272831000660 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 272831000661 spermidine synthase; Provisional; Region: PRK03612 272831000662 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 272831000663 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 272831000664 S-adenosylmethionine binding site [chemical binding]; other site 272831000665 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 272831000666 NADH dehydrogenase subunit B; Validated; Region: PRK06411 272831000667 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 272831000668 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 272831000669 NADH dehydrogenase subunit D; Validated; Region: PRK06075 272831000670 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 272831000671 NADH dehydrogenase subunit E; Validated; Region: PRK07539 272831000672 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 272831000673 putative dimer interface [polypeptide binding]; other site 272831000674 [2Fe-2S] cluster binding site [ion binding]; other site 272831000675 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 272831000676 SLBB domain; Region: SLBB; pfam10531 272831000677 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 272831000678 NADH dehydrogenase subunit G; Validated; Region: PRK09129 272831000679 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 272831000680 catalytic loop [active] 272831000681 iron binding site [ion binding]; other site 272831000682 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 272831000683 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 272831000684 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 272831000685 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 272831000686 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 272831000687 4Fe-4S binding domain; Region: Fer4; cl02805 272831000688 4Fe-4S binding domain; Region: Fer4; pfam00037 272831000689 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 272831000690 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 272831000691 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 272831000692 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 272831000693 Fic/DOC family; Region: Fic; pfam02661 272831000694 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 272831000695 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 272831000696 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 272831000697 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 272831000698 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 272831000699 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 272831000700 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 272831000701 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 272831000702 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 272831000703 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272831000704 substrate binding pocket [chemical binding]; other site 272831000705 chain length determination region; other site 272831000706 substrate-Mg2+ binding site; other site 272831000707 catalytic residues [active] 272831000708 aspartate-rich region 1; other site 272831000709 active site lid residues [active] 272831000710 aspartate-rich region 2; other site 272831000711 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 272831000712 GTPase RsgA; Reviewed; Region: PRK00098 272831000713 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 272831000714 RNA binding site [nucleotide binding]; other site 272831000715 homodimer interface [polypeptide binding]; other site 272831000716 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 272831000717 GTPase/Zn-binding domain interface [polypeptide binding]; other site 272831000718 GTP/Mg2+ binding site [chemical binding]; other site 272831000719 G4 box; other site 272831000720 G5 box; other site 272831000721 G1 box; other site 272831000722 Switch I region; other site 272831000723 G2 box; other site 272831000724 G3 box; other site 272831000725 Switch II region; other site 272831000726 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272831000727 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272831000728 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 272831000729 Walker A/P-loop; other site 272831000730 ATP binding site [chemical binding]; other site 272831000731 Q-loop/lid; other site 272831000732 ABC transporter signature motif; other site 272831000733 Walker B; other site 272831000734 D-loop; other site 272831000735 H-loop/switch region; other site 272831000736 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 272831000737 RuvA N terminal domain; Region: RuvA_N; pfam01330 272831000738 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 272831000739 Predicted membrane protein [Function unknown]; Region: COG3212 272831000740 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 272831000741 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 272831000742 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 272831000743 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 272831000744 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 272831000745 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272831000746 active site 272831000747 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 272831000748 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 272831000749 TAP-like protein; Region: Abhydrolase_4; pfam08386 272831000750 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 272831000751 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 272831000752 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 272831000753 ATP binding site [chemical binding]; other site 272831000754 putative Mg++ binding site [ion binding]; other site 272831000755 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 272831000756 nucleotide binding region [chemical binding]; other site 272831000757 ATP-binding site [chemical binding]; other site 272831000758 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 272831000759 Helicase and RNase D C-terminal; Region: HRDC; smart00341 272831000760 Helicase and RNase D C-terminal; Region: HRDC; smart00341 272831000761 Helicase and RNase D C-terminal; Region: HRDC; smart00341 272831000762 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 272831000763 active site 272831000764 ribulose/triose binding site [chemical binding]; other site 272831000765 phosphate binding site [ion binding]; other site 272831000766 substrate (anthranilate) binding pocket [chemical binding]; other site 272831000767 product (indole) binding pocket [chemical binding]; other site 272831000768 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 272831000769 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 272831000770 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 272831000771 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 272831000772 catalytic residues [active] 272831000773 hinge region; other site 272831000774 alpha helical domain; other site 272831000775 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 272831000776 Phosphotransferase enzyme family; Region: APH; pfam01636 272831000777 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 272831000778 Organic solvent tolerance protein; Region: OstA_C; pfam04453 272831000779 SurA N-terminal domain; Region: SurA_N; pfam09312 272831000780 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 272831000781 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 272831000782 Replication initiation factor; Region: Rep_trans; pfam02486 272831000783 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 272831000784 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 272831000785 Zonular occludens toxin (Zot); Region: Zot; cl17485 272831000786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272831000787 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272831000788 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272831000789 Exoribonuclease R [Transcription]; Region: VacB; COG0557 272831000790 RNB domain; Region: RNB; pfam00773 272831000791 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 272831000792 adenylosuccinate lyase; Provisional; Region: PRK09285 272831000793 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 272831000794 tetramer interface [polypeptide binding]; other site 272831000795 active site 272831000796 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 272831000797 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 272831000798 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 272831000799 DEAD_2; Region: DEAD_2; pfam06733 272831000800 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 272831000801 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 272831000802 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831000803 cofactor binding site; other site 272831000804 DNA binding site [nucleotide binding] 272831000805 substrate interaction site [chemical binding]; other site 272831000806 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831000807 Methyltransferase domain; Region: Methyltransf_26; pfam13659 272831000808 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831000809 Helix-turn-helix domain; Region: HTH_38; pfam13936 272831000810 Homeodomain-like domain; Region: HTH_32; pfam13565 272831000811 Integrase core domain; Region: rve; pfam00665 272831000812 Transposase domain (DUF772); Region: DUF772; pfam05598 272831000813 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831000814 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 272831000815 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272831000816 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272831000817 NAD(P) binding site [chemical binding]; other site 272831000818 homotetramer interface [polypeptide binding]; other site 272831000819 homodimer interface [polypeptide binding]; other site 272831000820 active site 272831000821 GMP synthase; Reviewed; Region: guaA; PRK00074 272831000822 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 272831000823 AMP/PPi binding site [chemical binding]; other site 272831000824 candidate oxyanion hole; other site 272831000825 catalytic triad [active] 272831000826 potential glutamine specificity residues [chemical binding]; other site 272831000827 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 272831000828 ATP Binding subdomain [chemical binding]; other site 272831000829 Ligand Binding sites [chemical binding]; other site 272831000830 Dimerization subdomain; other site 272831000831 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 272831000832 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272831000833 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 272831000834 Walker A/P-loop; other site 272831000835 ATP binding site [chemical binding]; other site 272831000836 Q-loop/lid; other site 272831000837 ABC transporter signature motif; other site 272831000838 Walker B; other site 272831000839 D-loop; other site 272831000840 H-loop/switch region; other site 272831000841 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 272831000842 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272831000843 Predicted membrane protein [Function unknown]; Region: COG3326 272831000844 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 272831000845 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 272831000846 dimer interface [polypeptide binding]; other site 272831000847 active site 272831000848 CoA binding pocket [chemical binding]; other site 272831000849 putative phosphate acyltransferase; Provisional; Region: PRK05331 272831000850 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 272831000851 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272831000852 active site 272831000853 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 272831000854 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 272831000855 Maf-like protein; Region: Maf; pfam02545 272831000856 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 272831000857 active site 272831000858 dimer interface [polypeptide binding]; other site 272831000859 Predicted methyltransferases [General function prediction only]; Region: COG0313 272831000860 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 272831000861 putative SAM binding site [chemical binding]; other site 272831000862 homodimer interface [polypeptide binding]; other site 272831000863 membrane protein insertase; Provisional; Region: PRK01318 272831000864 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 272831000865 hypothetical protein; Provisional; Region: PRK14373 272831000866 ribonuclease P; Reviewed; Region: rnpA; PRK04390 272831000867 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 272831000868 DnaA N-terminal domain; Region: DnaA_N; pfam11638 272831000869 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831000870 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272831000871 Walker A motif; other site 272831000872 ATP binding site [chemical binding]; other site 272831000873 Walker B motif; other site 272831000874 arginine finger; other site 272831000875 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 272831000876 DnaA box-binding interface [nucleotide binding]; other site 272831000877 DNA polymerase III subunit beta; Validated; Region: PRK05643 272831000878 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 272831000879 putative DNA binding surface [nucleotide binding]; other site 272831000880 dimer interface [polypeptide binding]; other site 272831000881 beta-clamp/clamp loader binding surface; other site 272831000882 beta-clamp/translesion DNA polymerase binding surface; other site 272831000883 polyphosphate kinase; Provisional; Region: PRK05443 272831000884 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 272831000885 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 272831000886 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 272831000887 putative domain interface [polypeptide binding]; other site 272831000888 putative active site [active] 272831000889 catalytic site [active] 272831000890 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 272831000891 putative domain interface [polypeptide binding]; other site 272831000892 putative active site [active] 272831000893 catalytic site [active] 272831000894 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 272831000895 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 272831000896 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 272831000897 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 272831000898 HIGH motif; other site 272831000899 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 272831000900 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272831000901 active site 272831000902 KMSKS motif; other site 272831000903 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 272831000904 tRNA binding surface [nucleotide binding]; other site 272831000905 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 272831000906 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 272831000907 DNA methylase; Region: N6_N4_Mtase; pfam01555 272831000908 Predicted transcriptional regulator [Transcription]; Region: COG2944 272831000909 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 272831000910 non-specific DNA binding site [nucleotide binding]; other site 272831000911 salt bridge; other site 272831000912 sequence-specific DNA binding site [nucleotide binding]; other site 272831000913 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 272831000914 triosephosphate isomerase; Provisional; Region: PRK14567 272831000915 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 272831000916 substrate binding site [chemical binding]; other site 272831000917 dimer interface [polypeptide binding]; other site 272831000918 catalytic triad [active] 272831000919 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 272831000920 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 272831000921 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 272831000922 S-adenosylmethionine binding site [chemical binding]; other site 272831000923 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 272831000924 active site residue [active] 272831000925 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 272831000926 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272831000927 N-terminal plug; other site 272831000928 ligand-binding site [chemical binding]; other site 272831000929 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 272831000930 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 272831000931 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 272831000932 putative ligand binding residues [chemical binding]; other site 272831000933 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272831000934 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 272831000935 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 272831000936 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 272831000937 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 272831000938 putative feedback inhibition sensing region; other site 272831000939 putative nucleotide binding site [chemical binding]; other site 272831000940 putative substrate binding site [chemical binding]; other site 272831000941 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272831000942 Coenzyme A binding pocket [chemical binding]; other site 272831000943 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 272831000944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272831000945 active site 272831000946 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 272831000947 active site 272831000948 Fe-S cluster binding site [ion binding]; other site 272831000949 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272831000950 Coenzyme A binding pocket [chemical binding]; other site 272831000951 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 272831000952 Glycoprotease family; Region: Peptidase_M22; pfam00814 272831000953 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 272831000954 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 272831000955 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 272831000956 intersubunit interface [polypeptide binding]; other site 272831000957 active site 272831000958 zinc binding site [ion binding]; other site 272831000959 Na+ binding site [ion binding]; other site 272831000960 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 272831000961 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 272831000962 active site 272831000963 Int/Topo IB signature motif; other site 272831000964 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 272831000965 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 272831000966 TPP-binding site; other site 272831000967 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 272831000968 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 272831000969 PYR/PP interface [polypeptide binding]; other site 272831000970 dimer interface [polypeptide binding]; other site 272831000971 TPP binding site [chemical binding]; other site 272831000972 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272831000973 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 272831000974 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272831000975 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 272831000976 FeS/SAM binding site; other site 272831000977 TRAM domain; Region: TRAM; pfam01938 272831000978 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 272831000979 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 272831000980 inhibitor-cofactor binding pocket; inhibition site 272831000981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831000982 catalytic residue [active] 272831000983 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 272831000984 catalytic site [active] 272831000985 putative active site [active] 272831000986 putative substrate binding site [chemical binding]; other site 272831000987 dimer interface [polypeptide binding]; other site 272831000988 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 272831000989 DNA methylase; Region: N6_N4_Mtase; cl17433 272831000990 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 272831000991 S-adenosylmethionine binding site [chemical binding]; other site 272831000992 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 272831000993 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272831000994 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 272831000995 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 272831000996 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 272831000997 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 272831000998 carboxyltransferase (CT) interaction site; other site 272831000999 biotinylation site [posttranslational modification]; other site 272831001000 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 272831001001 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 272831001002 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 272831001003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272831001004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272831001005 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 272831001006 putative effector binding pocket; other site 272831001007 dimerization interface [polypeptide binding]; other site 272831001008 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 272831001009 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272831001010 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 272831001011 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 272831001012 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272831001013 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272831001014 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 272831001015 IMP binding site; other site 272831001016 dimer interface [polypeptide binding]; other site 272831001017 interdomain contacts; other site 272831001018 partial ornithine binding site; other site 272831001019 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 272831001020 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272831001021 active site 272831001022 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 272831001023 putative active site [active] 272831001024 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 272831001025 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272831001026 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 272831001027 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 272831001028 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 272831001029 catalytic site [active] 272831001030 subunit interface [polypeptide binding]; other site 272831001031 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 272831001032 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 272831001033 antiporter inner membrane protein; Provisional; Region: PRK11670 272831001034 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 272831001035 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272831001036 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 272831001037 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 272831001038 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272831001039 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 272831001040 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 272831001041 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 272831001042 Substrate binding site; other site 272831001043 metal-binding site 272831001044 Predicted membrane protein [Function unknown]; Region: COG2510 272831001045 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 272831001046 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 272831001047 Potassium binding sites [ion binding]; other site 272831001048 Cesium cation binding sites [ion binding]; other site 272831001049 GTP-binding protein YchF; Reviewed; Region: PRK09601 272831001050 YchF GTPase; Region: YchF; cd01900 272831001051 G1 box; other site 272831001052 GTP/Mg2+ binding site [chemical binding]; other site 272831001053 Switch I region; other site 272831001054 G2 box; other site 272831001055 Switch II region; other site 272831001056 G3 box; other site 272831001057 G4 box; other site 272831001058 G5 box; other site 272831001059 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 272831001060 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 272831001061 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 272831001062 catalytic triad [active] 272831001063 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 272831001064 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 272831001065 active site 272831001066 HIGH motif; other site 272831001067 dimer interface [polypeptide binding]; other site 272831001068 KMSKS motif; other site 272831001069 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 272831001070 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 272831001071 active site 272831001072 Riboflavin kinase; Region: Flavokinase; smart00904 272831001073 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 272831001074 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272831001075 active site 272831001076 HIGH motif; other site 272831001077 nucleotide binding site [chemical binding]; other site 272831001078 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272831001079 active site 272831001080 KMSKS motif; other site 272831001081 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 272831001082 tRNA binding surface [nucleotide binding]; other site 272831001083 anticodon binding site; other site 272831001084 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 272831001085 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 272831001086 lipoprotein signal peptidase; Provisional; Region: PRK14787 272831001087 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 272831001088 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 272831001089 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272831001090 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 272831001091 motif II; other site 272831001092 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 272831001093 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 272831001094 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272831001095 N-terminal plug; other site 272831001096 ligand-binding site [chemical binding]; other site 272831001097 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 272831001098 Putative esterase; Region: Esterase; pfam00756 272831001099 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 272831001100 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 272831001101 putative active site [active] 272831001102 putative PHP Thumb interface [polypeptide binding]; other site 272831001103 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 272831001104 generic binding surface II; other site 272831001105 generic binding surface I; other site 272831001106 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 272831001107 RNA binding surface [nucleotide binding]; other site 272831001108 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 272831001109 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 272831001110 active site 272831001111 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 272831001112 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]; Region: COG3977 272831001113 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 272831001114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831001115 homodimer interface [polypeptide binding]; other site 272831001116 catalytic residue [active] 272831001117 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 272831001118 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 272831001119 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 272831001120 NAD(P) binding site [chemical binding]; other site 272831001121 homodimer interface [polypeptide binding]; other site 272831001122 substrate binding site [chemical binding]; other site 272831001123 active site 272831001124 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 272831001125 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 272831001126 inhibitor-cofactor binding pocket; inhibition site 272831001127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831001128 catalytic residue [active] 272831001129 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 272831001130 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 272831001131 Bacterial sugar transferase; Region: Bac_transf; pfam02397 272831001132 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 272831001133 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272831001134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272831001135 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 272831001136 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272831001137 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 272831001138 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 272831001139 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 272831001140 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 272831001141 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 272831001142 catalytic motif [active] 272831001143 Zn binding site [ion binding]; other site 272831001144 RibD C-terminal domain; Region: RibD_C; cl17279 272831001145 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 272831001146 ATP cone domain; Region: ATP-cone; pfam03477 272831001147 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 272831001148 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 272831001149 putative active site [active] 272831001150 putative dimer interface [polypeptide binding]; other site 272831001151 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 272831001152 active site 272831001153 dimer interface [polypeptide binding]; other site 272831001154 metal binding site [ion binding]; metal-binding site 272831001155 shikimate kinase; Reviewed; Region: aroK; PRK00131 272831001156 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 272831001157 ADP binding site [chemical binding]; other site 272831001158 magnesium binding site [ion binding]; other site 272831001159 putative shikimate binding site; other site 272831001160 AMIN domain; Region: AMIN; pfam11741 272831001161 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 272831001162 Secretin and TonB N terminus short domain; Region: STN; pfam07660 272831001163 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 272831001164 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 272831001165 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 272831001166 Pilus assembly protein, PilP; Region: PilP; pfam04351 272831001167 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 272831001168 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 272831001169 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 272831001170 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 272831001171 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 272831001172 Transglycosylase; Region: Transgly; pfam00912 272831001173 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272831001174 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 272831001175 G1 box; other site 272831001176 GTP/Mg2+ binding site [chemical binding]; other site 272831001177 Switch I region; other site 272831001178 G2 box; other site 272831001179 G3 box; other site 272831001180 Switch II region; other site 272831001181 G4 box; other site 272831001182 G5 box; other site 272831001183 Cytochrome c553 [Energy production and conversion]; Region: COG2863 272831001184 Cytochrome c; Region: Cytochrom_C; cl11414 272831001185 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 272831001186 ResB-like family; Region: ResB; pfam05140 272831001187 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 272831001188 UGMP family protein; Validated; Region: PRK09604 272831001189 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 272831001190 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 272831001191 putative acyl-acceptor binding pocket; other site 272831001192 S-adenosylmethionine synthetase; Validated; Region: PRK05250 272831001193 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 272831001194 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 272831001195 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 272831001196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 272831001197 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 272831001198 Predicted flavoprotein [General function prediction only]; Region: COG0431 272831001199 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 272831001200 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 272831001201 Citrate transporter; Region: CitMHS; pfam03600 272831001202 cheY-homologous receiver domain; Region: REC; smart00448 272831001203 sensor protein QseC; Provisional; Region: PRK10337 272831001204 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272831001205 dimer interface [polypeptide binding]; other site 272831001206 phosphorylation site [posttranslational modification] 272831001207 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 272831001208 ATP binding site [chemical binding]; other site 272831001209 Mg2+ binding site [ion binding]; other site 272831001210 G-X-G motif; other site 272831001211 ribonuclease G; Provisional; Region: PRK11712 272831001212 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 272831001213 homodimer interface [polypeptide binding]; other site 272831001214 oligonucleotide binding site [chemical binding]; other site 272831001215 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 272831001216 GSH binding site [chemical binding]; other site 272831001217 catalytic residues [active] 272831001218 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 272831001219 SecA binding site; other site 272831001220 Preprotein binding site; other site 272831001221 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 272831001222 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 272831001223 generic binding surface II; other site 272831001224 ssDNA binding site; other site 272831001225 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 272831001226 ATP binding site [chemical binding]; other site 272831001227 putative Mg++ binding site [ion binding]; other site 272831001228 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 272831001229 nucleotide binding region [chemical binding]; other site 272831001230 ATP-binding site [chemical binding]; other site 272831001231 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 272831001232 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 272831001233 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 272831001234 Uncharacterized conserved protein [Function unknown]; Region: COG2850 272831001235 Cupin-like domain; Region: Cupin_8; pfam13621 272831001236 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272831001237 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 272831001238 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 272831001239 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 272831001240 haemagglutination activity domain; Region: Haemagg_act; pfam05860 272831001241 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 272831001242 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 272831001243 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 272831001244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 272831001245 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 272831001246 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 272831001247 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 272831001248 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 272831001249 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 272831001250 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 272831001251 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 272831001252 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 272831001253 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 272831001254 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 272831001255 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 272831001256 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 272831001257 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 272831001258 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 272831001259 Ligand Binding Site [chemical binding]; other site 272831001260 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 272831001261 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 272831001262 active site 272831001263 Predicted membrane protein [Function unknown]; Region: COG3759 272831001264 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 272831001265 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 272831001266 FeS/SAM binding site; other site 272831001267 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 272831001268 beta-hexosaminidase; Provisional; Region: PRK05337 272831001269 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 272831001270 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 272831001271 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 272831001272 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 272831001273 protein binding site [polypeptide binding]; other site 272831001274 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 272831001275 protein binding site [polypeptide binding]; other site 272831001276 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 272831001277 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272831001278 minor groove reading motif; other site 272831001279 helix-hairpin-helix signature motif; other site 272831001280 substrate binding pocket [chemical binding]; other site 272831001281 active site 272831001282 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 272831001283 Predicted membrane protein [Function unknown]; Region: COG1238 272831001284 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 272831001285 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 272831001286 putative substrate translocation pore; other site 272831001287 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 272831001288 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 272831001289 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 272831001290 Transporter associated domain; Region: CorC_HlyC; smart01091 272831001291 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 272831001292 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 272831001293 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 272831001294 domain interfaces; other site 272831001295 active site 272831001296 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 272831001297 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 272831001298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831001299 homodimer interface [polypeptide binding]; other site 272831001300 catalytic residue [active] 272831001301 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 272831001302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 272831001303 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 272831001304 L-lactate permease; Region: Lactate_perm; cl00701 272831001305 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 272831001306 putative active site [active] 272831001307 putative metal binding site [ion binding]; other site 272831001308 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272831001309 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 272831001310 Walker A/P-loop; other site 272831001311 ATP binding site [chemical binding]; other site 272831001312 Q-loop/lid; other site 272831001313 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 272831001314 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 272831001315 ABC transporter signature motif; other site 272831001316 Walker B; other site 272831001317 D-loop; other site 272831001318 H-loop/switch region; other site 272831001319 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 272831001320 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 272831001321 NAD binding site [chemical binding]; other site 272831001322 substrate binding site [chemical binding]; other site 272831001323 catalytic Zn binding site [ion binding]; other site 272831001324 tetramer interface [polypeptide binding]; other site 272831001325 structural Zn binding site [ion binding]; other site 272831001326 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 272831001327 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 272831001328 macrolide transporter subunit MacA; Provisional; Region: PRK11578 272831001329 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272831001330 HlyD family secretion protein; Region: HlyD_3; pfam13437 272831001331 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 272831001332 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272831001333 Walker A/P-loop; other site 272831001334 ATP binding site [chemical binding]; other site 272831001335 Q-loop/lid; other site 272831001336 ABC transporter signature motif; other site 272831001337 Walker B; other site 272831001338 D-loop; other site 272831001339 H-loop/switch region; other site 272831001340 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272831001341 FtsX-like permease family; Region: FtsX; pfam02687 272831001342 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 272831001343 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 272831001344 dimerization domain [polypeptide binding]; other site 272831001345 dimer interface [polypeptide binding]; other site 272831001346 catalytic residues [active] 272831001347 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 272831001348 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 272831001349 ATP binding site [chemical binding]; other site 272831001350 putative Mg++ binding site [ion binding]; other site 272831001351 helicase superfamily c-terminal domain; Region: HELICc; smart00490 272831001352 ATP-binding site [chemical binding]; other site 272831001353 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 272831001354 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272831001355 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272831001356 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272831001357 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 272831001358 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 272831001359 nucleotide binding site [chemical binding]; other site 272831001360 NEF interaction site [polypeptide binding]; other site 272831001361 SBD interface [polypeptide binding]; other site 272831001362 Predicted transcriptional regulator [Transcription]; Region: COG2932 272831001363 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 272831001364 Catalytic site [active] 272831001365 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 272831001366 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 272831001367 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 272831001368 serine acetyltransferase; Provisional; Region: cysE; PRK11132 272831001369 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 272831001370 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 272831001371 trimer interface [polypeptide binding]; other site 272831001372 active site 272831001373 substrate binding site [chemical binding]; other site 272831001374 CoA binding site [chemical binding]; other site 272831001375 GrpE; Region: GrpE; pfam01025 272831001376 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 272831001377 dimer interface [polypeptide binding]; other site 272831001378 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 272831001379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 272831001380 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 272831001381 ApbE family; Region: ApbE; pfam02424 272831001382 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 272831001383 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 272831001384 catalytic loop [active] 272831001385 iron binding site [ion binding]; other site 272831001386 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 272831001387 FAD binding pocket [chemical binding]; other site 272831001388 FAD binding motif [chemical binding]; other site 272831001389 phosphate binding motif [ion binding]; other site 272831001390 beta-alpha-beta structure motif; other site 272831001391 NAD binding pocket [chemical binding]; other site 272831001392 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 272831001393 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 272831001394 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 272831001395 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 272831001396 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 272831001397 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 272831001398 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 272831001399 E3 interaction surface; other site 272831001400 lipoyl attachment site [posttranslational modification]; other site 272831001401 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 272831001402 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 272831001403 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272831001404 transmembrane helices; other site 272831001405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 272831001406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 272831001407 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272831001408 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 272831001409 putative DNA binding site [nucleotide binding]; other site 272831001410 putative Zn2+ binding site [ion binding]; other site 272831001411 AsnC family; Region: AsnC_trans_reg; pfam01037 272831001412 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 272831001413 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272831001414 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 272831001415 lipoyl attachment site [posttranslational modification]; other site 272831001416 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 272831001417 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 272831001418 tRNA; other site 272831001419 putative tRNA binding site [nucleotide binding]; other site 272831001420 putative NADP binding site [chemical binding]; other site 272831001421 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 272831001422 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 272831001423 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 272831001424 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272831001425 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272831001426 Walker A/P-loop; other site 272831001427 ATP binding site [chemical binding]; other site 272831001428 Q-loop/lid; other site 272831001429 ABC transporter signature motif; other site 272831001430 Walker B; other site 272831001431 D-loop; other site 272831001432 H-loop/switch region; other site 272831001433 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 272831001434 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 272831001435 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 272831001436 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 272831001437 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 272831001438 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 272831001439 putative active site [active] 272831001440 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 272831001441 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 272831001442 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 272831001443 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 272831001444 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 272831001445 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 272831001446 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 272831001447 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 272831001448 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 272831001449 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 272831001450 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 272831001451 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 272831001452 metal binding site [ion binding]; metal-binding site 272831001453 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 272831001454 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272831001455 ABC-ATPase subunit interface; other site 272831001456 dimer interface [polypeptide binding]; other site 272831001457 putative PBP binding regions; other site 272831001458 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 272831001459 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 272831001460 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 272831001461 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 272831001462 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 272831001463 RimM N-terminal domain; Region: RimM; pfam01782 272831001464 PRC-barrel domain; Region: PRC; pfam05239 272831001465 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 272831001466 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 272831001467 CoA binding domain; Region: CoA_binding_2; pfam13380 272831001468 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272831001469 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272831001470 Coenzyme A binding pocket [chemical binding]; other site 272831001471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272831001472 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 272831001473 dimerization interface [polypeptide binding]; other site 272831001474 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272831001475 dimer interface [polypeptide binding]; other site 272831001476 phosphorylation site [posttranslational modification] 272831001477 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 272831001478 ATP binding site [chemical binding]; other site 272831001479 Mg2+ binding site [ion binding]; other site 272831001480 G-X-G motif; other site 272831001481 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272831001482 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 272831001483 active site 272831001484 phosphorylation site [posttranslational modification] 272831001485 intermolecular recognition site; other site 272831001486 dimerization interface [polypeptide binding]; other site 272831001487 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 272831001488 DNA binding site [nucleotide binding] 272831001489 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 272831001490 O-Antigen ligase; Region: Wzy_C; pfam04932 272831001491 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 272831001492 Predicted membrane protein [Function unknown]; Region: COG3308 272831001493 Maf-like protein; Region: Maf; pfam02545 272831001494 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 272831001495 active site 272831001496 dimer interface [polypeptide binding]; other site 272831001497 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 272831001498 sec-independent translocase; Provisional; Region: PRK00708 272831001499 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 272831001500 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 272831001501 nucleotide binding site/active site [active] 272831001502 HIT family signature motif; other site 272831001503 catalytic residue [active] 272831001504 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 272831001505 metal binding site [ion binding]; metal-binding site 272831001506 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272831001507 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 272831001508 putative NAD(P) binding site [chemical binding]; other site 272831001509 catalytic Zn binding site [ion binding]; other site 272831001510 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 272831001511 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 272831001512 putative active site [active] 272831001513 Zn binding site [ion binding]; other site 272831001514 Preprotein translocase subunit; Region: YajC; pfam02699 272831001515 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 272831001516 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 272831001517 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 272831001518 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 272831001519 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 272831001520 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 272831001521 Protein export membrane protein; Region: SecD_SecF; pfam02355 272831001522 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 272831001523 16S/18S rRNA binding site [nucleotide binding]; other site 272831001524 S13e-L30e interaction site [polypeptide binding]; other site 272831001525 25S rRNA binding site [nucleotide binding]; other site 272831001526 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 272831001527 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272831001528 Walker A/P-loop; other site 272831001529 ATP binding site [chemical binding]; other site 272831001530 Q-loop/lid; other site 272831001531 ABC transporter signature motif; other site 272831001532 Walker B; other site 272831001533 D-loop; other site 272831001534 H-loop/switch region; other site 272831001535 TOBE domain; Region: TOBE_2; pfam08402 272831001536 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831001537 dimer interface [polypeptide binding]; other site 272831001538 conserved gate region; other site 272831001539 putative PBP binding loops; other site 272831001540 ABC-ATPase subunit interface; other site 272831001541 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272831001542 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831001543 dimer interface [polypeptide binding]; other site 272831001544 conserved gate region; other site 272831001545 putative PBP binding loops; other site 272831001546 ABC-ATPase subunit interface; other site 272831001547 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 272831001548 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272831001549 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 272831001550 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831001551 DDE superfamily endonuclease; Region: DDE_4; cl17710 272831001552 transcription termination factor Rho; Provisional; Region: rho; PRK09376 272831001553 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 272831001554 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 272831001555 RNA binding site [nucleotide binding]; other site 272831001556 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 272831001557 multimer interface [polypeptide binding]; other site 272831001558 Walker A motif; other site 272831001559 ATP binding site [chemical binding]; other site 272831001560 Walker B motif; other site 272831001561 phosphoenolpyruvate synthase; Validated; Region: PRK06464 272831001562 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 272831001563 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 272831001564 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 272831001565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 272831001566 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272831001567 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 272831001568 motif II; other site 272831001569 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 272831001570 dinuclear metal binding motif [ion binding]; other site 272831001571 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 272831001572 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 272831001573 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272831001574 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272831001575 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 272831001576 active site 272831001577 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 272831001578 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 272831001579 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 272831001580 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 272831001581 trimer interface [polypeptide binding]; other site 272831001582 putative metal binding site [ion binding]; other site 272831001583 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 272831001584 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 272831001585 G1 box; other site 272831001586 putative GEF interaction site [polypeptide binding]; other site 272831001587 GTP/Mg2+ binding site [chemical binding]; other site 272831001588 Switch I region; other site 272831001589 G2 box; other site 272831001590 G3 box; other site 272831001591 Switch II region; other site 272831001592 G4 box; other site 272831001593 G5 box; other site 272831001594 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 272831001595 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 272831001596 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 272831001597 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 272831001598 substrate binding site [chemical binding]; other site 272831001599 glutamase interaction surface [polypeptide binding]; other site 272831001600 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 272831001601 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 272831001602 catalytic residues [active] 272831001603 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 272831001604 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 272831001605 putative active site [active] 272831001606 oxyanion strand; other site 272831001607 catalytic triad [active] 272831001608 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 272831001609 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 272831001610 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272831001611 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 272831001612 Walker A/P-loop; other site 272831001613 ATP binding site [chemical binding]; other site 272831001614 Q-loop/lid; other site 272831001615 ABC transporter signature motif; other site 272831001616 Walker B; other site 272831001617 D-loop; other site 272831001618 H-loop/switch region; other site 272831001619 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272831001620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831001621 dimer interface [polypeptide binding]; other site 272831001622 conserved gate region; other site 272831001623 putative PBP binding loops; other site 272831001624 ABC-ATPase subunit interface; other site 272831001625 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831001626 dimer interface [polypeptide binding]; other site 272831001627 conserved gate region; other site 272831001628 ABC-ATPase subunit interface; other site 272831001629 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272831001630 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 272831001631 argininosuccinate lyase; Provisional; Region: PRK00855 272831001632 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 272831001633 active sites [active] 272831001634 tetramer interface [polypeptide binding]; other site 272831001635 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272831001636 active site 272831001637 tetramer interface; other site 272831001638 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 272831001639 active site 272831001640 dimerization interface [polypeptide binding]; other site 272831001641 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 272831001642 dimer interface [polypeptide binding]; other site 272831001643 substrate binding site [chemical binding]; other site 272831001644 metal binding sites [ion binding]; metal-binding site 272831001645 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 272831001646 nudix motif; other site 272831001648 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 272831001649 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 272831001650 RNAase interaction site [polypeptide binding]; other site 272831001651 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 272831001652 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 272831001653 Pretoxin HINT domain; Region: PT-HINT; pfam07591 272831001654 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 protein; Region: Hint; cd00081 272831001655 thioester formation/cholesterol transfer; other site 272831001656 protein-splicing catalytic site; other site 272831001657 Pretoxin HINT domain; Region: PT-HINT; pfam07591 272831001658 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 protein; Region: Hint; cd00081 272831001659 thioester formation/cholesterol transfer; other site 272831001660 protein-splicing catalytic site; other site 272831001661 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 272831001662 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 272831001663 Cation transport protein; Region: TrkH; cl17365 272831001664 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 272831001665 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 272831001666 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 272831001667 active site 272831001668 metal binding site [ion binding]; metal-binding site 272831001669 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 272831001670 homotrimer interaction site [polypeptide binding]; other site 272831001671 putative active site [active] 272831001672 Opacity family porin protein; Region: Opacity; pfam02462 272831001673 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 272831001674 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 272831001675 FeS/SAM binding site; other site 272831001676 HemN C-terminal domain; Region: HemN_C; pfam06969 272831001677 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 272831001678 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 272831001679 nucleotide binding pocket [chemical binding]; other site 272831001680 K-X-D-G motif; other site 272831001681 catalytic site [active] 272831001682 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272831001683 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 272831001684 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 272831001685 Dimer interface [polypeptide binding]; other site 272831001686 BRCT sequence motif; other site 272831001687 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 272831001688 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 272831001689 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 272831001690 amidase catalytic site [active] 272831001691 Zn binding residues [ion binding]; other site 272831001692 substrate binding site [chemical binding]; other site 272831001693 YceG-like family; Region: YceG; pfam02618 272831001694 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 272831001695 dimerization interface [polypeptide binding]; other site 272831001696 thymidylate kinase; Validated; Region: tmk; PRK00698 272831001697 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 272831001698 TMP-binding site; other site 272831001699 ATP-binding site [chemical binding]; other site 272831001700 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 272831001701 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272831001702 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 272831001703 putative NAD(P) binding site [chemical binding]; other site 272831001704 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 272831001705 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 272831001706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 272831001707 Uncharacterized conserved protein [Function unknown]; Region: COG2835 272831001708 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 272831001709 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 272831001710 Ligand binding site; other site 272831001711 oligomer interface; other site 272831001712 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 272831001713 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 272831001714 substrate binding site [chemical binding]; other site 272831001715 active site 272831001716 catalytic residues [active] 272831001717 heterodimer interface [polypeptide binding]; other site 272831001718 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 272831001719 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 272831001720 CNP1-like family; Region: CNP1; pfam08750 272831001721 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 272831001722 CPxP motif; other site 272831001723 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 272831001724 active site 272831001725 substrate binding pocket [chemical binding]; other site 272831001726 dimer interface [polypeptide binding]; other site 272831001727 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 272831001728 putative RNA binding site [nucleotide binding]; other site 272831001729 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 272831001730 homopentamer interface [polypeptide binding]; other site 272831001731 active site 272831001732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 272831001733 ribonuclease III; Reviewed; Region: rnc; PRK00102 272831001734 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 272831001735 dimerization interface [polypeptide binding]; other site 272831001736 active site 272831001737 metal binding site [ion binding]; metal-binding site 272831001738 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 272831001739 dsRNA binding site [nucleotide binding]; other site 272831001740 GTPase Era; Reviewed; Region: era; PRK00089 272831001741 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 272831001742 G1 box; other site 272831001743 GTP/Mg2+ binding site [chemical binding]; other site 272831001744 Switch I region; other site 272831001745 G2 box; other site 272831001746 Switch II region; other site 272831001747 G3 box; other site 272831001748 G4 box; other site 272831001749 G5 box; other site 272831001750 KH domain; Region: KH_2; pfam07650 272831001751 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 272831001752 active site 272831001753 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 272831001754 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 272831001755 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272831001756 amidophosphoribosyltransferase; Provisional; Region: PRK09246 272831001757 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 272831001758 active site 272831001759 tetramer interface [polypeptide binding]; other site 272831001760 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272831001761 active site 272831001762 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 272831001763 Colicin V production protein; Region: Colicin_V; pfam02674 272831001764 cell division protein FtsN; Region: ftsN; TIGR02223 272831001765 Sporulation related domain; Region: SPOR; pfam05036 272831001766 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 272831001767 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272831001768 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272831001769 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272831001770 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 272831001771 Walker A/P-loop; other site 272831001772 ATP binding site [chemical binding]; other site 272831001773 Q-loop/lid; other site 272831001774 ABC transporter signature motif; other site 272831001775 Walker B; other site 272831001776 D-loop; other site 272831001777 H-loop/switch region; other site 272831001778 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 272831001779 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 272831001780 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 272831001781 putative active site [active] 272831001782 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 272831001783 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 272831001784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831001785 catalytic residue [active] 272831001786 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 272831001787 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 272831001788 Autotransporter beta-domain; Region: Autotransporter; pfam03797 272831001789 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 272831001790 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 272831001791 Competence protein; Region: Competence; pfam03772 272831001792 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272831001793 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 272831001794 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 272831001795 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 272831001796 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 272831001797 RNA binding surface [nucleotide binding]; other site 272831001798 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 272831001799 active site 272831001800 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 272831001801 Sodium Bile acid symporter family; Region: SBF; pfam01758 272831001802 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 272831001803 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 272831001804 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 272831001805 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 272831001806 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 272831001807 Predicted membrane protein/domain [Function unknown]; Region: COG1714 272831001808 hypothetical protein; Provisional; Region: PRK11820 272831001809 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 272831001810 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 272831001811 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 272831001812 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272831001813 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272831001814 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 272831001815 DNA binding residues [nucleotide binding] 272831001816 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 272831001817 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 272831001818 putative active site [active] 272831001819 catalytic triad [active] 272831001820 putative dimer interface [polypeptide binding]; other site 272831001821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 272831001822 potassium/proton antiporter; Reviewed; Region: PRK05326 272831001823 potassium/proton antiporter; Reviewed; Region: PRK05326 272831001824 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 272831001825 Cytochrome c; Region: Cytochrom_C; pfam00034 272831001826 ferrochelatase; Reviewed; Region: hemH; PRK00035 272831001827 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 272831001828 C-terminal domain interface [polypeptide binding]; other site 272831001829 active site 272831001830 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 272831001831 active site 272831001832 N-terminal domain interface [polypeptide binding]; other site 272831001833 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 272831001834 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 272831001835 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 272831001836 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 272831001837 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 272831001838 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 272831001839 active site 272831001840 dimer interface [polypeptide binding]; other site 272831001841 motif 1; other site 272831001842 motif 2; other site 272831001843 motif 3; other site 272831001844 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 272831001845 anticodon binding site; other site 272831001846 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 272831001847 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 272831001848 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 272831001849 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 272831001850 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 272831001851 23S rRNA binding site [nucleotide binding]; other site 272831001852 L21 binding site [polypeptide binding]; other site 272831001853 L13 binding site [polypeptide binding]; other site 272831001854 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 272831001855 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 272831001856 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 272831001857 dimer interface [polypeptide binding]; other site 272831001858 motif 1; other site 272831001859 active site 272831001860 motif 2; other site 272831001861 motif 3; other site 272831001862 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 272831001863 additional DNA contacts [nucleotide binding]; other site 272831001864 mismatch recognition site; other site 272831001865 active site 272831001866 zinc binding site [ion binding]; other site 272831001867 DNA intercalation site [nucleotide binding]; other site 272831001868 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 272831001869 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831001870 cofactor binding site; other site 272831001871 DNA binding site [nucleotide binding] 272831001872 substrate interaction site [chemical binding]; other site 272831001873 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 272831001874 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 272831001875 putative tRNA-binding site [nucleotide binding]; other site 272831001876 B3/4 domain; Region: B3_4; pfam03483 272831001877 tRNA synthetase B5 domain; Region: B5; smart00874 272831001878 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 272831001879 dimer interface [polypeptide binding]; other site 272831001880 motif 1; other site 272831001881 motif 3; other site 272831001882 motif 2; other site 272831001883 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 272831001884 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 272831001885 IHF - DNA interface [nucleotide binding]; other site 272831001886 IHF dimer interface [polypeptide binding]; other site 272831001887 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 272831001888 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 272831001889 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 272831001890 inhibitor-cofactor binding pocket; inhibition site 272831001891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831001892 catalytic residue [active] 272831001893 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 272831001894 AAA domain; Region: AAA_26; pfam13500 272831001895 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 272831001896 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 272831001897 UbiA prenyltransferase family; Region: UbiA; pfam01040 272831001898 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 272831001899 active site 272831001900 phosphorylation site [posttranslational modification] 272831001901 HPr kinase/phosphorylase; Provisional; Region: PRK05428 272831001902 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 272831001903 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 272831001904 Hpr binding site; other site 272831001905 active site 272831001906 homohexamer subunit interaction site [polypeptide binding]; other site 272831001907 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 272831001908 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 272831001909 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 272831001910 GTP/Mg2+ binding site [chemical binding]; other site 272831001911 G4 box; other site 272831001912 G5 box; other site 272831001913 G1 box; other site 272831001914 Switch I region; other site 272831001915 G2 box; other site 272831001916 G3 box; other site 272831001917 Switch II region; other site 272831001918 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 272831001919 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 272831001920 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 272831001921 Walker A/P-loop; other site 272831001922 ATP binding site [chemical binding]; other site 272831001923 Q-loop/lid; other site 272831001924 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 272831001925 ABC transporter signature motif; other site 272831001926 Walker B; other site 272831001927 D-loop; other site 272831001928 H-loop/switch region; other site 272831001929 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 272831001930 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 272831001931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 272831001932 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 272831001933 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 272831001934 S-adenosylmethionine binding site [chemical binding]; other site 272831001935 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 272831001936 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 272831001937 catalytic center binding site [active] 272831001938 ATP binding site [chemical binding]; other site 272831001939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 272831001940 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 272831001941 S-adenosylmethionine binding site [chemical binding]; other site 272831001942 bacterial Hfq-like; Region: Hfq; cd01716 272831001943 hexamer interface [polypeptide binding]; other site 272831001944 Sm1 motif; other site 272831001945 RNA binding site [nucleotide binding]; other site 272831001946 Sm2 motif; other site 272831001947 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 272831001948 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 272831001949 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 272831001950 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 272831001951 catalytic triad [active] 272831001952 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 272831001953 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 272831001954 active site 272831001955 Int/Topo IB signature motif; other site 272831001956 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 272831001957 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 272831001958 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 272831001959 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 272831001960 NADP binding site [chemical binding]; other site 272831001961 active site 272831001962 putative substrate binding site [chemical binding]; other site 272831001963 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 272831001964 ATP binding site [chemical binding]; other site 272831001965 active site 272831001966 substrate binding site [chemical binding]; other site 272831001967 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 272831001968 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 272831001969 RNase E interface [polypeptide binding]; other site 272831001970 trimer interface [polypeptide binding]; other site 272831001971 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 272831001972 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 272831001973 RNase E interface [polypeptide binding]; other site 272831001974 trimer interface [polypeptide binding]; other site 272831001975 active site 272831001976 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 272831001977 putative nucleic acid binding region [nucleotide binding]; other site 272831001978 G-X-X-G motif; other site 272831001979 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 272831001980 RNA binding site [nucleotide binding]; other site 272831001981 domain interface; other site 272831001982 Uncharacterized conserved protein [Function unknown]; Region: COG2836 272831001983 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 272831001984 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 272831001985 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 272831001986 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272831001987 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 272831001988 dimer interface [polypeptide binding]; other site 272831001989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831001990 catalytic residue [active] 272831001991 EamA-like transporter family; Region: EamA; pfam00892 272831001992 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272831001993 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272831001994 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 272831001995 Catalytic site [active] 272831001996 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 272831001997 GTP-binding protein LepA; Provisional; Region: PRK05433 272831001998 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 272831001999 G1 box; other site 272831002000 putative GEF interaction site [polypeptide binding]; other site 272831002001 GTP/Mg2+ binding site [chemical binding]; other site 272831002002 Switch I region; other site 272831002003 G2 box; other site 272831002004 G3 box; other site 272831002005 Switch II region; other site 272831002006 G4 box; other site 272831002007 G5 box; other site 272831002008 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 272831002009 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 272831002010 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 272831002011 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 272831002012 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 272831002013 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 272831002014 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 272831002015 Walker A motif; other site 272831002016 ATP binding site [chemical binding]; other site 272831002017 Walker B motif; other site 272831002018 DNA polymerase III subunit delta'; Validated; Region: PRK08699 272831002019 DNA polymerase III subunit delta'; Validated; Region: PRK08485 272831002020 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 272831002021 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272831002022 active site 272831002023 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 272831002024 putative GSH binding site [chemical binding]; other site 272831002025 catalytic residues [active] 272831002026 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272831002027 active site 272831002028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 272831002029 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 272831002030 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 272831002031 active site 272831002032 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 272831002033 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 272831002034 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 272831002035 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 272831002036 substrate binding site [chemical binding]; other site 272831002037 active site 272831002038 DNA repair protein RadA; Provisional; Region: PRK11823 272831002039 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 272831002040 Walker A motif/ATP binding site; other site 272831002041 ATP binding site [chemical binding]; other site 272831002042 Walker B motif; other site 272831002043 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 272831002044 Uncharacterized conserved protein [Function unknown]; Region: COG3439 272831002045 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 272831002046 active site residue [active] 272831002047 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 272831002048 Part of AAA domain; Region: AAA_19; pfam13245 272831002049 Family description; Region: UvrD_C_2; pfam13538 272831002050 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 272831002051 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 272831002052 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272831002053 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272831002054 substrate binding pocket [chemical binding]; other site 272831002055 membrane-bound complex binding site; other site 272831002056 hinge residues; other site 272831002057 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272831002058 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831002059 dimer interface [polypeptide binding]; other site 272831002060 conserved gate region; other site 272831002061 putative PBP binding loops; other site 272831002062 ABC-ATPase subunit interface; other site 272831002063 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272831002064 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 272831002065 Walker A/P-loop; other site 272831002066 ATP binding site [chemical binding]; other site 272831002067 Q-loop/lid; other site 272831002068 ABC transporter signature motif; other site 272831002069 Walker B; other site 272831002070 D-loop; other site 272831002071 H-loop/switch region; other site 272831002072 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 272831002073 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 272831002074 active site 272831002075 substrate binding site [chemical binding]; other site 272831002076 metal binding site [ion binding]; metal-binding site 272831002077 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 272831002078 active site 272831002079 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 272831002080 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272831002081 VanZ like family; Region: VanZ; pfam04892 272831002082 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 272831002083 putative active site [active] 272831002084 catalytic residue [active] 272831002085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 272831002086 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 272831002087 putative coenzyme Q binding site [chemical binding]; other site 272831002088 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 272831002089 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831002090 Walker A motif; other site 272831002091 ATP binding site [chemical binding]; other site 272831002092 Walker B motif; other site 272831002093 arginine finger; other site 272831002094 Peptidase family M41; Region: Peptidase_M41; pfam01434 272831002095 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 272831002096 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 272831002097 S-adenosylmethionine binding site [chemical binding]; other site 272831002098 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 272831002099 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 272831002100 dimer interface [polypeptide binding]; other site 272831002101 active site 272831002102 aspartate-rich active site metal binding site; other site 272831002103 allosteric magnesium binding site [ion binding]; other site 272831002104 Schiff base residues; other site 272831002105 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 272831002106 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 272831002107 homodimer interface [polypeptide binding]; other site 272831002108 substrate-cofactor binding pocket; other site 272831002109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831002110 catalytic residue [active] 272831002111 putative GTP cyclohydrolase; Provisional; Region: PRK13674 272831002112 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 272831002113 dimer interface [polypeptide binding]; other site 272831002114 FMN binding site [chemical binding]; other site 272831002115 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272831002116 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 272831002117 RNA binding surface [nucleotide binding]; other site 272831002118 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 272831002119 active site 272831002120 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 272831002121 ATP-NAD kinase; Region: NAD_kinase; pfam01513 272831002122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 272831002123 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272831002124 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 272831002125 putative NAD(P) binding site [chemical binding]; other site 272831002126 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272831002127 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272831002128 Bacterial transcriptional repressor; Region: TetR; pfam13972 272831002129 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 272831002130 FAD binding domain; Region: FAD_binding_4; pfam01565 272831002131 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 272831002132 multidrug efflux protein; Reviewed; Region: PRK01766 272831002133 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 272831002134 cation binding site [ion binding]; other site 272831002135 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 272831002136 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 272831002137 dimer interface [polypeptide binding]; other site 272831002138 motif 1; other site 272831002139 active site 272831002140 motif 2; other site 272831002141 motif 3; other site 272831002142 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 272831002143 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 272831002144 GDP-binding site [chemical binding]; other site 272831002145 ACT binding site; other site 272831002146 IMP binding site; other site 272831002147 heat shock protein HtpX; Provisional; Region: PRK05457 272831002148 adenylate kinase; Reviewed; Region: adk; PRK00279 272831002149 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 272831002150 AMP-binding site [chemical binding]; other site 272831002151 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 272831002152 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 272831002153 active site 272831002154 dimer interface [polypeptide binding]; other site 272831002155 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 272831002156 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272831002157 putative ribose interaction site [chemical binding]; other site 272831002158 putative ADP binding site [chemical binding]; other site 272831002159 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 272831002160 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831002161 cofactor binding site; other site 272831002162 DNA binding site [nucleotide binding] 272831002163 substrate interaction site [chemical binding]; other site 272831002164 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831002165 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 272831002166 HNH endonuclease; Region: HNH_2; pfam13391 272831002167 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 272831002168 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 272831002169 NADP binding site [chemical binding]; other site 272831002170 homopentamer interface [polypeptide binding]; other site 272831002171 substrate binding site [chemical binding]; other site 272831002172 active site 272831002173 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 272831002174 Clp amino terminal domain; Region: Clp_N; pfam02861 272831002175 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831002176 Walker A motif; other site 272831002177 ATP binding site [chemical binding]; other site 272831002178 Walker B motif; other site 272831002179 arginine finger; other site 272831002180 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831002181 Walker A motif; other site 272831002182 ATP binding site [chemical binding]; other site 272831002183 Walker B motif; other site 272831002184 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 272831002185 Uncharacterized conserved protein [Function unknown]; Region: COG2127 272831002186 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 272831002187 DNA-binding site [nucleotide binding]; DNA binding site 272831002188 RNA-binding motif; other site 272831002189 peptidase PmbA; Provisional; Region: PRK11040 272831002190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 272831002191 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 272831002192 DHH family; Region: DHH; pfam01368 272831002193 DHHA1 domain; Region: DHHA1; pfam02272 272831002194 poly(A) polymerase; Region: pcnB; TIGR01942 272831002195 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272831002196 active site 272831002197 NTP binding site [chemical binding]; other site 272831002198 metal binding triad [ion binding]; metal-binding site 272831002199 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 272831002200 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 272831002201 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 272831002202 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 272831002203 PhoH-like protein; Region: PhoH; pfam02562 272831002204 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 272831002205 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272831002206 trimer interface [polypeptide binding]; other site 272831002207 active site 272831002208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 272831002209 MORN repeat; Region: MORN; cl14787 272831002210 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 272831002211 GTP-binding protein Der; Reviewed; Region: PRK00093 272831002212 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 272831002213 G1 box; other site 272831002214 GTP/Mg2+ binding site [chemical binding]; other site 272831002215 Switch I region; other site 272831002216 G2 box; other site 272831002217 Switch II region; other site 272831002218 G3 box; other site 272831002219 G4 box; other site 272831002220 G5 box; other site 272831002221 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 272831002222 G1 box; other site 272831002223 GTP/Mg2+ binding site [chemical binding]; other site 272831002224 Switch I region; other site 272831002225 G2 box; other site 272831002226 G3 box; other site 272831002227 Switch II region; other site 272831002228 G4 box; other site 272831002229 G5 box; other site 272831002230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 272831002231 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 272831002232 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 272831002233 dimer interface [polypeptide binding]; other site 272831002234 motif 1; other site 272831002235 active site 272831002236 motif 2; other site 272831002237 motif 3; other site 272831002238 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 272831002239 anticodon binding site; other site 272831002240 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 272831002241 putative active site [active] 272831002242 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272831002243 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 272831002244 probable active site [active] 272831002245 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 272831002246 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 272831002247 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 272831002248 S-adenosylmethionine binding site [chemical binding]; other site 272831002249 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 272831002250 oligomerization interface [polypeptide binding]; other site 272831002251 active site 272831002252 metal binding site [ion binding]; metal-binding site 272831002253 pantoate--beta-alanine ligase; Region: panC; TIGR00018 272831002254 Pantoate-beta-alanine ligase; Region: PanC; cd00560 272831002255 active site 272831002256 ATP-binding site [chemical binding]; other site 272831002257 pantoate-binding site; other site 272831002258 HXXH motif; other site 272831002259 TPR repeat; Region: TPR_11; pfam13414 272831002260 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 272831002261 binding surface 272831002262 TPR motif; other site 272831002263 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 272831002264 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 272831002265 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 272831002266 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 272831002267 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272831002268 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 272831002269 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 272831002270 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272831002271 active site 272831002272 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 272831002273 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 272831002274 5S rRNA interface [nucleotide binding]; other site 272831002275 CTC domain interface [polypeptide binding]; other site 272831002276 L16 interface [polypeptide binding]; other site 272831002277 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 272831002278 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272831002279 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 272831002280 threonine dehydratase; Reviewed; Region: PRK09224 272831002281 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 272831002282 tetramer interface [polypeptide binding]; other site 272831002283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831002284 catalytic residue [active] 272831002285 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 272831002286 putative Ile/Val binding site [chemical binding]; other site 272831002287 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 272831002288 putative Ile/Val binding site [chemical binding]; other site 272831002289 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 272831002290 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 272831002291 Walker A/P-loop; other site 272831002292 ATP binding site [chemical binding]; other site 272831002293 Q-loop/lid; other site 272831002294 ABC transporter signature motif; other site 272831002295 Walker B; other site 272831002296 D-loop; other site 272831002297 H-loop/switch region; other site 272831002298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831002299 dimer interface [polypeptide binding]; other site 272831002300 conserved gate region; other site 272831002301 putative PBP binding loops; other site 272831002302 ABC-ATPase subunit interface; other site 272831002303 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 272831002304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831002305 dimer interface [polypeptide binding]; other site 272831002306 conserved gate region; other site 272831002307 putative PBP binding loops; other site 272831002308 ABC-ATPase subunit interface; other site 272831002309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 272831002310 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 272831002311 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 272831002312 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 272831002313 replicative DNA helicase; Region: DnaB; TIGR00665 272831002314 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 272831002315 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 272831002316 Walker A motif; other site 272831002317 ATP binding site [chemical binding]; other site 272831002318 Walker B motif; other site 272831002319 DNA binding loops [nucleotide binding] 272831002320 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 272831002321 Type II transport protein GspH; Region: GspH; pfam12019 272831002322 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 272831002323 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 272831002324 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 272831002325 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 272831002326 PilX N-terminal; Region: PilX_N; pfam14341 272831002327 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 272831002328 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 272831002329 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 272831002330 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 272831002331 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272831002332 trimer interface [polypeptide binding]; other site 272831002333 active site 272831002334 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 272831002335 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 272831002336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831002337 homodimer interface [polypeptide binding]; other site 272831002338 catalytic residue [active] 272831002339 hypothetical protein; Validated; Region: PRK02101 272831002340 integrase; Provisional; Region: PRK09692 272831002341 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 272831002342 active site 272831002343 Int/Topo IB signature motif; other site 272831002344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 272831002345 KilA-N domain; Region: KilA-N; pfam04383 272831002346 Predicted helicase [General function prediction only]; Region: COG4889 272831002347 Uncharacterized conserved protein [Function unknown]; Region: COG5532 272831002348 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 272831002349 non-specific DNA binding site [nucleotide binding]; other site 272831002350 Predicted transcriptional regulator [Transcription]; Region: COG2932 272831002351 salt bridge; other site 272831002352 sequence-specific DNA binding site [nucleotide binding]; other site 272831002353 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 272831002354 Catalytic site [active] 272831002355 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 272831002356 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 272831002357 active site 272831002358 metal binding site [ion binding]; metal-binding site 272831002359 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 272831002360 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 272831002361 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 272831002362 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 272831002363 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 272831002364 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 272831002365 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 272831002366 Phage capsid family; Region: Phage_capsid; pfam05065 272831002367 Phage tail protein; Region: Phage_tail_3; pfam08813 272831002368 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 272831002369 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 272831002370 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 272831002371 Phage-related minor tail protein [Function unknown]; Region: COG5281 272831002372 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 272831002373 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 272831002374 Phage minor tail protein; Region: Phage_min_tail; cl01940 272831002375 Phage minor tail protein L; Region: Phage_tail_L; pfam05100 272831002376 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 272831002377 MPN+ (JAMM) motif; other site 272831002378 Zinc-binding site [ion binding]; other site 272831002379 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272831002380 NlpC/P60 family; Region: NLPC_P60; pfam00877 272831002381 Phage-related protein, tail component [Function unknown]; Region: COG4723 272831002382 Phage-related protein, tail component [Function unknown]; Region: COG4733 272831002383 Putative phage tail protein; Region: Phage-tail_3; pfam13550 272831002384 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 272831002385 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 272831002386 Peptidase M15; Region: Peptidase_M15_3; cl01194 272831002387 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 272831002388 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 272831002389 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional; Region: PRK14844 272831002390 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 272831002391 Transposase domain (DUF772); Region: DUF772; pfam05598 272831002392 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831002393 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 272831002394 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272831002395 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272831002396 HlyD family secretion protein; Region: HlyD_3; pfam13437 272831002397 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 272831002398 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 272831002399 putative active site [active] 272831002400 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272831002401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272831002402 Walker A/P-loop; other site 272831002403 ATP binding site [chemical binding]; other site 272831002404 Q-loop/lid; other site 272831002405 ABC transporter signature motif; other site 272831002406 Walker B; other site 272831002407 D-loop; other site 272831002408 H-loop/switch region; other site 272831002409 Uncharacterized conserved protein [Function unknown]; Region: COG2850 272831002410 Cupin-like domain; Region: Cupin_8; pfam13621 272831002411 ParA-like protein; Provisional; Region: PHA02518 272831002412 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272831002413 P-loop; other site 272831002414 Magnesium ion binding site [ion binding]; other site 272831002415 Transposase domain (DUF772); Region: DUF772; pfam05598 272831002416 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831002417 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 272831002418 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 272831002419 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 272831002420 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 272831002421 Cytochrome c556 [Energy production and conversion]; Region: COG3909 272831002422 malonic semialdehyde reductase; Provisional; Region: PRK10538 272831002423 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 272831002424 putative NAD(P) binding site [chemical binding]; other site 272831002425 homotetramer interface [polypeptide binding]; other site 272831002426 homodimer interface [polypeptide binding]; other site 272831002427 active site 272831002428 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 272831002429 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 272831002430 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831002431 Helix-turn-helix domain; Region: HTH_38; pfam13936 272831002432 Homeodomain-like domain; Region: HTH_32; pfam13565 272831002433 Integrase core domain; Region: rve; pfam00665 272831002434 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 272831002435 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 272831002436 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 272831002437 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272831002438 dihydrodipicolinate synthase; Region: dapA; TIGR00674 272831002439 dimer interface [polypeptide binding]; other site 272831002440 active site 272831002441 catalytic residue [active] 272831002442 xanthine permease; Region: pbuX; TIGR03173 272831002443 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 272831002444 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 272831002445 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 272831002446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 272831002447 TfoX N-terminal domain; Region: TfoX_N; cl17592 272831002448 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 272831002449 nucleoside/Zn binding site; other site 272831002450 dimer interface [polypeptide binding]; other site 272831002451 catalytic motif [active] 272831002452 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 272831002453 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 272831002454 elongation factor P; Validated; Region: PRK00529 272831002455 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 272831002456 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 272831002457 RNA binding site [nucleotide binding]; other site 272831002458 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 272831002459 RNA binding site [nucleotide binding]; other site 272831002460 Methyltransferase domain; Region: Methyltransf_23; pfam13489 272831002461 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 272831002462 S-adenosylmethionine binding site [chemical binding]; other site 272831002463 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 272831002464 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 272831002465 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 272831002466 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 272831002467 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 272831002468 FAD binding site [chemical binding]; other site 272831002469 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 272831002470 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 272831002471 THF binding site; other site 272831002472 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 272831002473 substrate binding site [chemical binding]; other site 272831002474 THF binding site; other site 272831002475 zinc-binding site [ion binding]; other site 272831002476 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 272831002477 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 272831002478 catalytic triad [active] 272831002479 dimer interface [polypeptide binding]; other site 272831002480 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 272831002481 GSH binding site [chemical binding]; other site 272831002482 catalytic residues [active] 272831002483 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 272831002484 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272831002485 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272831002486 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 272831002487 Iron-sulfur protein interface; other site 272831002488 proximal quinone binding site [chemical binding]; other site 272831002489 SdhD (CybS) interface [polypeptide binding]; other site 272831002490 proximal heme binding site [chemical binding]; other site 272831002491 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 272831002492 SdhC subunit interface [polypeptide binding]; other site 272831002493 proximal heme binding site [chemical binding]; other site 272831002494 cardiolipin binding site; other site 272831002495 Iron-sulfur protein interface; other site 272831002496 proximal quinone binding site [chemical binding]; other site 272831002497 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 272831002498 L-aspartate oxidase; Provisional; Region: PRK06175 272831002499 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 272831002500 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 272831002501 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 272831002502 Uncharacterized conserved protein [Function unknown]; Region: COG2938 272831002503 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 272831002504 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 272831002505 dimer interface [polypeptide binding]; other site 272831002506 active site 272831002507 citrylCoA binding site [chemical binding]; other site 272831002508 NADH binding [chemical binding]; other site 272831002509 cationic pore residues; other site 272831002510 oxalacetate/citrate binding site [chemical binding]; other site 272831002511 coenzyme A binding site [chemical binding]; other site 272831002512 catalytic triad [active] 272831002513 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 272831002514 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 272831002515 TPP-binding site [chemical binding]; other site 272831002516 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 272831002517 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 272831002518 E3 interaction surface; other site 272831002519 lipoyl attachment site [posttranslational modification]; other site 272831002520 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 272831002521 e3 binding domain; Region: E3_binding; pfam02817 272831002522 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 272831002523 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 272831002524 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 272831002525 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272831002526 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272831002527 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 272831002528 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 272831002529 CoA-ligase; Region: Ligase_CoA; pfam00549 272831002530 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 272831002531 CoA binding domain; Region: CoA_binding; smart00881 272831002532 CoA-ligase; Region: Ligase_CoA; pfam00549 272831002533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 272831002534 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 272831002535 Family description; Region: UvrD_C_2; pfam13538 272831002536 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 272831002537 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 272831002538 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 272831002539 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 272831002540 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 272831002541 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 272831002542 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 272831002543 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 272831002544 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 272831002545 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 272831002546 glutamine binding [chemical binding]; other site 272831002547 catalytic triad [active] 272831002548 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 272831002549 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272831002550 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272831002551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 272831002552 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 272831002553 Replication initiation factor; Region: Rep_trans; pfam02486 272831002554 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 272831002555 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 272831002556 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 272831002557 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 272831002558 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 272831002559 Predicted membrane protein [Function unknown]; Region: COG3686 272831002560 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 272831002561 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 272831002562 ligand binding site [chemical binding]; other site 272831002563 homodimer interface [polypeptide binding]; other site 272831002564 NAD(P) binding site [chemical binding]; other site 272831002565 trimer interface B [polypeptide binding]; other site 272831002566 trimer interface A [polypeptide binding]; other site 272831002567 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 272831002568 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 272831002569 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 272831002570 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 272831002571 motif II; other site 272831002572 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 272831002573 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 272831002574 putative ion selectivity filter; other site 272831002575 putative pore gating glutamate residue; other site 272831002576 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 272831002577 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 272831002578 purine monophosphate binding site [chemical binding]; other site 272831002579 dimer interface [polypeptide binding]; other site 272831002580 putative catalytic residues [active] 272831002581 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 272831002582 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 272831002583 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272831002584 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272831002585 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272831002586 Mu-like prophage protein gp16 [Function unknown]; Region: COG4382 272831002587 Mor transcription activator family; Region: Mor; cl02360 272831002588 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272831002589 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 272831002590 active site 272831002591 metal binding site [ion binding]; metal-binding site 272831002592 Uncharacterized conserved protein [Function unknown]; Region: COG3422 272831002593 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831002594 Helix-turn-helix domain; Region: HTH_38; pfam13936 272831002595 Homeodomain-like domain; Region: HTH_32; pfam13565 272831002596 Integrase core domain; Region: rve; pfam00665 272831002597 Transposase domain (DUF772); Region: DUF772; pfam05598 272831002598 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831002599 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 272831002600 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 272831002601 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 272831002602 YadA-like C-terminal region; Region: YadA; pfam03895 272831002603 Rubredoxin [Energy production and conversion]; Region: COG1773 272831002604 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 272831002605 iron binding site [ion binding]; other site 272831002606 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272831002607 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272831002608 active site 272831002609 Uncharacterized conserved protein [Function unknown]; Region: COG2128 272831002610 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 272831002611 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 272831002612 D-lactate dehydrogenase; Provisional; Region: PRK11183 272831002613 FAD binding domain; Region: FAD_binding_4; pfam01565 272831002614 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 272831002615 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 272831002616 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272831002617 FAD binding domain; Region: FAD_binding_4; pfam01565 272831002618 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272831002619 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 272831002620 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 272831002621 Cysteine-rich domain; Region: CCG; pfam02754 272831002622 Cysteine-rich domain; Region: CCG; pfam02754 272831002623 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 272831002624 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 272831002625 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 272831002626 FMN binding site [chemical binding]; other site 272831002627 active site 272831002628 catalytic residues [active] 272831002629 substrate binding site [chemical binding]; other site 272831002630 Transposase domain (DUF772); Region: DUF772; pfam05598 272831002631 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831002632 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 272831002633 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 272831002634 active site 272831002635 DNA binding site [nucleotide binding] 272831002636 Int/Topo IB signature motif; other site 272831002637 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 272831002638 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272831002639 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 272831002640 non-specific DNA binding site [nucleotide binding]; other site 272831002641 salt bridge; other site 272831002642 sequence-specific DNA binding site [nucleotide binding]; other site 272831002643 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 272831002644 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 272831002645 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 272831002646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 272831002647 HTH-like domain; Region: HTH_21; pfam13276 272831002648 Integrase core domain; Region: rve; pfam00665 272831002649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 272831002650 Smr domain; Region: Smr; pfam01713 272831002651 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831002652 Helix-turn-helix domain; Region: HTH_38; pfam13936 272831002653 Homeodomain-like domain; Region: HTH_32; pfam13565 272831002654 Integrase core domain; Region: rve; pfam00665 272831002655 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 272831002656 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 272831002657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 272831002658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272831002659 Coenzyme A binding pocket [chemical binding]; other site 272831002660 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 272831002661 ATP-grasp domain; Region: ATP-grasp; pfam02222 272831002662 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 272831002663 anthranilate synthase component I; Provisional; Region: PRK13565 272831002664 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 272831002665 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 272831002666 ABC transporter ATPase component; Reviewed; Region: PRK11147 272831002667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272831002668 Walker A/P-loop; other site 272831002669 ATP binding site [chemical binding]; other site 272831002670 Q-loop/lid; other site 272831002671 ABC transporter signature motif; other site 272831002672 Walker B; other site 272831002673 D-loop; other site 272831002674 H-loop/switch region; other site 272831002675 ABC transporter; Region: ABC_tran_2; pfam12848 272831002676 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272831002677 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272831002678 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 272831002679 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 272831002680 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 272831002681 dimer interface [polypeptide binding]; other site 272831002682 active site 272831002683 glycine-pyridoxal phosphate binding site [chemical binding]; other site 272831002684 folate binding site [chemical binding]; other site 272831002685 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 272831002686 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 272831002687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 272831002688 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 272831002689 AMP binding site [chemical binding]; other site 272831002690 metal binding site [ion binding]; metal-binding site 272831002691 active site 272831002692 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 272831002693 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 272831002694 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 272831002695 active site 272831002696 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 272831002697 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 272831002698 dimer interface [polypeptide binding]; other site 272831002699 ADP-ribose binding site [chemical binding]; other site 272831002700 active site 272831002701 nudix motif; other site 272831002702 metal binding site [ion binding]; metal-binding site 272831002703 camphor resistance protein CrcB; Provisional; Region: PRK14230 272831002704 Predicted membrane protein [Function unknown]; Region: COG3235 272831002705 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 272831002706 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 272831002707 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 272831002708 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 272831002709 putative catalytic cysteine [active] 272831002710 glutamate 5-kinase; Region: proB; TIGR01027 272831002711 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 272831002712 nucleotide binding site [chemical binding]; other site 272831002713 homotetrameric interface [polypeptide binding]; other site 272831002714 putative phosphate binding site [ion binding]; other site 272831002715 putative allosteric binding site; other site 272831002716 PUA domain; Region: PUA; pfam01472 272831002717 2-isopropylmalate synthase; Validated; Region: PRK00915 272831002718 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 272831002719 active site 272831002720 catalytic residues [active] 272831002721 metal binding site [ion binding]; metal-binding site 272831002722 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 272831002723 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 272831002724 yecA family protein; Region: ygfB_yecA; TIGR02292 272831002725 SEC-C motif; Region: SEC-C; pfam02810 272831002726 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 272831002727 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 272831002728 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 272831002729 putative active site [active] 272831002730 Zn binding site [ion binding]; other site 272831002731 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 272831002732 feedback inhibition sensing region; other site 272831002733 homohexameric interface [polypeptide binding]; other site 272831002734 nucleotide binding site [chemical binding]; other site 272831002735 N-acetyl-L-glutamate binding site [chemical binding]; other site 272831002736 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 272831002737 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 272831002738 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 272831002739 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 272831002740 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 272831002741 ABC transporter; Region: ABC_tran; pfam00005 272831002742 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 272831002743 non-specific DNA binding site [nucleotide binding]; other site 272831002744 salt bridge; other site 272831002745 sequence-specific DNA binding site [nucleotide binding]; other site 272831002746 ORF6C domain; Region: ORF6C; pfam10552 272831002747 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 272831002748 non-specific DNA binding site [nucleotide binding]; other site 272831002749 salt bridge; other site 272831002750 sequence-specific DNA binding site [nucleotide binding]; other site 272831002751 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 272831002752 Integrase core domain; Region: rve; pfam00665 272831002753 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 272831002754 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 272831002755 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 272831002756 non-specific DNA binding site [nucleotide binding]; other site 272831002757 salt bridge; other site 272831002758 sequence-specific DNA binding site [nucleotide binding]; other site 272831002759 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 272831002760 DNA polymerase IV; Provisional; Region: PRK02794 272831002761 Eukaryotic Mediator 12 subunit domain; Region: Med12-LCEWAV; pfam12145 272831002762 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 272831002763 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831002764 Helix-turn-helix domain; Region: HTH_38; pfam13936 272831002765 Homeodomain-like domain; Region: HTH_32; pfam13565 272831002766 Integrase core domain; Region: rve; pfam00665 272831002767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 272831002768 Phage Tail Collar Domain; Region: Collar; pfam07484 272831002769 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 272831002770 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 272831002771 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 272831002772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 272831002773 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 272831002774 short chain dehydrogenase; Provisional; Region: PRK08703 272831002775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272831002776 NAD(P) binding site [chemical binding]; other site 272831002777 active site 272831002778 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 272831002779 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 272831002780 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 272831002781 active site lid residues [active] 272831002782 substrate binding pocket [chemical binding]; other site 272831002783 catalytic residues [active] 272831002784 substrate-Mg2+ binding site; other site 272831002785 aspartate-rich region 1; other site 272831002786 aspartate-rich region 2; other site 272831002787 chaperone protein HscA; Provisional; Region: hscA; PRK05183 272831002788 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 272831002789 nucleotide binding site [chemical binding]; other site 272831002790 putative NEF/HSP70 interaction site [polypeptide binding]; other site 272831002791 SBD interface [polypeptide binding]; other site 272831002792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 272831002793 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 272831002794 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 272831002795 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 272831002796 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 272831002797 catalytic loop [active] 272831002798 iron binding site [ion binding]; other site 272831002799 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 272831002800 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 272831002801 RNA binding surface [nucleotide binding]; other site 272831002802 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 272831002803 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 272831002804 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 272831002805 Ligand Binding Site [chemical binding]; other site 272831002806 TilS substrate binding domain; Region: TilS; pfam09179 272831002807 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 272831002808 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 272831002809 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 272831002810 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 272831002811 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272831002812 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272831002813 biotin synthase; Region: bioB; TIGR00433 272831002814 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 272831002815 FeS/SAM binding site; other site 272831002816 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 272831002817 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272831002818 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 272831002819 sulfite reductase subunit beta; Provisional; Region: PRK13504 272831002820 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272831002821 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272831002822 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 272831002823 Flavodoxin; Region: Flavodoxin_1; pfam00258 272831002824 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 272831002825 FAD binding pocket [chemical binding]; other site 272831002826 FAD binding motif [chemical binding]; other site 272831002827 catalytic residues [active] 272831002828 NAD binding pocket [chemical binding]; other site 272831002829 phosphate binding motif [ion binding]; other site 272831002830 beta-alpha-beta structure motif; other site 272831002831 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 272831002832 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 272831002833 CysD dimerization site [polypeptide binding]; other site 272831002834 G1 box; other site 272831002835 putative GEF interaction site [polypeptide binding]; other site 272831002836 GTP/Mg2+ binding site [chemical binding]; other site 272831002837 Switch I region; other site 272831002838 G2 box; other site 272831002839 G3 box; other site 272831002840 Switch II region; other site 272831002841 G4 box; other site 272831002842 G5 box; other site 272831002843 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 272831002844 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 272831002845 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 272831002846 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 272831002847 Active Sites [active] 272831002848 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 272831002849 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 272831002850 Active Sites [active] 272831002851 siroheme synthase; Provisional; Region: cysG; PRK10637 272831002852 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 272831002853 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 272831002854 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 272831002855 active site 272831002856 SAM binding site [chemical binding]; other site 272831002857 homodimer interface [polypeptide binding]; other site 272831002858 Cytochrome b [Energy production and conversion]; Region: COG3658 272831002859 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 272831002860 putative substrate binding site [chemical binding]; other site 272831002861 putative ATP binding site [chemical binding]; other site 272831002862 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 272831002863 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 272831002864 G1 box; other site 272831002865 putative GEF interaction site [polypeptide binding]; other site 272831002866 GTP/Mg2+ binding site [chemical binding]; other site 272831002867 Switch I region; other site 272831002868 G2 box; other site 272831002869 G3 box; other site 272831002870 Switch II region; other site 272831002871 G4 box; other site 272831002872 G5 box; other site 272831002873 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 272831002874 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 272831002875 ribonuclease R; Region: RNase_R; TIGR02063 272831002876 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 272831002877 RNB domain; Region: RNB; pfam00773 272831002878 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 272831002879 RNA binding site [nucleotide binding]; other site 272831002880 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 272831002881 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 272831002882 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 272831002883 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 272831002884 active site 272831002885 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 272831002886 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272831002887 metal binding triad; other site 272831002888 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272831002889 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272831002890 Zn2+ binding site [ion binding]; other site 272831002891 Mg2+ binding site [ion binding]; other site 272831002892 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 272831002893 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 272831002894 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272831002895 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 272831002896 non-specific DNA binding site [nucleotide binding]; other site 272831002897 salt bridge; other site 272831002898 sequence-specific DNA binding site [nucleotide binding]; other site 272831002899 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 272831002900 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 272831002901 heme binding site [chemical binding]; other site 272831002902 ferroxidase pore; other site 272831002903 ferroxidase diiron center [ion binding]; other site 272831002904 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 272831002905 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 272831002906 heme binding site [chemical binding]; other site 272831002907 ferroxidase pore; other site 272831002908 ferroxidase diiron center [ion binding]; other site 272831002909 lipoyl synthase; Provisional; Region: PRK05481 272831002910 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 272831002911 FeS/SAM binding site; other site 272831002912 lipoate-protein ligase B; Provisional; Region: PRK14342 272831002913 Uncharacterized conserved protein [Function unknown]; Region: COG2921 272831002914 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272831002915 Domain of unknown function DUF20; Region: UPF0118; pfam01594 272831002916 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 272831002917 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 272831002918 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 272831002919 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 272831002920 ligand binding site [chemical binding]; other site 272831002921 active site 272831002922 UGI interface [polypeptide binding]; other site 272831002923 catalytic site [active] 272831002924 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 272831002925 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272831002926 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 272831002927 putative Zn2+ binding site [ion binding]; other site 272831002928 putative DNA binding site [nucleotide binding]; other site 272831002929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272831002930 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272831002931 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272831002932 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 272831002933 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 272831002934 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272831002935 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272831002936 ABC transporter; Region: ABC_tran_2; pfam12848 272831002937 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272831002938 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 272831002939 homoserine dehydrogenase; Provisional; Region: PRK06349 272831002940 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 272831002941 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272831002942 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 272831002943 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 272831002944 IHF dimer interface [polypeptide binding]; other site 272831002945 IHF - DNA interface [nucleotide binding]; other site 272831002946 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272831002947 Found in ATP-dependent protease La (LON); Region: LON; smart00464 272831002948 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831002949 Walker A motif; other site 272831002950 ATP binding site [chemical binding]; other site 272831002951 Walker B motif; other site 272831002952 arginine finger; other site 272831002953 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272831002954 Methyltransferase domain; Region: Methyltransf_23; pfam13489 272831002955 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 272831002956 S-adenosylmethionine binding site [chemical binding]; other site 272831002957 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 272831002958 AAA domain; Region: AAA_30; pfam13604 272831002959 Family description; Region: UvrD_C_2; pfam13538 272831002960 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 272831002961 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272831002962 Walker A/P-loop; other site 272831002963 ATP binding site [chemical binding]; other site 272831002964 Q-loop/lid; other site 272831002965 ABC transporter signature motif; other site 272831002966 Walker B; other site 272831002967 D-loop; other site 272831002968 H-loop/switch region; other site 272831002969 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 272831002970 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272831002971 FtsX-like permease family; Region: FtsX; pfam02687 272831002972 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 272831002973 RecR protein; Region: RecR; pfam02132 272831002974 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 272831002975 putative active site [active] 272831002976 putative metal-binding site [ion binding]; other site 272831002977 tetramer interface [polypeptide binding]; other site 272831002978 SurA N-terminal domain; Region: SurA_N_3; cl07813 272831002979 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 272831002980 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 272831002981 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 272831002982 ArsC family; Region: ArsC; pfam03960 272831002983 putative catalytic residues [active] 272831002984 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 272831002985 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272831002986 Walker A/P-loop; other site 272831002987 ATP binding site [chemical binding]; other site 272831002988 ABC transporter signature motif; other site 272831002989 Walker B; other site 272831002990 D-loop; other site 272831002991 H-loop/switch region; other site 272831002992 ABC transporter; Region: ABC_tran_2; pfam12848 272831002993 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272831002994 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 272831002995 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272831002996 active site 272831002997 NTP binding site [chemical binding]; other site 272831002998 metal binding triad [ion binding]; metal-binding site 272831002999 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 272831003000 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272831003001 Zn2+ binding site [ion binding]; other site 272831003002 Mg2+ binding site [ion binding]; other site 272831003003 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 272831003004 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831003005 Walker A motif; other site 272831003006 ATP binding site [chemical binding]; other site 272831003007 Walker B motif; other site 272831003008 arginine finger; other site 272831003009 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 272831003010 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 272831003011 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 272831003012 substrate binding site [chemical binding]; other site 272831003013 hexamer interface [polypeptide binding]; other site 272831003014 metal binding site [ion binding]; metal-binding site 272831003015 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]; Region: CpxP; COG3678 272831003016 dimer interface [polypeptide binding]; other site 272831003017 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 272831003018 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831003019 Walker A motif; other site 272831003020 ATP binding site [chemical binding]; other site 272831003021 Walker B motif; other site 272831003022 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 272831003023 Lumazine binding domain; Region: Lum_binding; pfam00677 272831003024 Lumazine binding domain; Region: Lum_binding; pfam00677 272831003025 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 272831003026 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 272831003027 GTP binding site; other site 272831003028 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 272831003029 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 272831003030 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 272831003031 dimerization interface [polypeptide binding]; other site 272831003032 Histidine kinase; Region: HisKA_3; pfam07730 272831003033 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 272831003034 ATP binding site [chemical binding]; other site 272831003035 Mg2+ binding site [ion binding]; other site 272831003036 G-X-G motif; other site 272831003037 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272831003038 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 272831003039 active site 272831003040 phosphorylation site [posttranslational modification] 272831003041 intermolecular recognition site; other site 272831003042 dimerization interface [polypeptide binding]; other site 272831003043 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272831003044 DNA binding residues [nucleotide binding] 272831003045 dimerization interface [polypeptide binding]; other site 272831003046 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 272831003047 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 272831003048 dimerization interface [polypeptide binding]; other site 272831003049 putative ATP binding site [chemical binding]; other site 272831003050 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 272831003051 dimerization interface [polypeptide binding]; other site 272831003052 active site 272831003053 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272831003054 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 272831003055 active site 272831003056 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 272831003057 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 272831003058 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 272831003059 dimerization interface [polypeptide binding]; other site 272831003060 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 272831003061 recombination factor protein RarA; Reviewed; Region: PRK13342 272831003062 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831003063 Walker A motif; other site 272831003064 ATP binding site [chemical binding]; other site 272831003065 Walker B motif; other site 272831003066 arginine finger; other site 272831003067 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 272831003068 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272831003069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272831003070 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 272831003071 dimerization interface [polypeptide binding]; other site 272831003072 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 272831003073 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 272831003074 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 272831003075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831003076 catalytic residue [active] 272831003077 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 272831003078 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 272831003079 FAD binding pocket [chemical binding]; other site 272831003080 FAD binding motif [chemical binding]; other site 272831003081 phosphate binding motif [ion binding]; other site 272831003082 beta-alpha-beta structure motif; other site 272831003083 NAD binding pocket [chemical binding]; other site 272831003084 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 272831003085 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272831003086 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 272831003087 metal-binding site [ion binding] 272831003088 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272831003089 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272831003090 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 272831003091 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 272831003092 HflX GTPase family; Region: HflX; cd01878 272831003093 G1 box; other site 272831003094 GTP/Mg2+ binding site [chemical binding]; other site 272831003095 Switch I region; other site 272831003096 G2 box; other site 272831003097 G3 box; other site 272831003098 Switch II region; other site 272831003099 G4 box; other site 272831003100 G5 box; other site 272831003101 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 272831003102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 272831003103 hypothetical protein; Reviewed; Region: PRK00024 272831003104 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 272831003105 MPN+ (JAMM) motif; other site 272831003106 Zinc-binding site [ion binding]; other site 272831003107 Glutamate-cysteine ligase; Region: GshA; pfam08886 272831003108 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 272831003109 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 272831003110 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 272831003111 substrate binding site [chemical binding]; other site 272831003112 ligand binding site [chemical binding]; other site 272831003113 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 272831003114 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 272831003115 substrate binding site [chemical binding]; other site 272831003116 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831003117 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 272831003118 cofactor binding site; other site 272831003119 DNA binding site [nucleotide binding] 272831003120 substrate interaction site [chemical binding]; other site 272831003121 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831003122 NgoBV restriction endonuclease; Region: RE_NgoBV; pfam09564 272831003123 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 272831003124 tartrate dehydrogenase; Region: TTC; TIGR02089 272831003125 Uncharacterized conserved protein [Function unknown]; Region: COG2353 272831003126 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 272831003127 Aspartase; Region: Aspartase; cd01357 272831003128 active sites [active] 272831003129 tetramer interface [polypeptide binding]; other site 272831003130 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 272831003131 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 272831003132 HSP70 interaction site [polypeptide binding]; other site 272831003133 Predicted membrane protein [Function unknown]; Region: COG3671 272831003134 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 272831003135 putative deacylase active site [active] 272831003136 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 272831003137 homotrimer interaction site [polypeptide binding]; other site 272831003138 putative active site [active] 272831003139 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 272831003140 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 272831003141 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 272831003142 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 272831003143 Ligand Binding Site [chemical binding]; other site 272831003144 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 272831003145 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 272831003146 DNA methylase; Region: N6_N4_Mtase; pfam01555 272831003147 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 272831003148 substrate binding site [chemical binding]; other site 272831003149 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 272831003150 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 272831003151 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 272831003152 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 272831003153 metal binding site 2 [ion binding]; metal-binding site 272831003154 putative DNA binding helix; other site 272831003155 metal binding site 1 [ion binding]; metal-binding site 272831003156 dimer interface [polypeptide binding]; other site 272831003157 structural Zn2+ binding site [ion binding]; other site 272831003158 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 272831003159 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272831003160 active site 272831003161 glycerate kinase; Region: TIGR00045 272831003162 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 272831003163 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 272831003164 S-adenosylmethionine binding site [chemical binding]; other site 272831003165 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 272831003166 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 272831003167 metal-binding site [ion binding] 272831003168 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 272831003169 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 272831003170 active site 272831003171 catalytic triad [active] 272831003172 oxyanion hole [active] 272831003173 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 272831003174 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 272831003175 active site 272831003176 oxyanion hole [active] 272831003177 catalytic triad [active] 272831003178 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 272831003179 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 272831003180 acyl-activating enzyme (AAE) consensus motif; other site 272831003181 putative AMP binding site [chemical binding]; other site 272831003182 putative active site [active] 272831003183 putative CoA binding site [chemical binding]; other site 272831003184 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 272831003185 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 272831003186 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 272831003187 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272831003188 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272831003189 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272831003190 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 272831003191 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272831003192 active site 272831003193 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 272831003194 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272831003195 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 272831003196 ATP binding site [chemical binding]; other site 272831003197 putative Mg++ binding site [ion binding]; other site 272831003198 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 272831003199 nucleotide binding region [chemical binding]; other site 272831003200 ATP-binding site [chemical binding]; other site 272831003201 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 272831003202 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 272831003203 tetramerization interface [polypeptide binding]; other site 272831003204 active site 272831003205 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 272831003206 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 272831003207 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 272831003208 enolase; Provisional; Region: eno; PRK00077 272831003209 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 272831003210 dimer interface [polypeptide binding]; other site 272831003211 metal binding site [ion binding]; metal-binding site 272831003212 substrate binding pocket [chemical binding]; other site 272831003213 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 272831003214 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 272831003215 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 272831003216 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 272831003217 catalytic loop [active] 272831003218 iron binding site [ion binding]; other site 272831003219 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 272831003220 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 272831003221 dimer interface [polypeptide binding]; other site 272831003222 putative radical transfer pathway; other site 272831003223 diiron center [ion binding]; other site 272831003224 tyrosyl radical; other site 272831003225 Abi-like protein; Region: Abi_2; cl01988 272831003226 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 272831003227 ATP cone domain; Region: ATP-cone; pfam03477 272831003228 Class I ribonucleotide reductase; Region: RNR_I; cd01679 272831003229 active site 272831003230 dimer interface [polypeptide binding]; other site 272831003231 catalytic residues [active] 272831003232 effector binding site; other site 272831003233 R2 peptide binding site; other site 272831003234 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272831003235 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272831003236 putative acyl-acceptor binding pocket; other site 272831003237 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 272831003238 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 272831003239 DNA binding site [nucleotide binding] 272831003240 catalytic residue [active] 272831003241 H2TH interface [polypeptide binding]; other site 272831003242 putative catalytic residues [active] 272831003243 turnover-facilitating residue; other site 272831003244 intercalation triad [nucleotide binding]; other site 272831003245 8OG recognition residue [nucleotide binding]; other site 272831003246 putative reading head residues; other site 272831003247 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 272831003248 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 272831003249 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272831003250 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272831003251 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272831003252 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272831003253 catalytic residue [active] 272831003254 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272831003255 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 272831003256 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272831003257 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272831003258 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 272831003259 RNA binding surface [nucleotide binding]; other site 272831003260 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 272831003261 active site 272831003262 uracil binding [chemical binding]; other site 272831003263 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 272831003264 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 272831003265 CMP-binding site; other site 272831003266 The sites determining sugar specificity; other site 272831003267 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 272831003268 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 272831003269 RNA binding site [nucleotide binding]; other site 272831003270 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 272831003271 RNA binding site [nucleotide binding]; other site 272831003272 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 272831003273 RNA binding site [nucleotide binding]; other site 272831003274 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 272831003275 RNA binding site [nucleotide binding]; other site 272831003276 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 272831003277 RNA binding site [nucleotide binding]; other site 272831003278 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 272831003279 RNA binding site [nucleotide binding]; other site 272831003280 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 272831003281 IHF dimer interface [polypeptide binding]; other site 272831003282 IHF - DNA interface [nucleotide binding]; other site 272831003283 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272831003284 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 272831003285 DNA binding residues [nucleotide binding] 272831003286 putative dimer interface [polypeptide binding]; other site 272831003287 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 272831003288 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 272831003289 substrate binding site [chemical binding]; other site 272831003290 catalytic Zn binding site [ion binding]; other site 272831003291 NAD binding site [chemical binding]; other site 272831003292 structural Zn binding site [ion binding]; other site 272831003293 dimer interface [polypeptide binding]; other site 272831003294 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 272831003295 S-formylglutathione hydrolase; Region: PLN02442 272831003296 Predicted ATPase [General function prediction only]; Region: COG1485 272831003297 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 272831003298 active site 272831003299 multimer interface [polypeptide binding]; other site 272831003300 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 272831003301 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 272831003302 FeS/SAM binding site; other site 272831003303 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 272831003304 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 272831003305 binding surface 272831003306 TPR motif; other site 272831003307 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 272831003308 TPR motif; other site 272831003309 binding surface 272831003310 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 272831003311 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272831003312 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272831003313 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 272831003314 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272831003315 oligomer interface [polypeptide binding]; other site 272831003316 active site residues [active] 272831003317 trigger factor; Provisional; Region: tig; PRK01490 272831003318 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 272831003319 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 272831003320 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 272831003321 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 272831003322 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 272831003323 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 272831003324 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 272831003325 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 272831003326 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 272831003327 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272831003328 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 272831003329 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 272831003330 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 272831003331 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 272831003332 Primosomal replication protein N [DNA replication, recombination, and repair]; Region: PriB; COG2965 272831003333 generic binding surface I; other site 272831003334 generic binding surface II; other site 272831003335 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 272831003336 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272831003337 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 272831003338 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272831003339 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272831003340 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 272831003341 metal-binding site [ion binding] 272831003342 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272831003343 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272831003344 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 272831003345 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 272831003346 GIY-YIG motif/motif A; other site 272831003347 active site 272831003348 catalytic site [active] 272831003349 putative DNA binding site [nucleotide binding]; other site 272831003350 metal binding site [ion binding]; metal-binding site 272831003351 UvrB/uvrC motif; Region: UVR; pfam02151 272831003352 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 272831003353 Helix-hairpin-helix motif; Region: HHH; pfam00633 272831003354 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272831003355 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272831003356 Sel1-like repeats; Region: SEL1; smart00671 272831003357 Sel1-like repeats; Region: SEL1; smart00671 272831003358 Sel1-like repeats; Region: SEL1; smart00671 272831003359 Sel1-like repeats; Region: SEL1; smart00671 272831003360 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 272831003361 S-adenosylmethionine binding site [chemical binding]; other site 272831003362 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 272831003363 excinuclease ABC subunit B; Provisional; Region: PRK05298 272831003364 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 272831003365 ATP-binding site [chemical binding]; other site 272831003366 ATP binding site [chemical binding]; other site 272831003367 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 272831003368 nucleotide binding region [chemical binding]; other site 272831003369 ATP-binding site [chemical binding]; other site 272831003370 Ultra-violet resistance protein B; Region: UvrB; pfam12344 272831003371 UvrB/uvrC motif; Region: UVR; pfam02151 272831003372 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 272831003373 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 272831003374 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 272831003375 protein binding site [polypeptide binding]; other site 272831003376 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 272831003377 Catalytic dyad [active] 272831003378 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 272831003379 Peptidase family M23; Region: Peptidase_M23; pfam01551 272831003380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 272831003381 CreA protein; Region: CreA; pfam05981 272831003382 Putative transcriptional regulator [Transcription]; Region: COG1678 272831003383 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 272831003384 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 272831003385 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 272831003386 prolyl-tRNA synthetase; Provisional; Region: PRK09194 272831003387 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 272831003388 dimer interface [polypeptide binding]; other site 272831003389 motif 1; other site 272831003390 active site 272831003391 motif 2; other site 272831003392 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 272831003393 putative deacylase active site [active] 272831003394 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 272831003395 active site 272831003396 motif 3; other site 272831003397 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 272831003398 anticodon binding site; other site 272831003399 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 272831003400 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 272831003401 dimer interface [polypeptide binding]; other site 272831003402 TPP-binding site [chemical binding]; other site 272831003403 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 272831003404 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 272831003405 E3 interaction surface; other site 272831003406 lipoyl attachment site [posttranslational modification]; other site 272831003407 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 272831003408 E3 interaction surface; other site 272831003409 lipoyl attachment site [posttranslational modification]; other site 272831003410 e3 binding domain; Region: E3_binding; pfam02817 272831003411 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 272831003412 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 272831003413 E3 interaction surface; other site 272831003414 lipoyl attachment site [posttranslational modification]; other site 272831003415 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 272831003416 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 272831003417 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272831003418 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272831003419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 272831003420 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 272831003421 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 272831003422 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272831003423 N-terminal plug; other site 272831003424 ligand-binding site [chemical binding]; other site 272831003425 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 272831003426 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 272831003427 active site 272831003428 dimerization interface [polypeptide binding]; other site 272831003429 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 272831003430 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 272831003431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 272831003432 16S rRNA methyltransferase B; Provisional; Region: PRK10901 272831003433 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 272831003434 S-adenosylmethionine binding site [chemical binding]; other site 272831003435 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 272831003436 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 272831003437 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 272831003438 NAD(P) binding site [chemical binding]; other site 272831003439 catalytic residues [active] 272831003440 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 272831003441 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 272831003442 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272831003443 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 272831003444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 272831003445 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 272831003446 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 272831003447 GatB domain; Region: GatB_Yqey; smart00845 272831003448 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 272831003449 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 272831003450 catalytic loop [active] 272831003451 iron binding site [ion binding]; other site 272831003452 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 272831003453 FAD binding pocket [chemical binding]; other site 272831003454 FAD binding motif [chemical binding]; other site 272831003455 phosphate binding motif [ion binding]; other site 272831003456 beta-alpha-beta structure motif; other site 272831003457 NAD binding pocket [chemical binding]; other site 272831003458 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 272831003459 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 272831003460 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 272831003461 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272831003462 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 272831003463 RNA binding surface [nucleotide binding]; other site 272831003464 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 272831003465 probable active site [active] 272831003466 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 272831003467 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 272831003468 putative substrate translocation pore; other site 272831003469 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 272831003470 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 272831003471 generic binding surface II; other site 272831003472 generic binding surface I; other site 272831003473 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 272831003474 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 272831003475 homodimer interface [polypeptide binding]; other site 272831003476 NAD binding pocket [chemical binding]; other site 272831003477 ATP binding pocket [chemical binding]; other site 272831003478 Mg binding site [ion binding]; other site 272831003479 active-site loop [active] 272831003480 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 272831003481 Hemerythrin-like domain; Region: Hr-like; cd12108 272831003482 Fe binding site [ion binding]; other site 272831003483 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 272831003484 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 272831003485 catalytic residues [active] 272831003486 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 272831003487 S-adenosylmethionine binding site [chemical binding]; other site 272831003488 helicase 45; Provisional; Region: PTZ00424 272831003489 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 272831003490 ATP binding site [chemical binding]; other site 272831003491 Mg++ binding site [ion binding]; other site 272831003492 motif III; other site 272831003493 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 272831003494 nucleotide binding region [chemical binding]; other site 272831003495 ATP-binding site [chemical binding]; other site 272831003496 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 272831003497 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 272831003498 inhibitor-cofactor binding pocket; inhibition site 272831003499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831003500 catalytic residue [active] 272831003501 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 272831003502 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 272831003503 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831003504 Walker A motif; other site 272831003505 ATP binding site [chemical binding]; other site 272831003506 Walker B motif; other site 272831003507 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 272831003508 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 272831003509 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 272831003510 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 272831003511 RNA binding site [nucleotide binding]; other site 272831003512 active site 272831003513 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 272831003514 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 272831003515 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 272831003516 DNA methylase; Region: N6_N4_Mtase; pfam01555 272831003517 DNA methylase; Region: N6_N4_Mtase; pfam01555 272831003518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 272831003519 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 272831003520 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 272831003521 phosphate binding site [ion binding]; other site 272831003522 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 272831003523 Rrf2 family protein; Region: rrf2_super; TIGR00738 272831003524 cysteine desulfurase; Provisional; Region: PRK14012 272831003525 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 272831003526 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272831003527 catalytic residue [active] 272831003528 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 272831003529 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 272831003530 trimerization site [polypeptide binding]; other site 272831003531 active site 272831003532 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 272831003533 co-chaperone HscB; Provisional; Region: hscB; PRK03578 272831003534 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 272831003535 HSP70 interaction site [polypeptide binding]; other site 272831003536 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 272831003537 DNA gyrase subunit A; Validated; Region: PRK05560 272831003538 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 272831003539 CAP-like domain; other site 272831003540 active site 272831003541 primary dimer interface [polypeptide binding]; other site 272831003542 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272831003543 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272831003544 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272831003545 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272831003546 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272831003547 DDE superfamily endonuclease; Region: DDE_3; pfam13358 272831003548 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 272831003549 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 272831003550 active site 272831003551 dimer interface [polypeptide binding]; other site 272831003552 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 272831003553 dimer interface [polypeptide binding]; other site 272831003554 active site 272831003555 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 272831003556 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272831003557 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 272831003558 putative active site [active] 272831003559 glucokinase; Provisional; Region: glk; PRK00292 272831003560 glucokinase, proteobacterial type; Region: glk; TIGR00749 272831003561 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 272831003562 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 272831003563 putative active site [active] 272831003564 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 272831003565 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 272831003566 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 272831003567 phosphogluconate dehydratase; Validated; Region: PRK09054 272831003568 6-phosphogluconate dehydratase; Region: edd; TIGR01196 272831003569 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 272831003570 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 272831003571 active site 272831003572 intersubunit interface [polypeptide binding]; other site 272831003573 catalytic residue [active] 272831003574 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 272831003575 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272831003576 minor groove reading motif; other site 272831003577 helix-hairpin-helix signature motif; other site 272831003578 substrate binding pocket [chemical binding]; other site 272831003579 active site 272831003580 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 272831003581 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 272831003582 DNA binding and oxoG recognition site [nucleotide binding] 272831003583 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 272831003584 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 272831003585 E-class dimer interface [polypeptide binding]; other site 272831003586 P-class dimer interface [polypeptide binding]; other site 272831003587 active site 272831003588 Cu2+ binding site [ion binding]; other site 272831003589 Zn2+ binding site [ion binding]; other site 272831003590 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831003591 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 272831003592 Transposase domain (DUF772); Region: DUF772; pfam05598 272831003593 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831003594 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 272831003595 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 272831003596 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272831003597 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 272831003598 Walker A/P-loop; other site 272831003599 ATP binding site [chemical binding]; other site 272831003600 Q-loop/lid; other site 272831003601 ABC transporter signature motif; other site 272831003602 Walker B; other site 272831003603 D-loop; other site 272831003604 H-loop/switch region; other site 272831003605 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 272831003606 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 272831003607 aminopeptidase N; Provisional; Region: pepN; PRK14015 272831003608 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 272831003609 active site 272831003610 Zn binding site [ion binding]; other site 272831003611 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 272831003612 active site 272831003613 catalytic site [active] 272831003614 substrate binding site [chemical binding]; other site 272831003615 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 272831003616 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 272831003617 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 272831003618 putative acyl-acceptor binding pocket; other site 272831003619 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 272831003620 active site 272831003621 putative DNA-binding cleft [nucleotide binding]; other site 272831003622 dimer interface [polypeptide binding]; other site 272831003623 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 272831003624 DNA-binding protein Fis; Provisional; Region: PRK01905 272831003625 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 272831003626 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 272831003627 FMN binding site [chemical binding]; other site 272831003628 active site 272831003629 catalytic residues [active] 272831003630 substrate binding site [chemical binding]; other site 272831003631 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 272831003632 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 272831003633 ATP binding site [chemical binding]; other site 272831003634 Mg++ binding site [ion binding]; other site 272831003635 motif III; other site 272831003636 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 272831003637 nucleotide binding region [chemical binding]; other site 272831003638 ATP-binding site [chemical binding]; other site 272831003639 Fic family protein [Function unknown]; Region: COG3177 272831003640 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 272831003641 Fic/DOC family; Region: Fic; pfam02661 272831003642 Protein of unknown function (DUF723); Region: DUF723; pfam05265 272831003643 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 272831003644 Catalytic site [active] 272831003645 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 272831003646 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 272831003647 dimer interface [polypeptide binding]; other site 272831003648 putative anticodon binding site; other site 272831003649 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 272831003650 motif 1; other site 272831003651 active site 272831003652 motif 2; other site 272831003653 motif 3; other site 272831003654 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 272831003655 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272831003656 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272831003657 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272831003658 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 272831003659 active site 272831003660 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 272831003661 eyelet of channel; other site 272831003662 trimer interface [polypeptide binding]; other site 272831003663 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 272831003664 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 272831003665 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 272831003666 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272831003667 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 272831003668 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 272831003669 hinge; other site 272831003670 active site 272831003671 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272831003672 NlpC/P60 family; Region: NLPC_P60; pfam00877 272831003673 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 272831003674 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 272831003675 putative active site [active] 272831003676 catalytic site [active] 272831003677 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 272831003678 putative active site [active] 272831003679 catalytic site [active] 272831003680 putative transporter; Provisional; Region: PRK10504 272831003681 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 272831003682 putative substrate translocation pore; other site 272831003683 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 272831003684 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 272831003685 Cysteine-rich domain; Region: CCG; pfam02754 272831003686 Cysteine-rich domain; Region: CCG; pfam02754 272831003687 Uncharacterized conserved protein [Function unknown]; Region: COG1556 272831003688 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 272831003689 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 272831003690 4Fe-4S binding domain; Region: Fer4; pfam00037 272831003691 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 272831003692 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 272831003693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 272831003694 Tetratricopeptide repeat; Region: TPR_6; pfam13174 272831003695 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 272831003696 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 272831003697 S-adenosylmethionine binding site [chemical binding]; other site 272831003698 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 272831003699 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 272831003700 ATP binding site [chemical binding]; other site 272831003701 Mg2+ binding site [ion binding]; other site 272831003702 G-X-G motif; other site 272831003703 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 272831003704 ATP binding site [chemical binding]; other site 272831003705 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 272831003706 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 272831003707 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831003708 Walker A motif; other site 272831003709 ATP binding site [chemical binding]; other site 272831003710 Walker B motif; other site 272831003711 arginine finger; other site 272831003712 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 272831003713 hypothetical protein; Validated; Region: PRK00153 272831003714 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831003715 Helix-turn-helix domain; Region: HTH_38; pfam13936 272831003716 Homeodomain-like domain; Region: HTH_32; pfam13565 272831003717 Integrase core domain; Region: rve; pfam00665 272831003718 recombinase A; Provisional; Region: recA; PRK09354 272831003719 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 272831003720 hexamer interface [polypeptide binding]; other site 272831003721 Walker A motif; other site 272831003722 ATP binding site [chemical binding]; other site 272831003723 Walker B motif; other site 272831003724 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 272831003725 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 272831003726 active site 272831003727 catalytic residue [active] 272831003728 dimer interface [polypeptide binding]; other site 272831003729 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 272831003730 Family description; Region: UvrD_C_2; pfam13538 272831003731 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 272831003732 active site 272831003733 DNA polymerase IV; Validated; Region: PRK02406 272831003734 DNA binding site [nucleotide binding] 272831003735 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 272831003736 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 272831003737 FAD binding pocket [chemical binding]; other site 272831003738 FAD binding motif [chemical binding]; other site 272831003739 phosphate binding motif [ion binding]; other site 272831003740 beta-alpha-beta structure motif; other site 272831003741 NAD binding pocket [chemical binding]; other site 272831003742 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 272831003743 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272831003744 active site 272831003745 catalytic site [active] 272831003746 substrate binding site [chemical binding]; other site 272831003747 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 272831003748 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 272831003749 FMN binding site [chemical binding]; other site 272831003750 substrate binding site [chemical binding]; other site 272831003751 putative catalytic residue [active] 272831003752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 272831003753 FixH; Region: FixH; pfam05751 272831003754 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 272831003755 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272831003756 4Fe-4S binding domain; Region: Fer4_3; pfam12798 272831003757 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 272831003758 transketolase; Reviewed; Region: PRK12753 272831003759 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 272831003760 TPP-binding site [chemical binding]; other site 272831003761 dimer interface [polypeptide binding]; other site 272831003762 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 272831003763 PYR/PP interface [polypeptide binding]; other site 272831003764 dimer interface [polypeptide binding]; other site 272831003765 TPP binding site [chemical binding]; other site 272831003766 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272831003767 fumarate hydratase; Reviewed; Region: fumC; PRK00485 272831003768 Class II fumarases; Region: Fumarase_classII; cd01362 272831003769 active site 272831003770 tetramer interface [polypeptide binding]; other site 272831003771 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272831003772 EamA-like transporter family; Region: EamA; pfam00892 272831003773 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 272831003774 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 272831003775 dimer interface [polypeptide binding]; other site 272831003776 ssDNA binding site [nucleotide binding]; other site 272831003777 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272831003778 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 272831003779 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272831003780 putative substrate translocation pore; other site 272831003781 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272831003782 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272831003783 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272831003784 catalytic residue [active] 272831003785 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 272831003786 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 272831003787 Protein of unknown function (DUF560); Region: DUF560; pfam04575 272831003788 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 272831003789 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 272831003790 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 272831003791 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272831003792 active site 272831003793 HIGH motif; other site 272831003794 dimer interface [polypeptide binding]; other site 272831003795 KMSKS motif; other site 272831003796 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 272831003797 Clp amino terminal domain; Region: Clp_N; pfam02861 272831003798 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831003799 Walker A motif; other site 272831003800 ATP binding site [chemical binding]; other site 272831003801 Walker B motif; other site 272831003802 arginine finger; other site 272831003803 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 272831003804 Walker A motif; other site 272831003805 ATP binding site [chemical binding]; other site 272831003806 Walker B motif; other site 272831003807 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 272831003808 aminotransferase AlaT; Validated; Region: PRK09265 272831003809 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 272831003810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831003811 homodimer interface [polypeptide binding]; other site 272831003812 catalytic residue [active] 272831003813 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 272831003814 active site 1 [active] 272831003815 dimer interface [polypeptide binding]; other site 272831003816 hexamer interface [polypeptide binding]; other site 272831003817 active site 2 [active] 272831003818 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 272831003819 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 272831003820 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272831003821 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 272831003822 NAD(P) binding site [chemical binding]; other site 272831003823 phosphoglycolate phosphatase; Provisional; Region: PRK13222 272831003824 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 272831003825 motif II; other site 272831003826 recombination regulator RecX; Reviewed; Region: recX; PRK00117 272831003827 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 272831003828 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272831003829 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272831003830 Peptidase family M23; Region: Peptidase_M23; pfam01551 272831003831 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 272831003832 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 272831003833 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 272831003834 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 272831003835 Transporter associated domain; Region: CorC_HlyC; smart01091 272831003836 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 272831003837 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 272831003838 tetramerization interface [polypeptide binding]; other site 272831003839 NAD(P) binding site [chemical binding]; other site 272831003840 catalytic residues [active] 272831003841 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 272831003842 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 272831003843 carbon starvation protein A; Provisional; Region: PRK15015 272831003844 Carbon starvation protein CstA; Region: CstA; pfam02554 272831003845 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 272831003846 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 272831003847 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 272831003848 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 272831003849 aspartate kinase; Reviewed; Region: PRK06635 272831003850 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 272831003851 putative nucleotide binding site [chemical binding]; other site 272831003852 putative catalytic residues [active] 272831003853 putative Mg ion binding site [ion binding]; other site 272831003854 putative aspartate binding site [chemical binding]; other site 272831003855 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 272831003856 putative allosteric regulatory site; other site 272831003857 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 272831003858 ribonuclease PH; Reviewed; Region: rph; PRK00173 272831003859 Ribonuclease PH; Region: RNase_PH_bact; cd11362 272831003860 hexamer interface [polypeptide binding]; other site 272831003861 active site 272831003862 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 272831003863 Ligand Binding Site [chemical binding]; other site 272831003864 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 272831003865 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 272831003866 putative ATP binding site [chemical binding]; other site 272831003867 putative substrate interface [chemical binding]; other site 272831003868 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 272831003869 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 272831003870 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 272831003871 active site 272831003872 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 272831003873 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 272831003874 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272831003875 active site 272831003876 HIGH motif; other site 272831003877 KMSK motif region; other site 272831003878 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 272831003879 tRNA binding surface [nucleotide binding]; other site 272831003880 anticodon binding site; other site 272831003881 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 272831003882 Sulfatase; Region: Sulfatase; cl17466 272831003883 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831003884 dimer interface [polypeptide binding]; other site 272831003885 conserved gate region; other site 272831003886 putative PBP binding loops; other site 272831003887 ABC-ATPase subunit interface; other site 272831003888 Staphylococcal nuclease homologues; Region: SNc; smart00318 272831003889 Catalytic site; other site 272831003890 Staphylococcal nuclease homologue; Region: SNase; pfam00565 272831003891 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 272831003892 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272831003893 active site 272831003894 dimer interface [polypeptide binding]; other site 272831003895 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 272831003896 homotrimer interaction site [polypeptide binding]; other site 272831003897 zinc binding site [ion binding]; other site 272831003898 CDP-binding sites; other site 272831003899 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 272831003900 substrate binding site; other site 272831003901 dimer interface; other site 272831003902 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 272831003903 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 272831003904 active site 272831003905 catalytic site [active] 272831003906 substrate binding site [chemical binding]; other site 272831003907 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272831003908 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 272831003909 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 272831003910 propionate/acetate kinase; Provisional; Region: PRK12379 272831003911 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 272831003912 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 272831003913 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 272831003914 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 272831003915 DsbD alpha interface [polypeptide binding]; other site 272831003916 catalytic residues [active] 272831003917 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 272831003918 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 272831003919 active site lid residues [active] 272831003920 substrate binding pocket [chemical binding]; other site 272831003921 catalytic residues [active] 272831003922 substrate-Mg2+ binding site; other site 272831003923 aspartate-rich region 1; other site 272831003924 aspartate-rich region 2; other site 272831003925 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 272831003926 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 272831003927 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272831003928 FAD binding domain; Region: FAD_binding_4; pfam01565 272831003929 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 272831003930 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 272831003931 Autotransporter beta-domain; Region: Autotransporter; pfam03797 272831003932 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 272831003933 SmpB-tmRNA interface; other site 272831003934 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 272831003935 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 272831003936 putative active site [active] 272831003937 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 272831003938 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 272831003939 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 272831003940 DNA binding site [nucleotide binding] 272831003941 active site 272831003942 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 272831003943 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 272831003944 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 272831003945 metal binding site [ion binding]; metal-binding site 272831003946 dimer interface [polypeptide binding]; other site 272831003947 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 272831003948 Hemerythrin-like domain; Region: Hr-like; cd12108 272831003949 Fe binding site [ion binding]; other site 272831003950 Azurin [Energy production and conversion]; Region: COG3241 272831003951 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 272831003952 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 272831003953 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 272831003954 SEC-C motif; Region: SEC-C; pfam02810 272831003955 DNA primase; Validated; Region: dnaG; PRK05667 272831003956 CHC2 zinc finger; Region: zf-CHC2; pfam01807 272831003957 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272831003958 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 272831003959 active site 272831003960 metal binding site [ion binding]; metal-binding site 272831003961 interdomain interaction site; other site 272831003962 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 272831003963 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 272831003964 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 272831003965 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 272831003966 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272831003967 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 272831003968 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272831003969 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272831003970 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 272831003971 DNA binding residues [nucleotide binding] 272831003972 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 272831003973 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 272831003974 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 272831003975 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 272831003976 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 272831003977 Transposase domain (DUF772); Region: DUF772; pfam05598 272831003978 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831003979 CTP synthetase; Validated; Region: pyrG; PRK05380 272831003980 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 272831003981 Catalytic site [active] 272831003982 active site 272831003983 UTP binding site [chemical binding]; other site 272831003984 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 272831003985 active site 272831003986 putative oxyanion hole; other site 272831003987 catalytic triad [active] 272831003988 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 272831003989 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 272831003990 acyl-activating enzyme (AAE) consensus motif; other site 272831003991 putative AMP binding site [chemical binding]; other site 272831003992 putative active site [active] 272831003993 putative CoA binding site [chemical binding]; other site 272831003994 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 272831003995 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 272831003996 Ligand Binding Site [chemical binding]; other site 272831003997 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 272831003998 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 272831003999 glutathione synthetase; Provisional; Region: PRK05246 272831004000 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 272831004001 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 272831004002 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 272831004003 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272831004004 active site 272831004005 HIGH motif; other site 272831004006 nucleotide binding site [chemical binding]; other site 272831004007 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 272831004008 KMSKS motif; other site 272831004009 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 272831004010 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272831004011 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 272831004012 putative DNA binding site [nucleotide binding]; other site 272831004013 putative Zn2+ binding site [ion binding]; other site 272831004014 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 272831004015 Predicted membrane protein [Function unknown]; Region: COG2431 272831004016 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272831004017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272831004018 DNA-binding site [nucleotide binding]; DNA binding site 272831004019 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 272831004020 OsmC-like protein; Region: OsmC; cl00767 272831004021 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 272831004022 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 272831004023 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 272831004024 active site 272831004025 substrate binding site [chemical binding]; other site 272831004026 cosubstrate binding site; other site 272831004027 catalytic site [active] 272831004028 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 272831004029 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 272831004030 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 272831004031 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 272831004032 multifunctional aminopeptidase A; Provisional; Region: PRK00913 272831004033 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 272831004034 interface (dimer of trimers) [polypeptide binding]; other site 272831004035 Substrate-binding/catalytic site; other site 272831004036 Zn-binding sites [ion binding]; other site 272831004037 Predicted permeases [General function prediction only]; Region: COG0795 272831004038 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 272831004039 Predicted permeases [General function prediction only]; Region: COG0795 272831004040 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 272831004041 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 272831004042 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 272831004043 substrate binding site [chemical binding]; other site 272831004044 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 272831004045 substrate binding site [chemical binding]; other site 272831004046 ligand binding site [chemical binding]; other site 272831004047 ornithine carbamoyltransferase; Validated; Region: PRK02102 272831004048 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272831004049 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 272831004050 ketol-acid reductoisomerase; Provisional; Region: PRK05479 272831004051 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 272831004052 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 272831004053 Uncharacterized conserved protein [Function unknown]; Region: COG1359 272831004054 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 272831004055 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 272831004056 putative valine binding site [chemical binding]; other site 272831004057 dimer interface [polypeptide binding]; other site 272831004058 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 272831004059 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 272831004060 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272831004061 PYR/PP interface [polypeptide binding]; other site 272831004062 dimer interface [polypeptide binding]; other site 272831004063 TPP binding site [chemical binding]; other site 272831004064 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 272831004065 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 272831004066 TPP-binding site [chemical binding]; other site 272831004067 dimer interface [polypeptide binding]; other site 272831004068 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 272831004069 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 272831004070 Cu(I) binding site [ion binding]; other site 272831004071 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 272831004072 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 272831004073 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 272831004074 GIY-YIG motif/motif A; other site 272831004075 putative active site [active] 272831004076 putative metal binding site [ion binding]; other site 272831004077 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 272831004078 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 272831004079 NAD binding site [chemical binding]; other site 272831004080 dimerization interface [polypeptide binding]; other site 272831004081 product binding site; other site 272831004082 substrate binding site [chemical binding]; other site 272831004083 zinc binding site [ion binding]; other site 272831004084 catalytic residues [active] 272831004085 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 272831004086 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 272831004087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831004088 homodimer interface [polypeptide binding]; other site 272831004089 catalytic residue [active] 272831004090 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 272831004091 putative active site pocket [active] 272831004092 4-fold oligomerization interface [polypeptide binding]; other site 272831004093 metal binding residues [ion binding]; metal-binding site 272831004094 3-fold/trimer interface [polypeptide binding]; other site 272831004095 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 272831004096 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 272831004097 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272831004098 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 272831004099 Transposase domain (DUF772); Region: DUF772; pfam05598 272831004100 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831004101 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 272831004102 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 272831004103 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 272831004104 putative inner membrane peptidase; Provisional; Region: PRK11778 272831004105 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 272831004106 tandem repeat interface [polypeptide binding]; other site 272831004107 oligomer interface [polypeptide binding]; other site 272831004108 active site residues [active] 272831004109 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272831004110 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 272831004111 Cupin; Region: Cupin_6; pfam12852 272831004112 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272831004113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272831004114 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 272831004115 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 272831004116 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272831004117 EamA-like transporter family; Region: EamA; pfam00892 272831004118 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272831004119 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272831004120 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 272831004121 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 272831004122 motif 1; other site 272831004123 active site 272831004124 motif 2; other site 272831004125 motif 3; other site 272831004126 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 272831004127 DHHA1 domain; Region: DHHA1; pfam02272 272831004128 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 272831004129 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831004130 cofactor binding site; other site 272831004131 DNA binding site [nucleotide binding] 272831004132 substrate interaction site [chemical binding]; other site 272831004133 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 272831004134 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 272831004135 gating phenylalanine in ion channel; other site 272831004136 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272831004137 catalytic core [active] 272831004138 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272831004139 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 272831004140 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 272831004141 CAP-like domain; other site 272831004142 active site 272831004143 primary dimer interface [polypeptide binding]; other site 272831004144 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 272831004145 dimer interface [polypeptide binding]; other site 272831004146 phosphorylation site [posttranslational modification] 272831004147 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 272831004148 Mg2+ binding site [ion binding]; other site 272831004149 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 272831004150 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 272831004151 active site 272831004152 phosphorylation site [posttranslational modification] 272831004153 intermolecular recognition site; other site 272831004154 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272831004155 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 272831004156 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 272831004157 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 272831004158 homodimer interface [polypeptide binding]; other site 272831004159 substrate-cofactor binding pocket; other site 272831004160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831004161 catalytic residue [active] 272831004162 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 272831004163 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272831004164 substrate binding pocket [chemical binding]; other site 272831004165 membrane-bound complex binding site; other site 272831004166 hinge residues; other site 272831004167 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 272831004168 Fumarase C-terminus; Region: Fumerase_C; pfam05683 272831004169 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 272831004170 TrkA-N domain; Region: TrkA_N; pfam02254 272831004171 TrkA-C domain; Region: TrkA_C; pfam02080 272831004172 TrkA-N domain; Region: TrkA_N; pfam02254 272831004173 TrkA-C domain; Region: TrkA_C; pfam02080 272831004174 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831004175 Homeodomain-like domain; Region: HTH_32; pfam13565 272831004176 Integrase core domain; Region: rve; pfam00665 272831004177 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 272831004178 dimer interface [polypeptide binding]; other site 272831004179 substrate binding site [chemical binding]; other site 272831004180 ATP binding site [chemical binding]; other site 272831004181 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 272831004182 RNA/DNA hybrid binding site [nucleotide binding]; other site 272831004183 active site 272831004184 HIT domain; Region: HIT; pfam01230 272831004185 HIT family signature motif; other site 272831004186 catalytic residue [active] 272831004187 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 272831004188 dimer interface [polypeptide binding]; other site 272831004189 catalytic triad [active] 272831004190 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 272831004191 catalytic residues [active] 272831004192 dimer interface [polypeptide binding]; other site 272831004193 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 272831004194 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 272831004195 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 272831004196 Multicopper oxidase; Region: Cu-oxidase; pfam00394 272831004197 Uncharacterized conserved protein [Function unknown]; Region: COG1262 272831004198 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 272831004199 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 272831004200 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 272831004201 putative FMN binding site [chemical binding]; other site 272831004202 putative metal dependent hydrolase; Provisional; Region: PRK11598 272831004203 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 272831004204 Sulfatase; Region: Sulfatase; pfam00884 272831004205 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 272831004206 homodimer interface [polypeptide binding]; other site 272831004207 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272831004208 substrate-cofactor binding pocket; other site 272831004209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831004210 catalytic residue [active] 272831004211 ribosome maturation protein RimP; Reviewed; Region: PRK00092 272831004212 Sm and related proteins; Region: Sm_like; cl00259 272831004213 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 272831004214 putative oligomer interface [polypeptide binding]; other site 272831004215 putative RNA binding site [nucleotide binding]; other site 272831004216 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 272831004217 NusA N-terminal domain; Region: NusA_N; pfam08529 272831004218 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 272831004219 RNA binding site [nucleotide binding]; other site 272831004220 homodimer interface [polypeptide binding]; other site 272831004221 NusA-like KH domain; Region: KH_5; pfam13184 272831004222 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 272831004223 G-X-X-G motif; other site 272831004224 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 272831004225 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 272831004226 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272831004227 translation initiation factor IF-2; Region: IF-2; TIGR00487 272831004228 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272831004229 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 272831004230 G1 box; other site 272831004231 putative GEF interaction site [polypeptide binding]; other site 272831004232 GTP/Mg2+ binding site [chemical binding]; other site 272831004233 Switch I region; other site 272831004234 G2 box; other site 272831004235 G3 box; other site 272831004236 Switch II region; other site 272831004237 G4 box; other site 272831004238 G5 box; other site 272831004239 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 272831004240 Translation-initiation factor 2; Region: IF-2; pfam11987 272831004241 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 272831004242 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 272831004243 G1 box; other site 272831004244 GTP/Mg2+ binding site [chemical binding]; other site 272831004245 G2 box; other site 272831004246 Switch I region; other site 272831004247 G3 box; other site 272831004248 Switch II region; other site 272831004249 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 272831004250 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 272831004251 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 272831004252 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 272831004253 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 272831004254 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272831004255 hypothetical protein; Validated; Region: PRK00110 272831004256 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 272831004257 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272831004258 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 272831004259 putative DNA binding site [nucleotide binding]; other site 272831004260 putative Zn2+ binding site [ion binding]; other site 272831004261 AsnC family; Region: AsnC_trans_reg; pfam01037 272831004262 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 272831004263 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 272831004264 active site 272831004265 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272831004266 substrate binding site [chemical binding]; other site 272831004267 catalytic residues [active] 272831004268 dimer interface [polypeptide binding]; other site 272831004269 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 272831004270 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 272831004271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 272831004272 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 272831004273 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 272831004274 S-adenosylmethionine binding site [chemical binding]; other site 272831004275 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 272831004276 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 272831004277 comEA protein; Region: comE; TIGR01259 272831004278 Helix-hairpin-helix motif; Region: HHH; pfam00633 272831004279 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 272831004280 Flavoprotein; Region: Flavoprotein; pfam02441 272831004281 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 272831004282 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 272831004283 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272831004284 Zn2+ binding site [ion binding]; other site 272831004285 Mg2+ binding site [ion binding]; other site 272831004286 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272831004287 synthetase active site [active] 272831004288 NTP binding site [chemical binding]; other site 272831004289 metal binding site [ion binding]; metal-binding site 272831004290 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 272831004291 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 272831004292 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 272831004293 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 272831004294 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 272831004295 catalytic site [active] 272831004296 G-X2-G-X-G-K; other site 272831004297 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272831004298 active site 272831004299 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 272831004300 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 272831004301 active site 272831004302 motif I; other site 272831004303 motif II; other site 272831004304 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 272831004305 motif II; other site 272831004306 putative protease; Provisional; Region: PRK15452 272831004307 Peptidase family U32; Region: Peptidase_U32; pfam01136 272831004308 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 272831004309 putative active site [active] 272831004310 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 272831004311 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 272831004312 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272831004313 N-terminal plug; other site 272831004314 ligand-binding site [chemical binding]; other site 272831004315 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 272831004316 heme binding pocket [chemical binding]; other site 272831004317 heme ligand [chemical binding]; other site 272831004318 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 272831004319 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 272831004320 Paraquat-inducible protein A; Region: PqiA; pfam04403 272831004321 Paraquat-inducible protein A; Region: PqiA; pfam04403 272831004322 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 272831004323 mce related protein; Region: MCE; pfam02470 272831004324 mce related protein; Region: MCE; pfam02470 272831004325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 272831004326 Protein of unknown function (DUF330); Region: DUF330; pfam03886 272831004327 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 272831004328 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 272831004329 active site 272831004330 catalytic triad [active] 272831004331 oxyanion hole [active] 272831004332 switch loop; other site 272831004333 glycine dehydrogenase; Provisional; Region: PRK05367 272831004334 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 272831004335 tetramer interface [polypeptide binding]; other site 272831004336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831004337 catalytic residue [active] 272831004338 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 272831004339 tetramer interface [polypeptide binding]; other site 272831004340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831004341 catalytic residue [active] 272831004342 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 272831004343 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 272831004344 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 272831004345 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 272831004346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831004347 homodimer interface [polypeptide binding]; other site 272831004348 catalytic residue [active] 272831004349 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 272831004350 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 272831004351 S-adenosylmethionine binding site [chemical binding]; other site 272831004352 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 272831004353 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 272831004354 Tetramer interface [polypeptide binding]; other site 272831004355 active site 272831004356 FMN-binding site [chemical binding]; other site 272831004357 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 272831004358 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 272831004359 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 272831004360 ATP binding site [chemical binding]; other site 272831004361 Mg2+ binding site [ion binding]; other site 272831004362 G-X-G motif; other site 272831004363 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 272831004364 anchoring element; other site 272831004365 dimer interface [polypeptide binding]; other site 272831004366 ATP binding site [chemical binding]; other site 272831004367 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 272831004368 active site 272831004369 metal binding site [ion binding]; metal-binding site 272831004370 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272831004371 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 272831004372 putative active site [active] 272831004373 Ap4A binding site [chemical binding]; other site 272831004374 nudix motif; other site 272831004375 putative metal binding site [ion binding]; other site 272831004376 seryl-tRNA synthetase; Provisional; Region: PRK05431 272831004377 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 272831004378 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 272831004379 dimer interface [polypeptide binding]; other site 272831004380 active site 272831004381 motif 1; other site 272831004382 motif 2; other site 272831004383 motif 3; other site 272831004384 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272831004385 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 272831004386 putative ligand binding site [chemical binding]; other site 272831004387 putative NAD binding site [chemical binding]; other site 272831004388 catalytic site [active] 272831004389 peptide chain release factor 1; Validated; Region: prfA; PRK00591 272831004390 This domain is found in peptide chain release factors; Region: PCRF; smart00937 272831004391 RF-1 domain; Region: RF-1; pfam00472 272831004392 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272831004393 active site 272831004394 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 272831004395 active site 272831004396 homodimer interface [polypeptide binding]; other site 272831004397 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 272831004398 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 272831004399 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 272831004400 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 272831004401 active site 272831004402 substrate binding site [chemical binding]; other site 272831004403 metal binding site [ion binding]; metal-binding site 272831004404 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 272831004405 dihydropteroate synthase; Region: DHPS; TIGR01496 272831004406 substrate binding pocket [chemical binding]; other site 272831004407 dimer interface [polypeptide binding]; other site 272831004408 inhibitor binding site; inhibition site 272831004409 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 272831004410 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 272831004411 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 272831004412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 272831004413 Predicted membrane protein [Function unknown]; Region: COG4648 272831004414 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 272831004415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 272831004416 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 272831004417 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 272831004418 dimer interface [polypeptide binding]; other site 272831004419 active site 272831004420 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272831004421 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 272831004422 putative metal binding site; other site 272831004423 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272831004424 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 272831004425 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 272831004426 Na2 binding site [ion binding]; other site 272831004427 putative substrate binding site 1 [chemical binding]; other site 272831004428 Na binding site 1 [ion binding]; other site 272831004429 putative substrate binding site 2 [chemical binding]; other site 272831004430 ApbE family; Region: ApbE; pfam02424 272831004431 thymidylate synthase; Reviewed; Region: thyA; PRK01827 272831004432 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 272831004433 dimerization interface [polypeptide binding]; other site 272831004434 active site 272831004435 glutamate dehydrogenase; Provisional; Region: PRK09414 272831004436 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272831004437 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 272831004438 NAD(P) binding site [chemical binding]; other site 272831004439 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272831004440 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272831004441 DNA-binding site [nucleotide binding]; DNA binding site 272831004442 FCD domain; Region: FCD; pfam07729 272831004443 L-lactate permease; Region: Lactate_perm; cl00701 272831004444 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 272831004445 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 272831004446 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272831004447 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272831004448 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272831004449 HlyD family secretion protein; Region: HlyD_3; pfam13437 272831004450 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 272831004451 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272831004452 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 272831004453 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 272831004454 AbgT putative transporter family; Region: ABG_transport; pfam03806 272831004455 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 272831004456 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 272831004457 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272831004458 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 272831004459 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 272831004460 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 272831004461 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 272831004462 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 272831004463 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 272831004464 Low-spin heme binding site [chemical binding]; other site 272831004465 Putative water exit pathway; other site 272831004466 Binuclear center (active site) [active] 272831004467 Putative proton exit pathway; other site 272831004468 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 272831004469 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 272831004470 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 272831004471 protein binding site [polypeptide binding]; other site 272831004472 TIGR01244 family protein; Region: TIGR01244 272831004473 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 272831004474 TolR protein; Region: tolR; TIGR02801 272831004475 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 272831004476 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 272831004477 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 272831004478 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_1; cd06158 272831004479 Peptidase family M50; Region: Peptidase_M50; pfam02163 272831004480 active site 272831004481 putative substrate binding region [chemical binding]; other site 272831004482 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 272831004483 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 272831004484 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 272831004485 C-terminal domain interface [polypeptide binding]; other site 272831004486 GSH binding site (G-site) [chemical binding]; other site 272831004487 catalytic residues [active] 272831004488 putative dimer interface [polypeptide binding]; other site 272831004489 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 272831004490 N-terminal domain interface [polypeptide binding]; other site 272831004491 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 272831004492 HD domain; Region: HD_4; pfam13328 272831004493 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272831004494 synthetase active site [active] 272831004495 NTP binding site [chemical binding]; other site 272831004496 metal binding site [ion binding]; metal-binding site 272831004497 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 272831004498 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 272831004499 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 272831004500 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272831004501 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272831004502 HlyD family secretion protein; Region: HlyD_3; pfam13437 272831004503 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 272831004504 Replication initiation factor; Region: Rep_trans; pfam02486 272831004505 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 272831004506 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 272831004507 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 272831004508 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 272831004509 G1 box; other site 272831004510 GTP/Mg2+ binding site [chemical binding]; other site 272831004511 G2 box; other site 272831004512 Switch I region; other site 272831004513 G3 box; other site 272831004514 Switch II region; other site 272831004515 G4 box; other site 272831004516 G5 box; other site 272831004517 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272831004518 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 272831004519 active site 272831004520 phosphorylation site [posttranslational modification] 272831004521 intermolecular recognition site; other site 272831004522 dimerization interface [polypeptide binding]; other site 272831004523 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 272831004524 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 272831004525 S-adenosylmethionine binding site [chemical binding]; other site 272831004526 Protein of unknown function (DUF452); Region: DUF452; pfam04301 272831004527 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 272831004528 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 272831004529 substrate-cofactor binding pocket; other site 272831004530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831004531 catalytic residue [active] 272831004532 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272831004533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272831004534 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 272831004535 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; cd00625 272831004536 transmembrane helices; other site 272831004537 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 272831004538 agmatinase; Region: agmatinase; TIGR01230 272831004539 oligomer interface [polypeptide binding]; other site 272831004540 putative active site [active] 272831004541 Mn binding site [ion binding]; other site 272831004542 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 272831004543 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 272831004544 dimer interface [polypeptide binding]; other site 272831004545 active site 272831004546 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272831004547 catalytic residues [active] 272831004548 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 272831004549 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 272831004550 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 272831004551 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 272831004552 dimer interface [polypeptide binding]; other site 272831004553 anticodon binding site; other site 272831004554 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 272831004555 homodimer interface [polypeptide binding]; other site 272831004556 motif 1; other site 272831004557 active site 272831004558 motif 2; other site 272831004559 GAD domain; Region: GAD; pfam02938 272831004560 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 272831004561 motif 3; other site 272831004562 Uncharacterized conserved protein [Function unknown]; Region: COG2928 272831004563 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 272831004564 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272831004565 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272831004566 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 272831004567 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 272831004568 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272831004569 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 272831004570 glutamate racemase; Provisional; Region: PRK00865 272831004571 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 272831004572 AMIN domain; Region: AMIN; pfam11741 272831004573 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272831004574 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 272831004575 active site 272831004576 metal binding site [ion binding]; metal-binding site 272831004577 Fic family protein [Function unknown]; Region: COG3177 272831004578 Fic/DOC family; Region: Fic; pfam02661 272831004579 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 272831004580 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 272831004581 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272831004582 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 272831004583 active site 272831004584 8-oxo-dGMP binding site [chemical binding]; other site 272831004585 nudix motif; other site 272831004586 metal binding site [ion binding]; metal-binding site 272831004587 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 272831004588 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 272831004589 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272831004590 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 272831004591 active site 272831004592 iron coordination sites [ion binding]; other site 272831004593 substrate binding pocket [chemical binding]; other site 272831004594 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 272831004595 active site 272831004596 hydrophilic channel; other site 272831004597 dimerization interface [polypeptide binding]; other site 272831004598 catalytic residues [active] 272831004599 active site lid [active] 272831004600 Recombination protein O N terminal; Region: RecO_N; pfam11967 272831004601 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 272831004602 Recombination protein O C terminal; Region: RecO_C; pfam02565 272831004603 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 272831004604 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 272831004605 Prephenate dehydratase; Region: PDT; pfam00800 272831004606 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 272831004607 putative L-Phe binding site [chemical binding]; other site 272831004608 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 272831004609 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 272831004610 putative substrate translocation pore; other site 272831004611 EamA-like transporter family; Region: EamA; pfam00892 272831004612 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272831004613 EamA-like transporter family; Region: EamA; pfam00892 272831004614 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 272831004615 Replication initiation factor; Region: Rep_trans; pfam02486 272831004616 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 272831004617 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 272831004618 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 272831004619 Zonular occludens toxin (Zot); Region: Zot; cl17485 272831004620 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272831004621 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272831004622 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272831004623 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 272831004624 Predicted amidohydrolase [General function prediction only]; Region: COG0388 272831004625 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 272831004626 putative active site [active] 272831004627 catalytic triad [active] 272831004628 dimer interface [polypeptide binding]; other site 272831004629 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 272831004630 prephenate dehydrogenase; Validated; Region: PRK08507 272831004631 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 272831004632 Transcriptional regulator; Region: Rrf2; cl17282 272831004633 Rrf2 family protein; Region: rrf2_super; TIGR00738 272831004634 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 272831004635 propionate/acetate kinase; Provisional; Region: PRK12379 272831004636 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 272831004637 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 272831004638 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 272831004639 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 272831004640 substrate binding site [chemical binding]; other site 272831004641 ligand binding site [chemical binding]; other site 272831004642 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 272831004643 substrate binding site [chemical binding]; other site 272831004644 Protein of unknown function (DUF819); Region: DUF819; cl02317 272831004645 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 272831004646 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 272831004647 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 272831004648 dimer interface [polypeptide binding]; other site 272831004649 active site 272831004650 citrylCoA binding site [chemical binding]; other site 272831004651 oxalacetate/citrate binding site [chemical binding]; other site 272831004652 coenzyme A binding site [chemical binding]; other site 272831004653 catalytic triad [active] 272831004654 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 272831004655 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 272831004656 tetramer interface [polypeptide binding]; other site 272831004657 active site 272831004658 Mg2+/Mn2+ binding site [ion binding]; other site 272831004659 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 272831004660 cell division protein FtsZ; Validated; Region: PRK09330 272831004661 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 272831004662 nucleotide binding site [chemical binding]; other site 272831004663 SulA interaction site; other site 272831004664 cell division protein FtsA; Region: ftsA; TIGR01174 272831004665 Cell division protein FtsA; Region: FtsA; smart00842 272831004666 Cell division protein FtsA; Region: FtsA; pfam14450 272831004667 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 272831004668 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 272831004669 Cell division protein FtsQ; Region: FtsQ; pfam03799 272831004670 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 272831004671 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 272831004672 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272831004673 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 272831004674 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272831004675 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272831004676 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272831004677 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 272831004678 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 272831004679 active site 272831004680 homodimer interface [polypeptide binding]; other site 272831004681 cell division protein FtsW; Region: ftsW; TIGR02614 272831004682 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 272831004683 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272831004684 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272831004685 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272831004686 Sel1-like repeats; Region: SEL1; smart00671 272831004687 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 272831004688 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 272831004689 Mg++ binding site [ion binding]; other site 272831004690 putative catalytic motif [active] 272831004691 putative substrate binding site [chemical binding]; other site 272831004692 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 272831004693 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272831004694 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 272831004695 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272831004696 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272831004697 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 272831004698 Sulfatase; Region: Sulfatase; pfam00884 272831004699 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 272831004700 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272831004701 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272831004702 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272831004703 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272831004704 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272831004705 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272831004706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 272831004707 MraW methylase family; Region: Methyltransf_5; cl17771 272831004708 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 272831004709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 272831004710 MraZ protein; Region: MraZ; pfam02381 272831004711 MraZ protein; Region: MraZ; pfam02381 272831004712 Uncharacterized conserved protein [Function unknown]; Region: COG1565 272831004713 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 272831004714 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 272831004715 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 272831004716 catalytic residues [active] 272831004717 hinge region; other site 272831004718 alpha helical domain; other site 272831004719 cell division protein FtsN; Region: ftsN; TIGR02223 272831004720 Sporulation related domain; Region: SPOR; pfam05036 272831004721 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 272831004722 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 272831004723 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 272831004724 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 272831004725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 272831004726 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 272831004727 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272831004728 Na binding site [ion binding]; other site 272831004729 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 272831004730 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 272831004731 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 272831004732 Glutamate binding site [chemical binding]; other site 272831004733 NAD binding site [chemical binding]; other site 272831004734 catalytic residues [active] 272831004735 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272831004736 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272831004737 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 272831004738 putative catalytic site [active] 272831004739 putative phosphate binding site [ion binding]; other site 272831004740 active site 272831004741 metal binding site A [ion binding]; metal-binding site 272831004742 DNA binding site [nucleotide binding] 272831004743 putative AP binding site [nucleotide binding]; other site 272831004744 putative metal binding site B [ion binding]; other site 272831004745 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 272831004746 dimerization interface [polypeptide binding]; other site 272831004747 putative DNA binding site [nucleotide binding]; other site 272831004748 putative Zn2+ binding site [ion binding]; other site 272831004749 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 272831004750 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 272831004751 dimerization interface [polypeptide binding]; other site 272831004752 active site 272831004753 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 272831004754 quinolinate synthetase; Provisional; Region: PRK09375 272831004755 L-aspartate oxidase; Provisional; Region: PRK06175 272831004756 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 272831004757 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 272831004758 Transposase domain (DUF772); Region: DUF772; pfam05598 272831004759 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 272831004760 DDE superfamily endonuclease; Region: DDE_4; cl17710 272831004761 beta-phosphoglucomutase; Region: bPGM; TIGR01990 272831004762 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 272831004763 motif II; other site 272831004764 maltose phosphorylase; Provisional; Region: PRK13807 272831004765 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 272831004766 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 272831004767 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 272831004768 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 272831004769 active site 272831004770 catalytic residues [active] 272831004771 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 272831004772 putative substrate translocation pore; other site 272831004773 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272831004774 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 272831004775 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272831004776 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272831004777 ABC transporter; Region: ABC_tran_2; pfam12848 272831004778 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272831004779 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 272831004780 tetramer interfaces [polypeptide binding]; other site 272831004781 binuclear metal-binding site [ion binding]; other site 272831004782 thiamine-monophosphate kinase; Region: thiL; TIGR01379 272831004783 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 272831004784 ATP binding site [chemical binding]; other site 272831004785 dimerization interface [polypeptide binding]; other site 272831004786 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 272831004787 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272831004788 ligand binding site [chemical binding]; other site 272831004789 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 272831004790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272831004791 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 272831004792 substrate binding site [chemical binding]; other site 272831004793 dimerization interface [polypeptide binding]; other site 272831004794 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272831004795 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 272831004796 ligand binding site [chemical binding]; other site 272831004797 flexible hinge region; other site 272831004798 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 272831004799 putative switch regulator; other site 272831004800 non-specific DNA interactions [nucleotide binding]; other site 272831004801 DNA binding site [nucleotide binding] 272831004802 sequence specific DNA binding site [nucleotide binding]; other site 272831004803 putative cAMP binding site [chemical binding]; other site 272831004804 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 272831004805 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 272831004806 FeS/SAM binding site; other site 272831004807 HemN C-terminal domain; Region: HemN_C; pfam06969 272831004808 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 272831004809 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 272831004810 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 272831004812 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 272831004813 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 protein; Region: Hint; cd00081 272831004814 protein-splicing catalytic site; other site 272831004815 thioester formation/cholesterol transfer; other site 272831004816 Pretoxin HINT domain; Region: PT-HINT; pfam07591 272831004817 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 272831004818 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 272831004819 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 272831004820 active site 272831004821 Pretoxin HINT domain; Region: PT-HINT; pfam07591 272831004822 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 protein; Region: Hint; cd00081 272831004823 thioester formation/cholesterol transfer; other site 272831004824 protein-splicing catalytic site; other site 272831004825 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 272831004826 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 272831004827 GIY-YIG motif/motif A; other site 272831004828 putative active site [active] 272831004829 putative metal binding site [ion binding]; other site 272831004830 muropeptide transporter; Reviewed; Region: ampG; PRK11902 272831004831 AmpG-like permease; Region: 2A0125; TIGR00901 272831004832 glutamine synthetase; Provisional; Region: glnA; PRK09469 272831004833 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 272831004834 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272831004835 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 272831004836 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 272831004837 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 272831004838 shikimate binding site; other site 272831004839 NAD(P) binding site [chemical binding]; other site 272831004840 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 272831004841 Transglycosylase; Region: Transgly; cl17702 272831004842 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 272831004843 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 272831004844 Walker A/P-loop; other site 272831004845 ATP binding site [chemical binding]; other site 272831004846 Q-loop/lid; other site 272831004847 ABC transporter signature motif; other site 272831004848 Walker B; other site 272831004849 D-loop; other site 272831004850 H-loop/switch region; other site 272831004851 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 272831004852 OstA-like protein; Region: OstA; pfam03968 272831004853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 272831004854 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 272831004855 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 272831004856 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 272831004857 active site 272831004858 motif I; other site 272831004859 motif II; other site 272831004860 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 272831004861 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 272831004862 putative active site [active] 272831004863 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 272831004864 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 272831004865 putative active site [active] 272831004866 transaldolase; Provisional; Region: PRK03903 272831004867 catalytic residue [active] 272831004868 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 272831004869 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 272831004870 active site 272831004871 HIGH motif; other site 272831004872 nucleotide binding site [chemical binding]; other site 272831004873 active site 272831004874 KMSKS motif; other site 272831004875 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 272831004876 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 272831004877 FMN binding site [chemical binding]; other site 272831004878 active site 272831004879 catalytic residues [active] 272831004880 substrate binding site [chemical binding]; other site 272831004881 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 272831004882 putative active site [active] 272831004883 dimerization interface [polypeptide binding]; other site 272831004884 putative tRNAtyr binding site [nucleotide binding]; other site 272831004885 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 272831004886 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 272831004887 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 272831004888 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 272831004889 YciI-like protein; Reviewed; Region: PRK11370 272831004890 intracellular septation protein A; Reviewed; Region: PRK00259 272831004891 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 272831004892 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272831004893 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 272831004894 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272831004895 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 272831004896 dimer interface [polypeptide binding]; other site 272831004897 active site 272831004898 metal binding site [ion binding]; metal-binding site 272831004899 glutathione binding site [chemical binding]; other site 272831004900 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 272831004901 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 272831004902 TPR motif; other site 272831004903 binding surface 272831004904 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 272831004905 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 272831004906 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 272831004907 homodimer interface [polypeptide binding]; other site 272831004908 substrate-cofactor binding pocket; other site 272831004909 catalytic residue [active] 272831004910 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 272831004911 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 272831004912 NAD binding site [chemical binding]; other site 272831004913 homotetramer interface [polypeptide binding]; other site 272831004914 homodimer interface [polypeptide binding]; other site 272831004915 substrate binding site [chemical binding]; other site 272831004916 active site 272831004917 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 272831004918 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 272831004919 trimer interface [polypeptide binding]; other site 272831004920 active site 272831004921 substrate binding site [chemical binding]; other site 272831004922 CoA binding site [chemical binding]; other site 272831004923 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 272831004924 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 272831004925 active site 272831004926 dimer interface [polypeptide binding]; other site 272831004927 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 272831004928 dimer interface [polypeptide binding]; other site 272831004929 active site 272831004930 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 272831004931 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 272831004932 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 272831004933 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 272831004934 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 272831004935 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 272831004936 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 272831004937 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 272831004938 CoA-binding site [chemical binding]; other site 272831004939 ATP-binding [chemical binding]; other site 272831004940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 272831004941 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 272831004942 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 272831004943 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 272831004944 Walker A motif; other site 272831004945 ATP binding site [chemical binding]; other site 272831004946 Walker B motif; other site 272831004947 Predicted membrane protein [Function unknown]; Region: COG2707 272831004948 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 272831004949 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272831004950 substrate binding pocket [chemical binding]; other site 272831004951 chain length determination region; other site 272831004952 substrate-Mg2+ binding site; other site 272831004953 catalytic residues [active] 272831004954 aspartate-rich region 1; other site 272831004955 active site lid residues [active] 272831004956 aspartate-rich region 2; other site 272831004957 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 272831004958 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 272831004959 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 272831004960 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 272831004961 hypothetical protein; Provisional; Region: PRK09126 272831004962 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 272831004963 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 272831004964 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272831004965 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 272831004966 putative substrate translocation pore; other site 272831004967 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 272831004968 HlyD family secretion protein; Region: HlyD_3; pfam13437 272831004969 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 272831004970 hypothetical protein; Provisional; Region: PRK11212 272831004971 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 272831004972 Peptidase family M23; Region: Peptidase_M23; pfam01551 272831004973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 272831004974 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 272831004975 binding surface 272831004976 Tetratricopeptide repeat; Region: TPR_16; pfam13432 272831004977 TPR motif; other site 272831004978 Protein of unknown function (DUF560); Region: DUF560; pfam04575 272831004979 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 272831004980 Replication initiation factor; Region: Rep_trans; pfam02486 272831004981 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 272831004982 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 272831004983 Zonular occludens toxin (Zot); Region: Zot; cl17485 272831004984 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272831004985 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272831004986 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272831004987 Predicted membrane protein [Function unknown]; Region: COG1981 272831004988 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 272831004989 putative active site [active] 272831004990 putative metal binding residues [ion binding]; other site 272831004991 signature motif; other site 272831004992 putative dimer interface [polypeptide binding]; other site 272831004993 putative phosphate binding site [ion binding]; other site 272831004994 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 272831004995 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 272831004996 folate binding site [chemical binding]; other site 272831004997 NADP+ binding site [chemical binding]; other site 272831004998 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 272831004999 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 272831005000 Outer membrane protein OpcA; Region: OpcA; pfam07239 272831005001 comEA protein; Region: comE; TIGR01259 272831005002 Helix-hairpin-helix motif; Region: HHH; pfam00633 272831005003 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 272831005004 signal recognition particle protein; Provisional; Region: PRK10867 272831005005 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 272831005006 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 272831005007 P loop; other site 272831005008 GTP binding site [chemical binding]; other site 272831005009 Signal peptide binding domain; Region: SRP_SPB; pfam02978 272831005010 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831005011 Helix-turn-helix domain; Region: HTH_38; pfam13936 272831005012 Homeodomain-like domain; Region: HTH_32; pfam13565 272831005013 Integrase core domain; Region: rve; pfam00665 272831005014 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 272831005015 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272831005016 catalytic residues [active] 272831005017 hinge region; other site 272831005018 alpha helical domain; other site 272831005019 Uncharacterized conserved protein [Function unknown]; Region: COG1432 272831005020 LabA_like proteins; Region: LabA_like; cd06167 272831005021 putative metal binding site [ion binding]; other site 272831005022 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 272831005023 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272831005024 N-terminal plug; other site 272831005025 ligand-binding site [chemical binding]; other site 272831005026 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 272831005027 dimer interface [polypeptide binding]; other site 272831005028 FMN binding site [chemical binding]; other site 272831005029 Predicted membrane protein [Function unknown]; Region: COG2259 272831005030 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272831005031 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272831005032 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272831005033 putative effector binding pocket; other site 272831005034 dimerization interface [polypeptide binding]; other site 272831005035 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 272831005036 DNA photolyase; Region: DNA_photolyase; pfam00875 272831005037 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272831005038 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 272831005039 hypothetical protein; Provisional; Region: PRK01752 272831005040 SEC-C motif; Region: SEC-C; pfam02810 272831005041 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 272831005042 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 272831005043 active site 272831005044 RNA methyltransferase, RsmE family; Region: TIGR00046 272831005045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 272831005046 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 272831005047 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 272831005048 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272831005049 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 272831005050 active site 272831005051 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 272831005052 DALR anticodon binding domain; Region: DALR_1; pfam05746 272831005053 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 272831005054 dimer interface [polypeptide binding]; other site 272831005055 motif 1; other site 272831005056 active site 272831005057 motif 2; other site 272831005058 motif 3; other site 272831005059 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 272831005060 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 272831005061 gamma subunit interface [polypeptide binding]; other site 272831005062 epsilon subunit interface [polypeptide binding]; other site 272831005063 LBP interface [polypeptide binding]; other site 272831005064 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 272831005065 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 272831005066 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 272831005067 alpha subunit interaction interface [polypeptide binding]; other site 272831005068 Walker A motif; other site 272831005069 ATP binding site [chemical binding]; other site 272831005070 Walker B motif; other site 272831005071 inhibitor binding site; inhibition site 272831005072 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272831005073 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 272831005074 core domain interface [polypeptide binding]; other site 272831005075 delta subunit interface [polypeptide binding]; other site 272831005076 epsilon subunit interface [polypeptide binding]; other site 272831005077 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 272831005078 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 272831005079 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 272831005080 beta subunit interaction interface [polypeptide binding]; other site 272831005081 Walker A motif; other site 272831005082 ATP binding site [chemical binding]; other site 272831005083 Walker B motif; other site 272831005084 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272831005085 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 272831005086 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 272831005087 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 272831005088 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 272831005089 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 272831005090 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 272831005091 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 272831005092 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 272831005093 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 272831005094 ParB-like nuclease domain; Region: ParBc; pfam02195 272831005095 KorB domain; Region: KorB; pfam08535 272831005096 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 272831005097 Flavoprotein; Region: Flavoprotein; pfam02441 272831005098 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 272831005099 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 272831005100 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 272831005101 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 272831005102 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272831005103 Walker A/P-loop; other site 272831005104 ATP binding site [chemical binding]; other site 272831005105 Q-loop/lid; other site 272831005106 ABC transporter signature motif; other site 272831005107 Walker B; other site 272831005108 D-loop; other site 272831005109 H-loop/switch region; other site 272831005110 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272831005111 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 272831005112 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272831005113 catalytic residue [active] 272831005114 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 272831005115 Yqey-like protein; Region: YqeY; pfam09424 272831005116 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 272831005117 stringent starvation protein A; Provisional; Region: sspA; PRK09481 272831005118 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 272831005119 C-terminal domain interface [polypeptide binding]; other site 272831005120 putative GSH binding site (G-site) [chemical binding]; other site 272831005121 dimer interface [polypeptide binding]; other site 272831005122 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 272831005123 dimer interface [polypeptide binding]; other site 272831005124 N-terminal domain interface [polypeptide binding]; other site 272831005125 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 272831005126 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 272831005127 Cadmium resistance transporter; Region: Cad; pfam03596 272831005128 ribosomal protein L31; Region: L31; TIGR00105 272831005129 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 272831005130 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 272831005131 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 272831005132 trimer interface [polypeptide binding]; other site 272831005133 active site 272831005134 substrate binding site [chemical binding]; other site 272831005135 CoA binding site [chemical binding]; other site 272831005136 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 272831005137 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 272831005138 catalytic residues [active] 272831005139 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 272831005140 active site 272831005141 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 272831005142 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 272831005143 anti sigma factor interaction site; other site 272831005144 regulatory phosphorylation site [posttranslational modification]; other site 272831005145 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 272831005146 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 272831005147 mce related protein; Region: MCE; pfam02470 272831005148 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 272831005149 Permease; Region: Permease; pfam02405 272831005150 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 272831005151 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 272831005152 Walker A/P-loop; other site 272831005153 ATP binding site [chemical binding]; other site 272831005154 Q-loop/lid; other site 272831005155 ABC transporter signature motif; other site 272831005156 Walker B; other site 272831005157 D-loop; other site 272831005158 H-loop/switch region; other site 272831005159 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272831005160 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272831005161 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 272831005162 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272831005163 NAD binding site [chemical binding]; other site 272831005164 catalytic residues [active] 272831005165 substrate binding site [chemical binding]; other site 272831005166 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 272831005167 catalytic triad [active] 272831005168 putative active site [active] 272831005169 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 272831005170 Autotransporter beta-domain; Region: Autotransporter; smart00869 272831005171 aminodeoxychorismate synthase; Provisional; Region: PRK07508 272831005172 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272831005173 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 272831005174 homodimer interface [polypeptide binding]; other site 272831005175 substrate-cofactor binding pocket; other site 272831005176 Aminotransferase class IV; Region: Aminotran_4; pfam01063 272831005177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272831005178 catalytic residue [active] 272831005179 Protein of unknown function (DUF560); Region: DUF560; pfam04575 272831005180 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 272831005181 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 272831005182 N-terminal plug; other site 272831005183 ligand-binding site [chemical binding]; other site 272831005184 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 272831005185 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 272831005186 ring oligomerisation interface [polypeptide binding]; other site 272831005187 ATP/Mg binding site [chemical binding]; other site 272831005188 stacking interactions; other site 272831005189 hinge regions; other site 272831005190 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 272831005191 oligomerisation interface [polypeptide binding]; other site 272831005192 mobile loop; other site 272831005193 roof hairpin; other site 272831005194 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 272831005195 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 272831005196 Na2 binding site [ion binding]; other site 272831005197 putative substrate binding site 1 [chemical binding]; other site 272831005198 Na binding site 1 [ion binding]; other site 272831005199 putative substrate binding site 2 [chemical binding]; other site 272831005200 diaminopimelate decarboxylase; Region: lysA; TIGR01048 272831005201 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 272831005202 active site 272831005203 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272831005204 substrate binding site [chemical binding]; other site 272831005205 catalytic residues [active] 272831005206 dimer interface [polypeptide binding]; other site 272831005207 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 272831005208 putative iron binding site [ion binding]; other site 272831005209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 272831005210 S-ribosylhomocysteinase; Provisional; Region: PRK02260 272831005211 DNA polymerase I; Provisional; Region: PRK05755 272831005212 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272831005213 active site 272831005214 metal binding site 1 [ion binding]; metal-binding site 272831005215 putative 5' ssDNA interaction site; other site 272831005216 metal binding site 3; metal-binding site 272831005217 metal binding site 2 [ion binding]; metal-binding site 272831005218 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272831005219 putative DNA binding site [nucleotide binding]; other site 272831005220 putative metal binding site [ion binding]; other site 272831005221 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 272831005222 active site 272831005223 catalytic site [active] 272831005224 substrate binding site [chemical binding]; other site 272831005225 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 272831005226 active site 272831005227 DNA binding site [nucleotide binding] 272831005228 catalytic site [active] 272831005229 Fic/DOC family; Region: Fic; pfam02661 272831005230 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 272831005231 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 272831005232 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 272831005233 Autotransporter beta-domain; Region: Autotransporter; pfam03797 272831005234 Predicted membrane protein [Function unknown]; Region: COG5346 272831005235 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 272831005236 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 272831005237 trmE is a tRNA modification GTPase; Region: trmE; cd04164 272831005238 G1 box; other site 272831005239 GTP/Mg2+ binding site [chemical binding]; other site 272831005240 Switch I region; other site 272831005241 G2 box; other site 272831005242 Switch II region; other site 272831005243 G3 box; other site 272831005244 G4 box; other site 272831005245 G5 box; other site 272831005246 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 272831005247 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 272831005248 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272831005249 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 272831005250 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 272831005251 putative ligand binding residues [chemical binding]; other site 272831005252 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272831005253 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272831005254 ABC-ATPase subunit interface; other site 272831005255 dimer interface [polypeptide binding]; other site 272831005256 putative PBP binding regions; other site 272831005257 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 272831005258 ABC-ATPase subunit interface; other site 272831005259 dimer interface [polypeptide binding]; other site 272831005260 putative PBP binding regions; other site 272831005261 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 272831005262 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 272831005263 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272831005264 Walker A/P-loop; other site 272831005265 ATP binding site [chemical binding]; other site 272831005266 Q-loop/lid; other site 272831005267 ABC transporter signature motif; other site 272831005268 Walker B; other site 272831005269 D-loop; other site 272831005270 H-loop/switch region; other site 272831005271 YadA-like C-terminal region; Region: YadA; pfam03895 272831005272 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 272831005273 Nitrogen regulatory protein P-II; Region: P-II; smart00938 272831005274 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 272831005275 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 272831005276 dimerization interface [polypeptide binding]; other site 272831005277 ATP binding site [chemical binding]; other site 272831005278 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 272831005279 dimerization interface [polypeptide binding]; other site 272831005280 ATP binding site [chemical binding]; other site 272831005281 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 272831005282 putative active site [active] 272831005283 catalytic triad [active] 272831005284 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 272831005285 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 272831005286 MgtE intracellular N domain; Region: MgtE_N; smart00924 272831005287 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 272831005288 Divalent cation transporter; Region: MgtE; pfam01769 272831005289 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 272831005290 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 272831005291 dimerization interface [polypeptide binding]; other site 272831005292 domain crossover interface; other site 272831005293 redox-dependent activation switch; other site 272831005294 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272831005295 NlpC/P60 family; Region: NLPC_P60; pfam00877 272831005296 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 272831005297 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 272831005298 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 272831005299 heterotetramer interface [polypeptide binding]; other site 272831005300 active site pocket [active] 272831005301 cleavage site 272831005302 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 272831005303 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 272831005304 putative ion selectivity filter; other site 272831005305 putative pore gating glutamate residue; other site 272831005306 putative H+/Cl- coupling transport residue; other site 272831005307 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272831005308 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 272831005309 ATP binding site [chemical binding]; other site 272831005310 putative Mg++ binding site [ion binding]; other site 272831005311 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 272831005312 nucleotide binding region [chemical binding]; other site 272831005313 ATP-binding site [chemical binding]; other site 272831005314 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 272831005315 Sulfatase; Region: Sulfatase; pfam00884 272831005316 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 272831005317 Helicase associated domain (HA2); Region: HA2; pfam04408 272831005318 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 272831005319 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 272831005320 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 272831005321 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 272831005322 additional DNA contacts [nucleotide binding]; other site 272831005323 mismatch recognition site; other site 272831005324 active site 272831005325 zinc binding site [ion binding]; other site 272831005326 DNA intercalation site [nucleotide binding]; other site 272831005327 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 272831005328 Mg2+ binding site [ion binding]; other site 272831005329 G-X-G motif; other site 272831005330 TIGR02391 family protein; Region: hypoth_ymh 272831005331 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 272831005332 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831005333 cofactor binding site; other site 272831005334 DNA binding site [nucleotide binding] 272831005335 substrate interaction site [chemical binding]; other site 272831005336 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272831005337 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831005338 Helix-turn-helix domain; Region: HTH_38; pfam13936 272831005339 Homeodomain-like domain; Region: HTH_32; pfam13565 272831005340 Integrase core domain; Region: rve; pfam00665 272831005341 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 272831005342 comEA protein; Region: comE; TIGR01259 272831005343 Helix-hairpin-helix motif; Region: HHH; pfam00633 272831005344 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272831005345 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 272831005346 active site 272831005347 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 272831005348 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 272831005349 active site 272831005350 (T/H)XGH motif; other site 272831005351 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 272831005352 YccA-like proteins; Region: YccA_like; cd10433 272831005353 oxidative damage protection protein; Provisional; Region: PRK05408 272831005354 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 272831005355 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 272831005356 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 272831005357 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 272831005358 active site 272831005359 (T/H)XGH motif; other site 272831005360 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 272831005361 active site clefts [active] 272831005362 zinc binding site [ion binding]; other site 272831005363 dimer interface [polypeptide binding]; other site 272831005364 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272831005365 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831005366 dimer interface [polypeptide binding]; other site 272831005367 conserved gate region; other site 272831005368 ABC-ATPase subunit interface; other site 272831005369 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 272831005370 ABC-ATPase subunit interface; other site 272831005371 putative PBP binding loops; other site 272831005372 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 272831005373 fructuronate transporter; Provisional; Region: PRK10034; cl15264 272831005374 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 272831005375 ATP-binding site [chemical binding]; other site 272831005376 Gluconate-6-phosphate binding site [chemical binding]; other site 272831005377 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 272831005378 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 272831005379 putative active site [active] 272831005380 putative substrate binding site [chemical binding]; other site 272831005381 ATP binding site [chemical binding]; other site 272831005382 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 272831005383 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 272831005384 S-adenosylmethionine binding site [chemical binding]; other site 272831005385 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 272831005386 aromatic amino acid transport protein; Region: araaP; TIGR00837 272831005387 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272831005388 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 272831005389 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 272831005390 Sulfatase; Region: Sulfatase; cl17466 272831005391 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 272831005392 putative trimer interface [polypeptide binding]; other site 272831005393 putative CoA binding site [chemical binding]; other site 272831005394 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 272831005395 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 272831005396 active site 272831005397 motif I; other site 272831005398 motif II; other site 272831005399 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272831005400 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272831005401 putative acyl-acceptor binding pocket; other site 272831005402 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 272831005403 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 272831005404 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 272831005405 dimerization interface 3.5A [polypeptide binding]; other site 272831005406 active site 272831005407 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 272831005408 PemK-like protein; Region: PemK; pfam02452 272831005409 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 272831005410 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 272831005411 trimer interface [polypeptide binding]; other site 272831005412 eyelet of channel; other site 272831005413 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 272831005414 ThiC-associated domain; Region: ThiC-associated; pfam13667 272831005415 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 272831005416 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 272831005417 nudix motif; other site 272831005418 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272831005419 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 272831005420 Walker A/P-loop; other site 272831005421 ATP binding site [chemical binding]; other site 272831005422 Q-loop/lid; other site 272831005423 ABC transporter signature motif; other site 272831005424 Walker B; other site 272831005425 D-loop; other site 272831005426 H-loop/switch region; other site 272831005427 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 272831005428 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 272831005429 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 272831005430 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 272831005431 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 272831005432 dimerization domain swap beta strand [polypeptide binding]; other site 272831005433 regulatory protein interface [polypeptide binding]; other site 272831005434 active site 272831005435 regulatory phosphorylation site [posttranslational modification]; other site 272831005436 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 272831005437 active pocket/dimerization site; other site 272831005438 active site 272831005439 phosphorylation site [posttranslational modification] 272831005440 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272831005441 active site 272831005442 DNA ligase; Provisional; Region: PRK09125 272831005443 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 272831005444 DNA binding site [nucleotide binding] 272831005445 active site 272831005446 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 272831005447 DNA binding site [nucleotide binding] 272831005448 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272831005449 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 272831005450 RmuC family; Region: RmuC; pfam02646 272831005451 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 272831005452 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 272831005453 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 272831005454 Qi binding site; other site 272831005455 intrachain domain interface; other site 272831005456 interchain domain interface [polypeptide binding]; other site 272831005457 heme bH binding site [chemical binding]; other site 272831005458 heme bL binding site [chemical binding]; other site 272831005459 Qo binding site; other site 272831005460 interchain domain interface [polypeptide binding]; other site 272831005461 intrachain domain interface; other site 272831005462 Qi binding site; other site 272831005463 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 272831005464 Qo binding site; other site 272831005465 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 272831005466 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 272831005467 [2Fe-2S] cluster binding site [ion binding]; other site 272831005468 Uncharacterized conserved protein [Function unknown]; Region: COG0327 272831005469 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 272831005470 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 272831005471 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272831005472 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 272831005473 putative dimerization interface [polypeptide binding]; other site 272831005474 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 272831005475 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 272831005476 23S rRNA interface [nucleotide binding]; other site 272831005477 L3 interface [polypeptide binding]; other site 272831005478 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 272831005479 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 272831005480 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 272831005481 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 272831005482 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 272831005483 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 272831005484 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 272831005485 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 272831005486 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 272831005487 ATP binding site [chemical binding]; other site 272831005488 substrate interface [chemical binding]; other site 272831005489 hypothetical protein; Provisional; Region: PRK04325 272831005490 Predicted permease [General function prediction only]; Region: COG2056 272831005491 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 272831005492 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional; Region: PRK14966 272831005493 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 272831005494 S-adenosylmethionine binding site [chemical binding]; other site 272831005495 protease TldD; Provisional; Region: tldD; PRK10735 272831005496 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 272831005497 Na binding site [ion binding]; other site 272831005498 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 272831005499 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 272831005500 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 272831005501 thiamine phosphate binding site [chemical binding]; other site 272831005502 active site 272831005503 pyrophosphate binding site [ion binding]; other site 272831005504 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 272831005505 thiS-thiF/thiG interaction site; other site 272831005506 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 272831005507 ThiS interaction site; other site 272831005508 putative active site [active] 272831005509 tetramer interface [polypeptide binding]; other site 272831005510 Sporulation related domain; Region: SPOR; pfam05036 272831005511 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 272831005512 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 272831005513 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 272831005514 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 272831005515 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 272831005516 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 272831005517 active site 272831005518 HIGH motif; other site 272831005519 nucleotide binding site [chemical binding]; other site 272831005520 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 272831005521 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 272831005522 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 272831005523 homodimer interface [polypeptide binding]; other site 272831005524 NADP binding site [chemical binding]; other site 272831005525 substrate binding site [chemical binding]; other site 272831005526 RDD family; Region: RDD; pfam06271 272831005527 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 272831005528 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 272831005529 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 272831005530 putative active site [active] 272831005531 putative catalytic site [active] 272831005532 putative DNA binding site [nucleotide binding]; other site 272831005533 putative phosphate binding site [ion binding]; other site 272831005534 metal binding site A [ion binding]; metal-binding site 272831005535 putative AP binding site [nucleotide binding]; other site 272831005536 putative metal binding site B [ion binding]; other site 272831005537 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 272831005538 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272831005539 active site 272831005540 HIGH motif; other site 272831005541 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272831005542 KMSKS motif; other site 272831005543 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 272831005544 tRNA binding surface [nucleotide binding]; other site 272831005545 anticodon binding site; other site 272831005546 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272831005547 AAA domain; Region: AAA_21; pfam13304 272831005548 Walker A/P-loop; other site 272831005549 ATP binding site [chemical binding]; other site 272831005550 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272831005551 ABC transporter signature motif; other site 272831005552 Walker B; other site 272831005553 D-loop; other site 272831005554 H-loop/switch region; other site 272831005555 GTPase CgtA; Reviewed; Region: obgE; PRK12299 272831005556 GTP1/OBG; Region: GTP1_OBG; pfam01018 272831005557 Obg GTPase; Region: Obg; cd01898 272831005558 G1 box; other site 272831005559 GTP/Mg2+ binding site [chemical binding]; other site 272831005560 Switch I region; other site 272831005561 G2 box; other site 272831005562 G3 box; other site 272831005563 Switch II region; other site 272831005564 G4 box; other site 272831005565 G5 box; other site 272831005566 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 272831005567 Predicted methyltransferases [General function prediction only]; Region: COG0313 272831005568 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 272831005569 putative SAM binding site [chemical binding]; other site 272831005570 putative homodimer interface [polypeptide binding]; other site 272831005571 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 272831005572 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 272831005573 dimer interface [polypeptide binding]; other site 272831005574 active site 272831005575 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 272831005576 BON domain; Region: BON; pfam04972 272831005577 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 272831005578 active site 272831005579 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 272831005580 non-specific DNA binding site [nucleotide binding]; other site 272831005581 salt bridge; other site 272831005582 sequence-specific DNA binding site [nucleotide binding]; other site 272831005583 malate:quinone oxidoreductase; Validated; Region: PRK05257 272831005584 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 272831005585 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272831005586 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 272831005587 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 272831005588 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 272831005589 rRNA interaction site [nucleotide binding]; other site 272831005590 S8 interaction site; other site 272831005591 putative laminin-1 binding site; other site 272831005592 elongation factor Ts; Provisional; Region: tsf; PRK09377 272831005593 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 272831005594 Elongation factor TS; Region: EF_TS; pfam00889 272831005595 Elongation factor TS; Region: EF_TS; pfam00889 272831005596 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 272831005597 putative nucleotide binding site [chemical binding]; other site 272831005598 uridine monophosphate binding site [chemical binding]; other site 272831005599 homohexameric interface [polypeptide binding]; other site 272831005601 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 272831005602 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 272831005603 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 272831005604 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 272831005605 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 272831005606 tandem repeat interface [polypeptide binding]; other site 272831005607 oligomer interface [polypeptide binding]; other site 272831005608 active site residues [active] 272831005609 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 272831005610 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 272831005611 putative MPT binding site; other site 272831005612 argininosuccinate synthase; Validated; Region: PRK05370 272831005613 argininosuccinate synthase; Provisional; Region: PRK13820 272831005614 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 272831005615 serine/threonine transporter SstT; Provisional; Region: PRK13628 272831005616 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 272831005617 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 272831005618 Surface antigen; Region: Bac_surface_Ag; pfam01103 272831005619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 272831005620 Family of unknown function (DUF490); Region: DUF490; pfam04357 272831005621 Family of unknown function (DUF490); Region: DUF490; pfam04357 272831005622 Family of unknown function (DUF490); Region: DUF490; pfam04357 272831005623 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 272831005624 POT family; Region: PTR2; cl17359 272831005625 peptide chain release factor 2; Validated; Region: prfB; PRK00578 272831005626 This domain is found in peptide chain release factors; Region: PCRF; smart00937 272831005627 RF-1 domain; Region: RF-1; pfam00472 272831005628 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 272831005629 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 272831005630 active site 272831005631 nucleophile elbow; other site 272831005632 Predicted membrane protein [Function unknown]; Region: COG2259 272831005633 Protein of unknown function (DUF692); Region: DUF692; pfam05114 272831005634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 272831005635 RNA polymerase sigma factor; Provisional; Region: PRK12532 272831005636 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272831005637 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 272831005638 DNA binding residues [nucleotide binding] 272831005639 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272831005640 Helix-turn-helix domain; Region: HTH_38; pfam13936 272831005641 Homeodomain-like domain; Region: HTH_32; pfam13565 272831005642 Integrase core domain; Region: rve; pfam00665 272831005643 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 272831005644 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 272831005645 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 272831005646 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 272831005647 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 272831005648 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 272831005649 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 272831005650 Uncharacterized conserved protein [Function unknown]; Region: COG1739 272831005651 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 272831005652 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 272831005653 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 272831005654 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272831005655 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 272831005656 Ligand binding site [chemical binding]; other site 272831005657 Electron transfer flavoprotein domain; Region: ETF; pfam01012 272831005658 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 272831005659 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 272831005660 putative active site [active] 272831005661 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 272831005662 Isochorismatase family; Region: Isochorismatase; pfam00857 272831005663 catalytic triad [active] 272831005664 metal binding site [ion binding]; metal-binding site 272831005665 conserved cis-peptide bond; other site 272831005666 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 272831005667 homodimer interaction site [polypeptide binding]; other site 272831005668 cofactor binding site; other site 272831005669 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 272831005670 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 272831005671 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272831005672 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 272831005673 MutS domain I; Region: MutS_I; pfam01624 272831005674 MutS domain II; Region: MutS_II; pfam05188 272831005675 MutS domain III; Region: MutS_III; pfam05192 272831005676 MutS domain V; Region: MutS_V; pfam00488 272831005677 Walker A/P-loop; other site 272831005678 ATP binding site [chemical binding]; other site 272831005679 Q-loop/lid; other site 272831005680 ABC transporter signature motif; other site 272831005681 Walker B; other site 272831005682 D-loop; other site 272831005683 H-loop/switch region; other site 272831005684 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 272831005685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272831005686 Coenzyme A binding pocket [chemical binding]; other site 272831005687 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 272831005688 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272831005689 active site 272831005690 HIGH motif; other site 272831005691 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272831005692 active site 272831005693 KMSKS motif; other site 272831005694 Uncharacterized conserved protein [Function unknown]; Region: COG1434 272831005695 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 272831005696 putative active site [active] 272831005697 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 272831005698 ArsC family; Region: ArsC; pfam03960 272831005699 catalytic residues [active] 272831005700 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 272831005701 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 272831005702 catalytic residues [active] 272831005703 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 272831005704 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272831005705 Walker A/P-loop; other site 272831005706 ATP binding site [chemical binding]; other site 272831005707 Q-loop/lid; other site 272831005708 ABC transporter signature motif; other site 272831005709 Walker B; other site 272831005710 D-loop; other site 272831005711 H-loop/switch region; other site 272831005712 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 272831005713 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 272831005714 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 272831005715 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 272831005716 Phosphoglycerate kinase; Region: PGK; pfam00162 272831005717 substrate binding site [chemical binding]; other site 272831005718 hinge regions; other site 272831005719 ADP binding site [chemical binding]; other site 272831005720 catalytic site [active] 272831005721 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 272831005722 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 272831005723 hinge; other site 272831005724 active site 272831005725 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 272831005726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 272831005727 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 272831005728 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 272831005729 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 272831005730 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 272831005731 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 272831005732 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393