-- dump date 20140619_163148 -- class Genbank::misc_feature -- table misc_feature_note -- id note 374833000001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 374833000002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 374833000003 Coenzyme A binding pocket [chemical binding]; other site 374833000004 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 374833000005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 374833000006 active site 374833000007 HIGH motif; other site 374833000008 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 374833000009 active site 374833000010 KMSKS motif; other site 374833000011 Uncharacterized conserved protein [Function unknown]; Region: COG1434 374833000012 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 374833000013 putative active site [active] 374833000014 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 374833000015 ArsC family; Region: ArsC; pfam03960 374833000016 catalytic residues [active] 374833000017 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 374833000018 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 374833000019 catalytic residues [active] 374833000020 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 374833000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374833000022 Walker A/P-loop; other site 374833000023 ATP binding site [chemical binding]; other site 374833000024 Q-loop/lid; other site 374833000025 ABC transporter signature motif; other site 374833000026 Walker B; other site 374833000027 D-loop; other site 374833000028 H-loop/switch region; other site 374833000029 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 374833000030 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 374833000031 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 374833000032 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 374833000033 Phosphoglycerate kinase; Region: PGK; pfam00162 374833000034 substrate binding site [chemical binding]; other site 374833000035 hinge regions; other site 374833000036 ADP binding site [chemical binding]; other site 374833000037 catalytic site [active] 374833000038 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 374833000039 Helix-turn-helix domain; Region: HTH_38; pfam13936 374833000040 Homeodomain-like domain; Region: HTH_32; pfam13565 374833000041 Integrase core domain; Region: rve; pfam00665 374833000042 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 374833000043 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 374833000044 hinge; other site 374833000045 active site 374833000046 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 374833000047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 374833000048 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 374833000049 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 374833000050 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 374833000051 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 374833000052 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 374833000053 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 374833000054 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 374833000055 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 374833000056 Pilin (bacterial filament); Region: Pilin; pfam00114 374833000057 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833000058 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833000059 Pilin (bacterial filament); Region: Pilin; pfam00114 374833000060 Pilin (bacterial filament); Region: Pilin; pfam00114 374833000061 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833000062 Pilin (bacterial filament); Region: Pilin; pfam00114 374833000063 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833000064 Pilin (bacterial filament); Region: Pilin; pfam00114 374833000065 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833000066 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833000067 Pilin (bacterial filament); Region: Pilin; pfam00114 374833000068 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 374833000069 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 374833000070 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 374833000071 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 374833000072 glycerate dehydrogenase; Provisional; Region: PRK06487 374833000073 putative ligand binding site [chemical binding]; other site 374833000074 putative NAD binding site [chemical binding]; other site 374833000075 catalytic site [active] 374833000076 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 374833000077 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 374833000078 active site 374833000079 HIGH motif; other site 374833000080 KMSKS motif; other site 374833000081 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 374833000082 tRNA binding surface [nucleotide binding]; other site 374833000083 anticodon binding site; other site 374833000084 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 374833000085 dimer interface [polypeptide binding]; other site 374833000086 putative tRNA-binding site [nucleotide binding]; other site 374833000087 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 374833000088 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 374833000089 glutaminase active site [active] 374833000090 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 374833000091 dimer interface [polypeptide binding]; other site 374833000092 active site 374833000093 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 374833000094 dimer interface [polypeptide binding]; other site 374833000095 active site 374833000096 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 374833000097 MltA specific insert domain; Region: MltA; pfam03562 374833000098 3D domain; Region: 3D; pfam06725 374833000099 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 374833000100 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 374833000101 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 374833000102 Imelysin; Region: Peptidase_M75; pfam09375 374833000103 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 374833000104 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 374833000105 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 374833000106 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 374833000107 PhnA protein; Region: PhnA; pfam03831 374833000108 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 374833000109 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 374833000110 Substrate binding site; other site 374833000111 Mg++ binding site; other site 374833000112 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 374833000113 active site 374833000114 substrate binding site [chemical binding]; other site 374833000115 CoA binding site [chemical binding]; other site 374833000116 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 374833000117 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 374833000118 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 374833000119 motif II; other site 374833000120 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 374833000121 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 374833000122 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 374833000123 Conserved TM helix; Region: TM_helix; pfam05552 374833000124 Mechanosensitive ion channel; Region: MS_channel; pfam00924 374833000125 Competence-damaged protein; Region: CinA; pfam02464 374833000126 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 374833000127 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 374833000128 catalytic residues [active] 374833000129 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 374833000130 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 374833000131 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 374833000132 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 374833000133 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 374833000134 P loop; other site 374833000135 GTP binding site [chemical binding]; other site 374833000136 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 374833000137 GIY-YIG motif/motif A; other site 374833000138 putative active site [active] 374833000139 putative metal binding site [ion binding]; other site 374833000140 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 374833000141 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 374833000142 TIGR01666 family membrane protein; Region: YCCS 374833000143 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 374833000144 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 374833000145 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 374833000146 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 374833000147 Walker A motif; other site 374833000148 ATP binding site [chemical binding]; other site 374833000149 Walker B motif; other site 374833000150 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 374833000151 SPOC domain; Region: SPOC; pfam07744 374833000152 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 374833000153 Walker A motif; other site 374833000154 ATP binding site [chemical binding]; other site 374833000155 Walker B motif; other site 374833000156 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 374833000157 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 374833000158 catalytic residue [active] 374833000159 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 374833000160 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 374833000161 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 374833000162 comEA protein; Region: comE; TIGR01259 374833000163 Helix-hairpin-helix motif; Region: HHH; pfam00633 374833000164 chaperone protein DnaJ; Provisional; Region: PRK10767 374833000165 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 374833000166 HSP70 interaction site [polypeptide binding]; other site 374833000167 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 374833000168 substrate binding site [polypeptide binding]; other site 374833000169 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 374833000170 Zn binding sites [ion binding]; other site 374833000171 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 374833000172 dimer interface [polypeptide binding]; other site 374833000173 Predicted membrane protein [Function unknown]; Region: COG1297 374833000174 putative oligopeptide transporter, OPT family; Region: TIGR00733 374833000175 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 374833000176 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 374833000177 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 374833000178 substrate binding site; other site 374833000179 tetramer interface; other site 374833000180 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 374833000181 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 374833000182 NAD binding site [chemical binding]; other site 374833000183 substrate binding site [chemical binding]; other site 374833000184 homodimer interface [polypeptide binding]; other site 374833000185 active site 374833000186 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 374833000187 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 374833000188 NAD binding site [chemical binding]; other site 374833000189 homodimer interface [polypeptide binding]; other site 374833000190 active site 374833000191 substrate binding site [chemical binding]; other site 374833000192 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 374833000193 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 374833000194 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 374833000195 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 374833000196 NeuB family; Region: NeuB; pfam03102 374833000197 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 374833000198 NeuB binding interface [polypeptide binding]; other site 374833000199 putative substrate binding site [chemical binding]; other site 374833000200 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 374833000201 ligand binding site; other site 374833000202 tetramer interface; other site 374833000203 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 374833000204 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 374833000205 active site 374833000206 homodimer interface [polypeptide binding]; other site 374833000207 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 374833000208 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 374833000209 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 374833000210 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 374833000211 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 374833000212 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 374833000213 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 374833000214 Walker A/P-loop; other site 374833000215 ATP binding site [chemical binding]; other site 374833000216 Q-loop/lid; other site 374833000217 ABC transporter signature motif; other site 374833000218 Walker B; other site 374833000219 D-loop; other site 374833000220 H-loop/switch region; other site 374833000221 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 374833000222 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 374833000223 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 374833000224 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 374833000225 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 374833000226 RNA binding site [nucleotide binding]; other site 374833000227 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 374833000228 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 374833000229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 374833000230 active site 374833000231 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 374833000232 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 374833000233 NAD binding site [chemical binding]; other site 374833000234 substrate binding site [chemical binding]; other site 374833000235 homodimer interface [polypeptide binding]; other site 374833000236 active site 374833000237 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 374833000238 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 374833000239 substrate binding site; other site 374833000240 tetramer interface; other site 374833000241 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 374833000242 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 374833000243 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 374833000244 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 374833000245 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374833000246 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374833000247 Sel1-like repeats; Region: SEL1; smart00671 374833000248 Sel1-like repeats; Region: SEL1; smart00671 374833000249 Sel1-like repeats; Region: SEL1; smart00671 374833000250 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 374833000251 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 374833000252 cyanate hydratase; Validated; Region: PRK02866 374833000253 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 374833000254 pyruvate kinase; Provisional; Region: PRK05826 374833000255 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 374833000256 domain interfaces; other site 374833000257 active site 374833000258 GTPase CgtA; Reviewed; Region: obgE; PRK12299 374833000259 GTP1/OBG; Region: GTP1_OBG; pfam01018 374833000260 Obg GTPase; Region: Obg; cd01898 374833000261 G1 box; other site 374833000262 GTP/Mg2+ binding site [chemical binding]; other site 374833000263 Switch I region; other site 374833000264 G2 box; other site 374833000265 G3 box; other site 374833000266 Switch II region; other site 374833000267 G4 box; other site 374833000268 G5 box; other site 374833000269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374833000270 AAA domain; Region: AAA_21; pfam13304 374833000271 Walker A/P-loop; other site 374833000272 ATP binding site [chemical binding]; other site 374833000273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374833000274 ABC transporter signature motif; other site 374833000275 Walker B; other site 374833000276 D-loop; other site 374833000277 H-loop/switch region; other site 374833000278 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 374833000279 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 374833000280 active site 374833000281 HIGH motif; other site 374833000282 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 374833000283 KMSKS motif; other site 374833000284 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 374833000285 tRNA binding surface [nucleotide binding]; other site 374833000286 anticodon binding site; other site 374833000287 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 374833000288 putative active site [active] 374833000289 putative DNA binding site [nucleotide binding]; other site 374833000290 putative catalytic site [active] 374833000291 putative AP binding site [nucleotide binding]; other site 374833000292 putative phosphate binding site [ion binding]; other site 374833000293 putative metal binding site B [ion binding]; other site 374833000294 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 374833000295 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 374833000296 RDD family; Region: RDD; pfam06271 374833000297 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 374833000298 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 374833000299 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 374833000300 homodimer interface [polypeptide binding]; other site 374833000301 NADP binding site [chemical binding]; other site 374833000302 substrate binding site [chemical binding]; other site 374833000303 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 374833000304 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 374833000305 active site 374833000306 HIGH motif; other site 374833000307 nucleotide binding site [chemical binding]; other site 374833000308 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 374833000309 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 374833000310 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 374833000311 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 374833000312 Sporulation related domain; Region: SPOR; pfam05036 374833000313 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 374833000314 ThiS interaction site; other site 374833000315 putative active site [active] 374833000316 tetramer interface [polypeptide binding]; other site 374833000317 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 374833000318 thiS-thiF/thiG interaction site; other site 374833000319 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 374833000320 thiamine phosphate binding site [chemical binding]; other site 374833000321 active site 374833000322 pyrophosphate binding site [ion binding]; other site 374833000323 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 374833000324 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 374833000325 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 374833000326 Na binding site [ion binding]; other site 374833000327 protease TldD; Provisional; Region: tldD; PRK10735 374833000328 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional; Region: PRK14966 374833000329 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 374833000330 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 374833000331 S-adenosylmethionine binding site [chemical binding]; other site 374833000332 Predicted permease [General function prediction only]; Region: COG2056 374833000333 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 374833000334 hypothetical protein; Provisional; Region: PRK04325 374833000335 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 374833000336 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 374833000337 ATP binding site [chemical binding]; other site 374833000338 substrate interface [chemical binding]; other site 374833000339 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 374833000340 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 374833000341 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 374833000342 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 374833000343 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 374833000344 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 374833000345 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 374833000346 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 374833000347 23S rRNA interface [nucleotide binding]; other site 374833000348 L3 interface [polypeptide binding]; other site 374833000349 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 374833000350 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 374833000351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374833000352 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 374833000353 putative dimerization interface [polypeptide binding]; other site 374833000354 Uncharacterized conserved protein [Function unknown]; Region: COG0327 374833000355 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 374833000356 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 374833000357 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 374833000358 [2Fe-2S] cluster binding site [ion binding]; other site 374833000359 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 374833000360 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 374833000361 Qi binding site; other site 374833000362 intrachain domain interface; other site 374833000363 interchain domain interface [polypeptide binding]; other site 374833000364 heme bH binding site [chemical binding]; other site 374833000365 heme bL binding site [chemical binding]; other site 374833000366 Qo binding site; other site 374833000367 interchain domain interface [polypeptide binding]; other site 374833000368 intrachain domain interface; other site 374833000369 Qi binding site; other site 374833000370 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 374833000371 Qo binding site; other site 374833000372 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 374833000373 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 374833000374 RmuC family; Region: RmuC; pfam02646 374833000375 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 374833000376 DNA ligase; Provisional; Region: PRK09125 374833000377 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 374833000378 DNA binding site [nucleotide binding] 374833000379 active site 374833000380 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 374833000381 DNA binding site [nucleotide binding] 374833000382 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374833000383 active site 374833000384 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 374833000385 active pocket/dimerization site; other site 374833000386 active site 374833000387 phosphorylation site [posttranslational modification] 374833000388 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 374833000389 dimerization domain swap beta strand [polypeptide binding]; other site 374833000390 regulatory protein interface [polypeptide binding]; other site 374833000391 active site 374833000392 regulatory phosphorylation site [posttranslational modification]; other site 374833000393 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 374833000394 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 374833000395 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 374833000396 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 374833000397 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 374833000398 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 374833000399 Walker A/P-loop; other site 374833000400 ATP binding site [chemical binding]; other site 374833000401 Q-loop/lid; other site 374833000402 ABC transporter signature motif; other site 374833000403 Walker B; other site 374833000404 D-loop; other site 374833000405 H-loop/switch region; other site 374833000406 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 374833000407 nudix motif; other site 374833000408 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 374833000409 ThiC-associated domain; Region: ThiC-associated; pfam13667 374833000410 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 374833000411 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 374833000412 Transposase; Region: DEDD_Tnp_IS110; pfam01548 374833000413 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 374833000414 Zonular occludens toxin (Zot); Region: Zot; cl17485 374833000415 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 374833000416 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 374833000417 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 374833000418 Replication initiation factor; Region: Rep_trans; pfam02486 374833000419 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 374833000420 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 374833000421 trimer interface [polypeptide binding]; other site 374833000422 eyelet of channel; other site 374833000423 PemK-like protein; Region: PemK; pfam02452 374833000424 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 374833000425 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 374833000426 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 374833000427 dimerization interface 3.5A [polypeptide binding]; other site 374833000428 active site 374833000429 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 374833000430 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 374833000431 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 374833000432 putative acyl-acceptor binding pocket; other site 374833000433 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 374833000434 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 374833000435 active site 374833000436 motif I; other site 374833000437 motif II; other site 374833000438 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 374833000439 aromatic amino acid transport protein; Region: araaP; TIGR00837 374833000440 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 374833000441 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 374833000442 S-adenosylmethionine binding site [chemical binding]; other site 374833000443 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 374833000444 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 374833000445 putative active site [active] 374833000446 putative substrate binding site [chemical binding]; other site 374833000447 ATP binding site [chemical binding]; other site 374833000448 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 374833000449 ATP-binding site [chemical binding]; other site 374833000450 Gluconate-6-phosphate binding site [chemical binding]; other site 374833000451 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 374833000452 fructuronate transporter; Provisional; Region: PRK10034; cl15264 374833000453 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 374833000454 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 374833000455 dimer interface [polypeptide binding]; other site 374833000456 conserved gate region; other site 374833000457 ABC-ATPase subunit interface; other site 374833000458 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 374833000459 dimer interface [polypeptide binding]; other site 374833000460 ABC-ATPase subunit interface; other site 374833000461 putative PBP binding loops; other site 374833000462 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 374833000463 active site clefts [active] 374833000464 zinc binding site [ion binding]; other site 374833000465 dimer interface [polypeptide binding]; other site 374833000466 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 374833000467 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 374833000468 active site 374833000469 (T/H)XGH motif; other site 374833000470 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 374833000471 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 374833000472 oxidative damage protection protein; Provisional; Region: PRK05408 374833000473 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 374833000474 YccA-like proteins; Region: YccA_like; cd10433 374833000475 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 374833000476 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 374833000477 active site 374833000478 (T/H)XGH motif; other site 374833000479 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 374833000480 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 374833000481 active site 374833000482 comEA protein; Region: comE; TIGR01259 374833000483 Helix-hairpin-helix motif; Region: HHH; pfam00633 374833000484 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 374833000485 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 374833000486 Helicase associated domain (HA2); Region: HA2; pfam04408 374833000487 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 374833000488 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 374833000489 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 374833000490 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 374833000491 Sulfatase; Region: Sulfatase; pfam00884 374833000492 DEAD-like helicases superfamily; Region: DEXDc; smart00487 374833000493 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 374833000494 ATP binding site [chemical binding]; other site 374833000495 putative Mg++ binding site [ion binding]; other site 374833000496 nucleotide binding region [chemical binding]; other site 374833000497 helicase superfamily c-terminal domain; Region: HELICc; smart00490 374833000498 ATP-binding site [chemical binding]; other site 374833000499 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 374833000500 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 374833000501 putative ion selectivity filter; other site 374833000502 putative pore gating glutamate residue; other site 374833000503 putative H+/Cl- coupling transport residue; other site 374833000504 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 374833000505 heterotetramer interface [polypeptide binding]; other site 374833000506 active site pocket [active] 374833000507 cleavage site 374833000508 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 374833000509 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 374833000510 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 374833000511 NlpC/P60 family; Region: NLPC_P60; pfam00877 374833000512 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 374833000513 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 374833000514 dimerization interface [polypeptide binding]; other site 374833000515 domain crossover interface; other site 374833000516 redox-dependent activation switch; other site 374833000517 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 374833000518 MgtE intracellular N domain; Region: MgtE_N; smart00924 374833000519 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 374833000520 Divalent cation transporter; Region: MgtE; pfam01769 374833000521 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 374833000522 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 374833000523 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 374833000524 dimerization interface [polypeptide binding]; other site 374833000525 ATP binding site [chemical binding]; other site 374833000526 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 374833000527 dimerization interface [polypeptide binding]; other site 374833000528 ATP binding site [chemical binding]; other site 374833000529 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 374833000530 putative active site [active] 374833000531 catalytic triad [active] 374833000532 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 374833000533 Nitrogen regulatory protein P-II; Region: P-II; smart00938 374833000534 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 374833000535 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 374833000536 Walker A/P-loop; other site 374833000537 ATP binding site [chemical binding]; other site 374833000538 Q-loop/lid; other site 374833000539 ABC transporter signature motif; other site 374833000540 Walker B; other site 374833000541 D-loop; other site 374833000542 H-loop/switch region; other site 374833000543 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 374833000544 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 374833000545 ABC-ATPase subunit interface; other site 374833000546 dimer interface [polypeptide binding]; other site 374833000547 putative PBP binding regions; other site 374833000548 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 374833000549 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 374833000550 ABC-ATPase subunit interface; other site 374833000551 dimer interface [polypeptide binding]; other site 374833000552 putative PBP binding regions; other site 374833000553 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 374833000554 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 374833000555 putative ligand binding residues [chemical binding]; other site 374833000556 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 374833000557 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 374833000558 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 374833000559 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 374833000560 trmE is a tRNA modification GTPase; Region: trmE; cd04164 374833000561 G1 box; other site 374833000562 GTP/Mg2+ binding site [chemical binding]; other site 374833000563 Switch I region; other site 374833000564 G2 box; other site 374833000565 Switch II region; other site 374833000566 G3 box; other site 374833000567 G4 box; other site 374833000568 G5 box; other site 374833000569 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 374833000570 Predicted membrane protein [Function unknown]; Region: COG5346 374833000571 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 374833000572 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 374833000573 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 374833000574 Autotransporter beta-domain; Region: Autotransporter; pfam03797 374833000575 Fic/DOC family; Region: Fic; pfam02661 374833000576 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 374833000577 metal binding triad [ion binding]; metal-binding site 374833000578 Transposase domain (DUF772); Region: DUF772; pfam05598 374833000579 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833000580 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833000581 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833000582 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833000583 DNA polymerase I; Provisional; Region: PRK05755 374833000584 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 374833000585 active site 374833000586 metal binding site 1 [ion binding]; metal-binding site 374833000587 putative 5' ssDNA interaction site; other site 374833000588 metal binding site 3; metal-binding site 374833000589 metal binding site 2 [ion binding]; metal-binding site 374833000590 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 374833000591 putative DNA binding site [nucleotide binding]; other site 374833000592 putative metal binding site [ion binding]; other site 374833000593 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 374833000594 active site 374833000595 catalytic site [active] 374833000596 substrate binding site [chemical binding]; other site 374833000597 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 374833000598 active site 374833000599 DNA binding site [nucleotide binding] 374833000600 catalytic site [active] 374833000601 S-ribosylhomocysteinase; Provisional; Region: PRK02260 374833000602 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; cl01770 374833000603 conserved hypothetical integral membrane protein; Region: TIGR00698 374833000604 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 374833000605 putative iron binding site [ion binding]; other site 374833000606 diaminopimelate decarboxylase; Region: lysA; TIGR01048 374833000607 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 374833000608 active site 374833000609 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 374833000610 substrate binding site [chemical binding]; other site 374833000611 catalytic residues [active] 374833000612 dimer interface [polypeptide binding]; other site 374833000613 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 374833000614 Na2 binding site [ion binding]; other site 374833000615 putative substrate binding site 1 [chemical binding]; other site 374833000616 Na binding site 1 [ion binding]; other site 374833000617 putative substrate binding site 2 [chemical binding]; other site 374833000618 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833000619 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 374833000620 oligomerisation interface [polypeptide binding]; other site 374833000621 mobile loop; other site 374833000622 roof hairpin; other site 374833000623 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 374833000624 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 374833000625 ring oligomerisation interface [polypeptide binding]; other site 374833000626 ATP/Mg binding site [chemical binding]; other site 374833000627 stacking interactions; other site 374833000628 hinge regions; other site 374833000629 Protein of unknown function (DUF560); Region: DUF560; pfam04575 374833000630 aminodeoxychorismate synthase; Provisional; Region: PRK07508 374833000631 chorismate binding enzyme; Region: Chorismate_bind; cl10555 374833000632 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 374833000633 homodimer interface [polypeptide binding]; other site 374833000634 substrate-cofactor binding pocket; other site 374833000635 Aminotransferase class IV; Region: Aminotran_4; pfam01063 374833000636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833000637 catalytic residue [active] 374833000638 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 374833000639 catalytic triad [active] 374833000640 putative active site [active] 374833000641 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 374833000642 Autotransporter beta-domain; Region: Autotransporter; pfam03797 374833000643 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 374833000644 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 374833000645 NAD binding site [chemical binding]; other site 374833000646 catalytic residues [active] 374833000647 substrate binding site [chemical binding]; other site 374833000648 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 374833000649 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 374833000650 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 374833000651 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 374833000652 Walker A/P-loop; other site 374833000653 ATP binding site [chemical binding]; other site 374833000654 Q-loop/lid; other site 374833000655 ABC transporter signature motif; other site 374833000656 Walker B; other site 374833000657 D-loop; other site 374833000658 H-loop/switch region; other site 374833000659 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 374833000660 Permease; Region: Permease; pfam02405 374833000661 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 374833000662 mce related protein; Region: MCE; pfam02470 374833000663 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 374833000664 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 374833000665 anti sigma factor interaction site; other site 374833000666 regulatory phosphorylation site [posttranslational modification]; other site 374833000667 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 374833000668 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 374833000669 active site 374833000670 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 374833000671 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 374833000672 catalytic residues [active] 374833000673 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 374833000674 putative trimer interface [polypeptide binding]; other site 374833000675 putative CoA binding site [chemical binding]; other site 374833000676 ribosomal protein L31; Region: L31; TIGR00105 374833000677 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 374833000678 Cadmium resistance transporter; Region: Cad; pfam03596 374833000679 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 374833000680 stringent starvation protein A; Provisional; Region: sspA; PRK09481 374833000681 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 374833000682 C-terminal domain interface [polypeptide binding]; other site 374833000683 putative GSH binding site (G-site) [chemical binding]; other site 374833000684 dimer interface [polypeptide binding]; other site 374833000685 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 374833000686 dimer interface [polypeptide binding]; other site 374833000687 N-terminal domain interface [polypeptide binding]; other site 374833000688 Stringent starvation protein B; Region: SspB; cl01120 374833000689 Uncharacterized conserved protein [Function unknown]; Region: COG1610 374833000690 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 374833000691 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 374833000692 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 374833000693 N-acetyl-D-glucosamine binding site [chemical binding]; other site 374833000694 catalytic residue [active] 374833000695 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 374833000696 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 374833000697 Walker A/P-loop; other site 374833000698 ATP binding site [chemical binding]; other site 374833000699 Q-loop/lid; other site 374833000700 ABC transporter signature motif; other site 374833000701 Walker B; other site 374833000702 D-loop; other site 374833000703 H-loop/switch region; other site 374833000704 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 374833000705 dimer interface [polypeptide binding]; other site 374833000706 conserved gate region; other site 374833000707 ABC-ATPase subunit interface; other site 374833000708 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 374833000709 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 374833000710 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 374833000711 Flavoprotein; Region: Flavoprotein; pfam02441 374833000712 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 374833000713 ParB-like nuclease domain; Region: ParBc; pfam02195 374833000714 KorB domain; Region: KorB; pfam08535 374833000715 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 374833000716 Helix-turn-helix domain; Region: HTH_38; pfam13936 374833000717 Homeodomain-like domain; Region: HTH_32; pfam13565 374833000718 Integrase core domain; Region: rve; pfam00665 374833000719 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 374833000720 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 374833000721 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 374833000722 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 374833000723 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 374833000724 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 374833000725 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 374833000726 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 374833000727 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 374833000728 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 374833000729 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 374833000730 beta subunit interaction interface [polypeptide binding]; other site 374833000731 Walker A motif; other site 374833000732 ATP binding site [chemical binding]; other site 374833000733 Walker B motif; other site 374833000734 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 374833000735 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 374833000736 core domain interface [polypeptide binding]; other site 374833000737 delta subunit interface [polypeptide binding]; other site 374833000738 epsilon subunit interface [polypeptide binding]; other site 374833000739 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 374833000740 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 374833000741 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 374833000742 alpha subunit interaction interface [polypeptide binding]; other site 374833000743 Walker A motif; other site 374833000744 ATP binding site [chemical binding]; other site 374833000745 Walker B motif; other site 374833000746 inhibitor binding site; inhibition site 374833000747 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 374833000748 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 374833000749 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 374833000750 gamma subunit interface [polypeptide binding]; other site 374833000751 epsilon subunit interface [polypeptide binding]; other site 374833000752 LBP interface [polypeptide binding]; other site 374833000753 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 374833000754 dimer interface [polypeptide binding]; other site 374833000755 motif 1; other site 374833000756 active site 374833000757 motif 2; other site 374833000758 motif 3; other site 374833000759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3171 374833000760 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 374833000761 DALR anticodon binding domain; Region: DALR_1; pfam05746 374833000762 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 374833000763 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 374833000764 active site 374833000765 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 374833000766 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 374833000767 RNA methyltransferase, RsmE family; Region: TIGR00046 374833000768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 374833000769 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 374833000770 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 374833000771 active site 374833000772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 374833000773 SEC-C motif; Region: SEC-C; pfam02810 374833000774 Transposase domain (DUF772); Region: DUF772; pfam05598 374833000775 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833000776 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833000777 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 374833000778 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 374833000779 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 374833000780 NAD(P) binding site [chemical binding]; other site 374833000781 homotetramer interface [polypeptide binding]; other site 374833000782 homodimer interface [polypeptide binding]; other site 374833000783 active site 374833000784 GMP synthase; Reviewed; Region: guaA; PRK00074 374833000785 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 374833000786 AMP/PPi binding site [chemical binding]; other site 374833000787 candidate oxyanion hole; other site 374833000788 catalytic triad [active] 374833000789 potential glutamine specificity residues [chemical binding]; other site 374833000790 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 374833000791 ATP Binding subdomain [chemical binding]; other site 374833000792 Ligand Binding sites [chemical binding]; other site 374833000793 Dimerization subdomain; other site 374833000794 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 374833000795 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 374833000796 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 374833000797 Walker A/P-loop; other site 374833000798 ATP binding site [chemical binding]; other site 374833000799 Q-loop/lid; other site 374833000800 ABC transporter signature motif; other site 374833000801 Walker B; other site 374833000802 D-loop; other site 374833000803 H-loop/switch region; other site 374833000804 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 374833000805 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 374833000806 Predicted membrane protein [Function unknown]; Region: COG3326 374833000807 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 374833000808 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 374833000809 dimer interface [polypeptide binding]; other site 374833000810 active site 374833000811 CoA binding pocket [chemical binding]; other site 374833000812 putative phosphate acyltransferase; Provisional; Region: PRK05331 374833000813 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 374833000814 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374833000815 active site 374833000816 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 374833000817 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 374833000818 Maf-like protein; Region: Maf; pfam02545 374833000819 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 374833000820 active site 374833000821 dimer interface [polypeptide binding]; other site 374833000822 Predicted methyltransferases [General function prediction only]; Region: COG0313 374833000823 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 374833000824 putative SAM binding site [chemical binding]; other site 374833000825 homodimer interface [polypeptide binding]; other site 374833000826 membrane protein insertase; Provisional; Region: PRK01318 374833000827 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 374833000828 hypothetical protein; Provisional; Region: PRK14373 374833000829 ribonuclease P; Reviewed; Region: rnpA; PRK04390 374833000830 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 374833000831 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 374833000832 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 374833000833 Walker A motif; other site 374833000834 ATP binding site [chemical binding]; other site 374833000835 Walker B motif; other site 374833000836 arginine finger; other site 374833000837 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 374833000838 DnaA box-binding interface [nucleotide binding]; other site 374833000839 DNA polymerase III subunit beta; Validated; Region: PRK05643 374833000840 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 374833000841 putative DNA binding surface [nucleotide binding]; other site 374833000842 dimer interface [polypeptide binding]; other site 374833000843 beta-clamp/clamp loader binding surface; other site 374833000844 beta-clamp/translesion DNA polymerase binding surface; other site 374833000845 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833000846 polyphosphate kinase; Provisional; Region: PRK05443 374833000847 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 374833000848 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 374833000849 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 374833000850 putative domain interface [polypeptide binding]; other site 374833000851 putative active site [active] 374833000852 catalytic site [active] 374833000853 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 374833000854 putative domain interface [polypeptide binding]; other site 374833000855 putative active site [active] 374833000856 catalytic site [active] 374833000857 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 374833000858 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 374833000859 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 374833000860 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 374833000861 HIGH motif; other site 374833000862 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 374833000863 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374833000864 active site 374833000865 KMSKS motif; other site 374833000866 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 374833000867 tRNA binding surface [nucleotide binding]; other site 374833000868 Dam-replacing family; Region: DRP; pfam06044 374833000869 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 374833000870 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 374833000871 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 374833000872 Predicted transcriptional regulator [Transcription]; Region: COG2944 374833000873 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 374833000874 non-specific DNA binding site [nucleotide binding]; other site 374833000875 salt bridge; other site 374833000876 sequence-specific DNA binding site [nucleotide binding]; other site 374833000877 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 374833000878 triosephosphate isomerase; Provisional; Region: PRK14567 374833000879 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 374833000880 substrate binding site [chemical binding]; other site 374833000881 dimer interface [polypeptide binding]; other site 374833000882 catalytic triad [active] 374833000883 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 374833000884 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 374833000885 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 374833000886 S-adenosylmethionine binding site [chemical binding]; other site 374833000887 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 374833000888 active site residue [active] 374833000889 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 374833000890 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 374833000891 N-terminal plug; other site 374833000892 ligand-binding site [chemical binding]; other site 374833000893 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 374833000894 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 374833000895 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 374833000896 putative ligand binding residues [chemical binding]; other site 374833000897 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 374833000898 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 374833000899 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 374833000900 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 374833000901 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 374833000902 putative feedback inhibition sensing region; other site 374833000903 putative nucleotide binding site [chemical binding]; other site 374833000904 putative substrate binding site [chemical binding]; other site 374833000905 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 374833000906 Coenzyme A binding pocket [chemical binding]; other site 374833000907 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 374833000908 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374833000909 active site 374833000910 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 374833000911 active site 374833000912 Fe-S cluster binding site [ion binding]; other site 374833000913 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 374833000914 Coenzyme A binding pocket [chemical binding]; other site 374833000915 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 374833000916 Glycoprotease family; Region: Peptidase_M22; pfam00814 374833000917 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 374833000918 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 374833000919 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 374833000920 intersubunit interface [polypeptide binding]; other site 374833000921 active site 374833000922 zinc binding site [ion binding]; other site 374833000923 Na+ binding site [ion binding]; other site 374833000924 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 374833000925 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 374833000926 active site 374833000927 Int/Topo IB signature motif; other site 374833000928 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 374833000929 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 374833000930 TPP-binding site; other site 374833000931 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 374833000932 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 374833000933 PYR/PP interface [polypeptide binding]; other site 374833000934 dimer interface [polypeptide binding]; other site 374833000935 TPP binding site [chemical binding]; other site 374833000936 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 374833000937 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 374833000938 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 374833000939 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 374833000940 FeS/SAM binding site; other site 374833000941 TRAM domain; Region: TRAM; pfam01938 374833000942 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 374833000943 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 374833000944 inhibitor-cofactor binding pocket; inhibition site 374833000945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833000946 catalytic residue [active] 374833000947 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 374833000948 catalytic site [active] 374833000949 putative active site [active] 374833000950 putative substrate binding site [chemical binding]; other site 374833000951 dimer interface [polypeptide binding]; other site 374833000952 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 374833000953 DNA methylase; Region: N6_N4_Mtase; cl17433 374833000954 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 374833000955 S-adenosylmethionine binding site [chemical binding]; other site 374833000956 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 374833000957 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 374833000958 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 374833000959 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 374833000960 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 374833000961 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 374833000962 carboxyltransferase (CT) interaction site; other site 374833000963 biotinylation site [posttranslational modification]; other site 374833000964 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 374833000965 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 374833000966 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 374833000967 Transcriptional regulator [Transcription]; Region: LysR; COG0583 374833000968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374833000969 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 374833000970 putative effector binding pocket; other site 374833000971 dimerization interface [polypeptide binding]; other site 374833000972 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 374833000973 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 374833000974 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 374833000975 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 374833000976 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 374833000977 ATP-grasp domain; Region: ATP-grasp_4; cl17255 374833000978 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 374833000979 IMP binding site; other site 374833000980 dimer interface [polypeptide binding]; other site 374833000981 interdomain contacts; other site 374833000982 partial ornithine binding site; other site 374833000983 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 374833000984 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374833000985 active site 374833000986 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 374833000987 putative active site [active] 374833000988 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 374833000989 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 374833000990 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 374833000991 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 374833000992 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 374833000993 catalytic site [active] 374833000994 subunit interface [polypeptide binding]; other site 374833000995 PhnA protein; Region: PhnA; pfam03831 374833000996 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 374833000997 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 374833000998 antiporter inner membrane protein; Provisional; Region: PRK11670 374833000999 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 374833001000 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 374833001001 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 374833001002 MarR family; Region: MarR_2; cl17246 374833001003 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 374833001004 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 374833001005 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 374833001006 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 374833001007 Substrate binding site; other site 374833001008 metal-binding site 374833001009 Predicted membrane protein [Function unknown]; Region: COG2510 374833001010 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 374833001011 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 374833001012 Potassium binding sites [ion binding]; other site 374833001013 Cesium cation binding sites [ion binding]; other site 374833001014 GTP-binding protein YchF; Reviewed; Region: PRK09601 374833001015 YchF GTPase; Region: YchF; cd01900 374833001016 G1 box; other site 374833001017 GTP/Mg2+ binding site [chemical binding]; other site 374833001018 Switch I region; other site 374833001019 G2 box; other site 374833001020 Switch II region; other site 374833001021 G3 box; other site 374833001022 G4 box; other site 374833001023 G5 box; other site 374833001024 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 374833001025 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 374833001026 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 374833001027 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 374833001028 active site 374833001029 HIGH motif; other site 374833001030 dimer interface [polypeptide binding]; other site 374833001031 KMSKS motif; other site 374833001032 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 374833001033 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 374833001034 active site 374833001035 Riboflavin kinase; Region: Flavokinase; smart00904 374833001036 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 374833001037 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374833001038 active site 374833001039 HIGH motif; other site 374833001040 nucleotide binding site [chemical binding]; other site 374833001041 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 374833001042 active site 374833001043 KMSKS motif; other site 374833001044 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 374833001045 tRNA binding surface [nucleotide binding]; other site 374833001046 anticodon binding site; other site 374833001047 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 374833001048 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 374833001049 lipoprotein signal peptidase; Provisional; Region: PRK14787 374833001050 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 374833001051 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 374833001052 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 374833001053 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 374833001054 motif II; other site 374833001055 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 374833001056 Transposase domain (DUF772); Region: DUF772; pfam05598 374833001057 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833001058 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 374833001059 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 374833001060 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 374833001061 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 374833001062 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 374833001063 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 374833001064 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 374833001065 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 374833001066 putative active site [active] 374833001067 putative PHP Thumb interface [polypeptide binding]; other site 374833001068 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 374833001069 generic binding surface II; other site 374833001070 generic binding surface I; other site 374833001071 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 374833001072 RNA binding surface [nucleotide binding]; other site 374833001073 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 374833001074 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 374833001075 active site 374833001076 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 374833001077 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]; Region: COG3977 374833001078 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 374833001079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833001080 homodimer interface [polypeptide binding]; other site 374833001081 catalytic residue [active] 374833001082 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 374833001083 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 374833001084 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 374833001085 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 374833001086 NAD(P) binding site [chemical binding]; other site 374833001087 homodimer interface [polypeptide binding]; other site 374833001088 substrate binding site [chemical binding]; other site 374833001089 active site 374833001090 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 374833001091 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 374833001092 inhibitor-cofactor binding pocket; inhibition site 374833001093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833001094 catalytic residue [active] 374833001095 Bacterial sugar transferase; Region: Bac_transf; pfam02397 374833001096 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 374833001097 ATP-grasp domain; Region: ATP-grasp_4; cl17255 374833001098 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 374833001099 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 374833001100 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 374833001101 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 374833001102 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 374833001103 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 374833001104 catalytic motif [active] 374833001105 Zn binding site [ion binding]; other site 374833001106 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 374833001107 RibD C-terminal domain; Region: RibD_C; cl17279 374833001108 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 374833001109 ATP cone domain; Region: ATP-cone; pfam03477 374833001110 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 374833001111 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 374833001112 putative active site [active] 374833001113 putative dimer interface [polypeptide binding]; other site 374833001114 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 374833001115 active site 374833001116 dimer interface [polypeptide binding]; other site 374833001117 metal binding site [ion binding]; metal-binding site 374833001118 shikimate kinase; Reviewed; Region: aroK; PRK00131 374833001119 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 374833001120 ADP binding site [chemical binding]; other site 374833001121 magnesium binding site [ion binding]; other site 374833001122 putative shikimate binding site; other site 374833001123 AMIN domain; Region: AMIN; pfam11741 374833001124 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 374833001125 Secretin and TonB N terminus short domain; Region: STN; pfam07660 374833001126 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 374833001127 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 374833001128 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 374833001129 Pilus assembly protein, PilP; Region: PilP; pfam04351 374833001130 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 374833001131 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 374833001132 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 374833001133 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 374833001134 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 374833001135 Transglycosylase; Region: Transgly; pfam00912 374833001136 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 374833001137 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 374833001138 G1 box; other site 374833001139 GTP/Mg2+ binding site [chemical binding]; other site 374833001140 Switch I region; other site 374833001141 G2 box; other site 374833001142 G3 box; other site 374833001143 Switch II region; other site 374833001144 G4 box; other site 374833001145 G5 box; other site 374833001146 Cytochrome c553 [Energy production and conversion]; Region: COG2863 374833001147 Cytochrome c; Region: Cytochrom_C; cl11414 374833001148 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 374833001149 ResB-like family; Region: ResB; pfam05140 374833001150 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 374833001151 UGMP family protein; Validated; Region: PRK09604 374833001152 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 374833001153 putative acyl-acceptor binding pocket; other site 374833001154 S-adenosylmethionine synthetase; Validated; Region: PRK05250 374833001155 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 374833001156 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 374833001157 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 374833001158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833001159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833001160 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 374833001161 Predicted flavoprotein [General function prediction only]; Region: COG0431 374833001162 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 374833001163 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 374833001164 Citrate transporter; Region: CitMHS; pfam03600 374833001165 sensor protein QseC; Provisional; Region: PRK10337 374833001166 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 374833001167 dimer interface [polypeptide binding]; other site 374833001168 phosphorylation site [posttranslational modification] 374833001169 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 374833001170 ATP binding site [chemical binding]; other site 374833001171 Mg2+ binding site [ion binding]; other site 374833001172 G-X-G motif; other site 374833001173 ribonuclease G; Provisional; Region: PRK11712 374833001174 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 374833001175 homodimer interface [polypeptide binding]; other site 374833001176 oligonucleotide binding site [chemical binding]; other site 374833001177 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 374833001178 GSH binding site [chemical binding]; other site 374833001179 catalytic residues [active] 374833001180 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 374833001181 SecA binding site; other site 374833001182 Preprotein binding site; other site 374833001183 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 374833001184 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 374833001185 generic binding surface II; other site 374833001186 ssDNA binding site; other site 374833001187 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 374833001188 ATP binding site [chemical binding]; other site 374833001189 putative Mg++ binding site [ion binding]; other site 374833001190 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 374833001191 nucleotide binding region [chemical binding]; other site 374833001192 ATP-binding site [chemical binding]; other site 374833001193 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 374833001194 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 374833001195 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 374833001196 Uncharacterized conserved protein [Function unknown]; Region: COG2850 374833001197 Uncharacterized conserved protein [Function unknown]; Region: COG2850 374833001198 Cupin-like domain; Region: Cupin_8; pfam13621 374833001199 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 374833001200 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 374833001201 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 374833001202 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 374833001203 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 374833001204 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 374833001205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 374833001206 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 374833001207 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 374833001208 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 374833001209 Ligand Binding Site [chemical binding]; other site 374833001210 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 374833001211 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 374833001212 active site 374833001213 Predicted membrane protein [Function unknown]; Region: COG3759 374833001214 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 374833001215 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 374833001216 FeS/SAM binding site; other site 374833001217 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 374833001218 beta-hexosaminidase; Provisional; Region: PRK05337 374833001219 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 374833001220 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 374833001221 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 374833001222 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 374833001223 protein binding site [polypeptide binding]; other site 374833001224 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 374833001225 protein binding site [polypeptide binding]; other site 374833001226 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 374833001227 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 374833001228 minor groove reading motif; other site 374833001229 helix-hairpin-helix signature motif; other site 374833001230 substrate binding pocket [chemical binding]; other site 374833001231 active site 374833001232 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 374833001233 Predicted membrane protein [Function unknown]; Region: COG1238 374833001234 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 374833001235 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 374833001236 putative substrate translocation pore; other site 374833001237 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 374833001238 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 374833001239 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 374833001240 Transporter associated domain; Region: CorC_HlyC; smart01091 374833001241 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 374833001242 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 374833001243 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 374833001244 domain interfaces; other site 374833001245 active site 374833001246 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 374833001247 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 374833001248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833001249 homodimer interface [polypeptide binding]; other site 374833001250 catalytic residue [active] 374833001251 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 374833001252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 374833001253 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 374833001254 L-lactate permease; Region: Lactate_perm; cl00701 374833001255 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 374833001256 putative active site [active] 374833001257 putative metal binding site [ion binding]; other site 374833001258 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 374833001259 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 374833001260 Walker A/P-loop; other site 374833001261 ATP binding site [chemical binding]; other site 374833001262 Q-loop/lid; other site 374833001263 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 374833001264 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 374833001265 ABC transporter signature motif; other site 374833001266 Walker B; other site 374833001267 D-loop; other site 374833001268 H-loop/switch region; other site 374833001269 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 374833001270 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 374833001271 NAD binding site [chemical binding]; other site 374833001272 substrate binding site [chemical binding]; other site 374833001273 catalytic Zn binding site [ion binding]; other site 374833001274 tetramer interface [polypeptide binding]; other site 374833001275 structural Zn binding site [ion binding]; other site 374833001276 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 374833001277 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 374833001278 macrolide transporter subunit MacA; Provisional; Region: PRK11578 374833001279 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 374833001280 HlyD family secretion protein; Region: HlyD_3; pfam13437 374833001281 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 374833001282 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 374833001283 Walker A/P-loop; other site 374833001284 ATP binding site [chemical binding]; other site 374833001285 Q-loop/lid; other site 374833001286 ABC transporter signature motif; other site 374833001287 Walker B; other site 374833001288 D-loop; other site 374833001289 H-loop/switch region; other site 374833001290 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 374833001291 FtsX-like permease family; Region: FtsX; pfam02687 374833001292 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 374833001293 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 374833001294 dimerization domain [polypeptide binding]; other site 374833001295 dimer interface [polypeptide binding]; other site 374833001296 catalytic residues [active] 374833001297 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 374833001298 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 374833001299 ATP binding site [chemical binding]; other site 374833001300 putative Mg++ binding site [ion binding]; other site 374833001301 helicase superfamily c-terminal domain; Region: HELICc; smart00490 374833001302 ATP-binding site [chemical binding]; other site 374833001303 Transposase; Region: DEDD_Tnp_IS110; pfam01548 374833001304 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 374833001305 B-Box C-terminal domain; Region: BBC; smart00502 374833001306 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 374833001307 Transposase domain (DUF772); Region: DUF772; pfam05598 374833001308 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833001309 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833001310 Transposase domain (DUF772); Region: DUF772; pfam05598 374833001311 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833001312 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833001313 Transposase; Region: DEDD_Tnp_IS110; pfam01548 374833001314 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 374833001315 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 374833001316 nucleotide binding site [chemical binding]; other site 374833001317 NEF interaction site [polypeptide binding]; other site 374833001318 SBD interface [polypeptide binding]; other site 374833001319 Predicted transcriptional regulator [Transcription]; Region: COG2932 374833001320 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 374833001321 Catalytic site [active] 374833001322 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 374833001323 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 374833001324 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 374833001325 serine acetyltransferase; Provisional; Region: cysE; PRK11132 374833001326 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 374833001327 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 374833001328 trimer interface [polypeptide binding]; other site 374833001329 active site 374833001330 substrate binding site [chemical binding]; other site 374833001331 CoA binding site [chemical binding]; other site 374833001332 GrpE; Region: GrpE; pfam01025 374833001333 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 374833001334 dimer interface [polypeptide binding]; other site 374833001335 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 374833001336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 374833001337 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 374833001338 ApbE family; Region: ApbE; pfam02424 374833001339 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 374833001340 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 374833001341 catalytic loop [active] 374833001342 iron binding site [ion binding]; other site 374833001343 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 374833001344 FAD binding pocket [chemical binding]; other site 374833001345 FAD binding motif [chemical binding]; other site 374833001346 phosphate binding motif [ion binding]; other site 374833001347 beta-alpha-beta structure motif; other site 374833001348 NAD binding pocket [chemical binding]; other site 374833001349 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 374833001350 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 374833001351 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 374833001352 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 374833001353 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 374833001354 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 374833001355 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 374833001356 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 374833001357 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 374833001358 transmembrane helices; other site 374833001359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 374833001360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 374833001361 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 374833001362 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 374833001363 putative DNA binding site [nucleotide binding]; other site 374833001364 putative Zn2+ binding site [ion binding]; other site 374833001365 AsnC family; Region: AsnC_trans_reg; pfam01037 374833001366 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 374833001367 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 374833001368 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 374833001369 lipoyl attachment site [posttranslational modification]; other site 374833001370 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 374833001371 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 374833001372 tRNA; other site 374833001373 putative tRNA binding site [nucleotide binding]; other site 374833001374 putative NADP binding site [chemical binding]; other site 374833001375 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 374833001376 FMN-binding domain; Region: FMN_bind; cl01081 374833001377 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 374833001378 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 374833001379 Walker A/P-loop; other site 374833001380 ATP binding site [chemical binding]; other site 374833001381 Q-loop/lid; other site 374833001382 ABC transporter signature motif; other site 374833001383 Walker B; other site 374833001384 D-loop; other site 374833001385 H-loop/switch region; other site 374833001386 NosL; Region: NosL; cl01769 374833001387 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 374833001388 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 374833001389 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 374833001390 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 374833001391 Predicted double-glycine peptidase [General function prediction only]; Region: COG3271 374833001392 putative active site [active] 374833001393 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833001394 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 374833001395 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 374833001396 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 374833001397 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 374833001398 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 374833001399 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 374833001400 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 374833001401 metal binding site [ion binding]; metal-binding site 374833001402 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 374833001403 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; cl00462 374833001404 dimer interface [polypeptide binding]; other site 374833001405 putative PBP binding regions; other site 374833001406 ABC-ATPase subunit interface; other site 374833001407 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 374833001408 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 374833001409 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 374833001410 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 374833001411 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 374833001412 RimM N-terminal domain; Region: RimM; pfam01782 374833001413 PRC-barrel domain; Region: PRC; pfam05239 374833001414 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 374833001415 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 374833001416 CoA binding domain; Region: CoA_binding_2; pfam13380 374833001417 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 374833001418 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 374833001419 Coenzyme A binding pocket [chemical binding]; other site 374833001420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 374833001421 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 374833001422 dimerization interface [polypeptide binding]; other site 374833001423 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 374833001424 dimer interface [polypeptide binding]; other site 374833001425 phosphorylation site [posttranslational modification] 374833001426 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 374833001427 ATP binding site [chemical binding]; other site 374833001428 Mg2+ binding site [ion binding]; other site 374833001429 G-X-G motif; other site 374833001430 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 374833001431 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 374833001432 active site 374833001433 phosphorylation site [posttranslational modification] 374833001434 intermolecular recognition site; other site 374833001435 dimerization interface [polypeptide binding]; other site 374833001436 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 374833001437 DNA binding site [nucleotide binding] 374833001438 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 374833001439 O-Antigen ligase; Region: Wzy_C; pfam04932 374833001440 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 374833001441 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 374833001442 Maf-like protein; Region: Maf; pfam02545 374833001443 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 374833001444 active site 374833001445 dimer interface [polypeptide binding]; other site 374833001446 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 374833001447 sec-independent translocase; Provisional; Region: PRK00708 374833001448 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 374833001449 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 374833001450 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 374833001451 nucleotide binding site/active site [active] 374833001452 HIT family signature motif; other site 374833001453 catalytic residue [active] 374833001454 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 374833001455 metal binding site [ion binding]; metal-binding site 374833001456 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 374833001457 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 374833001458 putative NAD(P) binding site [chemical binding]; other site 374833001459 catalytic Zn binding site [ion binding]; other site 374833001460 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 374833001461 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 374833001462 putative active site [active] 374833001463 Zn binding site [ion binding]; other site 374833001464 Preprotein translocase subunit; Region: YajC; pfam02699 374833001465 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 374833001466 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 374833001467 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 374833001468 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 374833001469 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 374833001470 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 374833001471 Protein export membrane protein; Region: SecD_SecF; pfam02355 374833001472 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 374833001473 16S/18S rRNA binding site [nucleotide binding]; other site 374833001474 S13e-L30e interaction site [polypeptide binding]; other site 374833001475 25S rRNA binding site [nucleotide binding]; other site 374833001476 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 374833001477 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374833001478 Walker A/P-loop; other site 374833001479 ATP binding site [chemical binding]; other site 374833001480 Q-loop/lid; other site 374833001481 ABC transporter signature motif; other site 374833001482 Walker B; other site 374833001483 D-loop; other site 374833001484 H-loop/switch region; other site 374833001485 TOBE domain; Region: TOBE_2; pfam08402 374833001486 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 374833001487 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 374833001488 dimer interface [polypeptide binding]; other site 374833001489 conserved gate region; other site 374833001490 putative PBP binding loops; other site 374833001491 ABC-ATPase subunit interface; other site 374833001492 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 374833001493 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 374833001494 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 374833001495 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833001496 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833001497 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833001498 transcription termination factor Rho; Provisional; Region: rho; PRK09376 374833001499 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 374833001500 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 374833001501 RNA binding site [nucleotide binding]; other site 374833001502 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 374833001503 multimer interface [polypeptide binding]; other site 374833001504 Walker A motif; other site 374833001505 ATP binding site [chemical binding]; other site 374833001506 Walker B motif; other site 374833001507 phosphoenolpyruvate synthase; Validated; Region: PRK06464 374833001508 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 374833001509 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 374833001510 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 374833001511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 374833001512 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 374833001513 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 374833001514 motif II; other site 374833001515 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 374833001516 dinuclear metal binding motif [ion binding]; other site 374833001517 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 374833001518 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 374833001519 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 374833001520 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 374833001521 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 374833001522 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 374833001523 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 374833001524 trimer interface [polypeptide binding]; other site 374833001525 putative metal binding site [ion binding]; other site 374833001526 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 374833001527 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 374833001528 G1 box; other site 374833001529 putative GEF interaction site [polypeptide binding]; other site 374833001530 GTP/Mg2+ binding site [chemical binding]; other site 374833001531 Switch I region; other site 374833001532 G2 box; other site 374833001533 G3 box; other site 374833001534 Switch II region; other site 374833001535 G4 box; other site 374833001536 G5 box; other site 374833001537 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 374833001538 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 374833001539 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 374833001540 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 374833001541 substrate binding site [chemical binding]; other site 374833001542 glutamase interaction surface [polypeptide binding]; other site 374833001543 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 374833001544 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 374833001545 catalytic residues [active] 374833001546 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 374833001547 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 374833001548 putative active site [active] 374833001549 oxyanion strand; other site 374833001550 catalytic triad [active] 374833001551 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 374833001552 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 374833001553 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 374833001554 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 374833001555 Walker A/P-loop; other site 374833001556 ATP binding site [chemical binding]; other site 374833001557 Q-loop/lid; other site 374833001558 ABC transporter signature motif; other site 374833001559 Walker B; other site 374833001560 D-loop; other site 374833001561 H-loop/switch region; other site 374833001562 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 374833001563 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 374833001564 dimer interface [polypeptide binding]; other site 374833001565 conserved gate region; other site 374833001566 putative PBP binding loops; other site 374833001567 ABC-ATPase subunit interface; other site 374833001568 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 374833001569 dimer interface [polypeptide binding]; other site 374833001570 conserved gate region; other site 374833001571 ABC-ATPase subunit interface; other site 374833001572 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 374833001573 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 374833001574 argininosuccinate lyase; Provisional; Region: PRK00855 374833001575 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 374833001576 active sites [active] 374833001577 tetramer interface [polypeptide binding]; other site 374833001578 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 374833001579 active site 374833001580 tetramer interface; other site 374833001581 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 374833001582 active site 374833001583 dimerization interface [polypeptide binding]; other site 374833001584 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 374833001585 dimer interface [polypeptide binding]; other site 374833001586 substrate binding site [chemical binding]; other site 374833001587 metal binding sites [ion binding]; metal-binding site 374833001588 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 374833001589 nudix motif; other site 374833001590 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 374833001591 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 374833001592 RNAase interaction site [polypeptide binding]; other site 374833001593 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 374833001594 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 374833001595 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 374833001596 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 374833001597 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 374833001598 active site 374833001599 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 374833001600 Pretoxin HINT domain; Region: PT-HINT; pfam07591 374833001601 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 374833001602 thioester formation/cholesterol transfer; other site 374833001603 protein-splicing catalytic site; other site 374833001604 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 374833001605 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 374833001606 Pretoxin HINT domain; Region: PT-HINT; pfam07591 374833001607 Cation transport protein; Region: TrkH; cl17365 374833001608 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 374833001609 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 374833001610 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 374833001611 active site 374833001612 metal binding site [ion binding]; metal-binding site 374833001613 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 374833001614 homotrimer interaction site [polypeptide binding]; other site 374833001615 putative active site [active] 374833001616 Opacity family porin protein; Region: Opacity; pfam02462 374833001617 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 374833001618 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 374833001619 FeS/SAM binding site; other site 374833001620 HemN C-terminal domain; Region: HemN_C; pfam06969 374833001621 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 374833001622 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 374833001623 nucleotide binding pocket [chemical binding]; other site 374833001624 K-X-D-G motif; other site 374833001625 catalytic site [active] 374833001626 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 374833001627 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 374833001628 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 374833001629 Dimer interface [polypeptide binding]; other site 374833001630 BRCT sequence motif; other site 374833001631 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 374833001632 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 374833001633 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 374833001634 amidase catalytic site [active] 374833001635 Zn binding residues [ion binding]; other site 374833001636 substrate binding site [chemical binding]; other site 374833001637 YceG-like family; Region: YceG; pfam02618 374833001638 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 374833001639 dimerization interface [polypeptide binding]; other site 374833001640 thymidylate kinase; Validated; Region: tmk; PRK00698 374833001641 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 374833001642 TMP-binding site; other site 374833001643 ATP-binding site [chemical binding]; other site 374833001644 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 374833001645 Malic enzyme, N-terminal domain; Region: malic; pfam00390 374833001646 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 374833001647 putative NAD(P) binding site [chemical binding]; other site 374833001648 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 374833001649 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 374833001650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 374833001651 Uncharacterized conserved protein [Function unknown]; Region: COG2835 374833001652 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 374833001653 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 374833001654 Ligand binding site; other site 374833001655 oligomer interface; other site 374833001656 conjugal transfer ATP-binding protein TraC; Provisional; Region: PRK13721 374833001657 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 374833001658 substrate binding site [chemical binding]; other site 374833001659 active site 374833001660 catalytic residues [active] 374833001661 heterodimer interface [polypeptide binding]; other site 374833001662 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 374833001663 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 374833001664 CNP1-like family; Region: CNP1; pfam08750 374833001665 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 374833001666 CPxP motif; other site 374833001667 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 374833001668 active site 374833001669 substrate binding pocket [chemical binding]; other site 374833001670 dimer interface [polypeptide binding]; other site 374833001671 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 374833001672 putative RNA binding site [nucleotide binding]; other site 374833001673 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 374833001674 homopentamer interface [polypeptide binding]; other site 374833001675 active site 374833001676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 374833001677 ribonuclease III; Reviewed; Region: rnc; PRK00102 374833001678 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 374833001679 dimerization interface [polypeptide binding]; other site 374833001680 active site 374833001681 metal binding site [ion binding]; metal-binding site 374833001682 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 374833001683 dsRNA binding site [nucleotide binding]; other site 374833001684 GTPase Era; Reviewed; Region: era; PRK00089 374833001685 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 374833001686 G1 box; other site 374833001687 GTP/Mg2+ binding site [chemical binding]; other site 374833001688 Switch I region; other site 374833001689 G2 box; other site 374833001690 Switch II region; other site 374833001691 G3 box; other site 374833001692 G4 box; other site 374833001693 G5 box; other site 374833001694 KH domain; Region: KH_2; pfam07650 374833001695 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 374833001696 active site 374833001697 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 374833001698 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 374833001699 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 374833001700 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 374833001701 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 374833001702 active site 374833001703 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374833001704 active site 374833001705 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 374833001706 Colicin V production protein; Region: Colicin_V; pfam02674 374833001707 cell division protein FtsN; Region: ftsN; TIGR02223 374833001708 Sporulation related domain; Region: SPOR; pfam05036 374833001709 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 374833001710 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374833001711 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374833001712 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 374833001713 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 374833001714 Walker A/P-loop; other site 374833001715 ATP binding site [chemical binding]; other site 374833001716 Q-loop/lid; other site 374833001717 ABC transporter signature motif; other site 374833001718 Walker B; other site 374833001719 D-loop; other site 374833001720 H-loop/switch region; other site 374833001721 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 374833001722 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 374833001723 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 374833001724 putative active site [active] 374833001725 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 374833001726 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 374833001727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833001728 catalytic residue [active] 374833001729 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 374833001730 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 374833001731 Autotransporter beta-domain; Region: Autotransporter; pfam03797 374833001732 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 374833001733 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 374833001734 Competence protein; Region: Competence; pfam03772 374833001735 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 374833001736 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 374833001737 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 374833001738 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 374833001739 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 374833001740 RNA binding surface [nucleotide binding]; other site 374833001741 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 374833001742 active site 374833001743 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 374833001744 Sodium Bile acid symporter family; Region: SBF; pfam01758 374833001745 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 374833001746 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 374833001747 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 374833001748 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 374833001749 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 374833001750 Predicted membrane protein/domain [Function unknown]; Region: COG1714 374833001751 hypothetical protein; Provisional; Region: PRK11820 374833001752 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 374833001753 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 374833001754 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 374833001755 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 374833001756 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 374833001757 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 374833001758 DNA binding residues [nucleotide binding] 374833001759 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 374833001760 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 374833001761 putative active site [active] 374833001762 catalytic triad [active] 374833001763 putative dimer interface [polypeptide binding]; other site 374833001764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 374833001765 potassium/proton antiporter; Reviewed; Region: PRK05326 374833001766 potassium/proton antiporter; Reviewed; Region: PRK05326 374833001767 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 374833001768 Cytochrome c; Region: Cytochrom_C; pfam00034 374833001769 ferrochelatase; Reviewed; Region: hemH; PRK00035 374833001770 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 374833001771 C-terminal domain interface [polypeptide binding]; other site 374833001772 active site 374833001773 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 374833001774 active site 374833001775 N-terminal domain interface [polypeptide binding]; other site 374833001776 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 374833001777 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 374833001778 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 374833001779 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 374833001780 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 374833001781 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 374833001782 active site 374833001783 dimer interface [polypeptide binding]; other site 374833001784 motif 1; other site 374833001785 motif 2; other site 374833001786 motif 3; other site 374833001787 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 374833001788 anticodon binding site; other site 374833001789 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 374833001790 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 374833001791 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 374833001792 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 374833001793 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 374833001794 23S rRNA binding site [nucleotide binding]; other site 374833001795 L21 binding site [polypeptide binding]; other site 374833001796 L13 binding site [polypeptide binding]; other site 374833001797 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 374833001798 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 374833001799 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 374833001800 dimer interface [polypeptide binding]; other site 374833001801 motif 1; other site 374833001802 active site 374833001803 motif 2; other site 374833001804 motif 3; other site 374833001805 AAA domain; Region: AAA_21; pfam13304 374833001806 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374833001807 Walker B; other site 374833001808 D-loop; other site 374833001809 H-loop/switch region; other site 374833001810 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 374833001811 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 374833001812 putative tRNA-binding site [nucleotide binding]; other site 374833001813 B3/4 domain; Region: B3_4; pfam03483 374833001814 tRNA synthetase B5 domain; Region: B5; smart00874 374833001815 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 374833001816 dimer interface [polypeptide binding]; other site 374833001817 motif 1; other site 374833001818 motif 3; other site 374833001819 motif 2; other site 374833001820 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 374833001821 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 374833001822 IHF - DNA interface [nucleotide binding]; other site 374833001823 IHF dimer interface [polypeptide binding]; other site 374833001824 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 374833001825 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 374833001826 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 374833001827 inhibitor-cofactor binding pocket; inhibition site 374833001828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833001829 catalytic residue [active] 374833001830 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 374833001831 AAA domain; Region: AAA_26; pfam13500 374833001832 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 374833001833 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 374833001834 UbiA prenyltransferase family; Region: UbiA; pfam01040 374833001835 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 374833001836 active site 374833001837 phosphorylation site [posttranslational modification] 374833001838 HPr kinase/phosphorylase; Provisional; Region: PRK05428 374833001839 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 374833001840 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 374833001841 Hpr binding site; other site 374833001842 active site 374833001843 homohexamer subunit interaction site [polypeptide binding]; other site 374833001844 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 374833001845 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 374833001846 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 374833001847 GTP/Mg2+ binding site [chemical binding]; other site 374833001848 G4 box; other site 374833001849 G5 box; other site 374833001850 G1 box; other site 374833001851 Switch I region; other site 374833001852 G2 box; other site 374833001853 G3 box; other site 374833001854 Switch II region; other site 374833001855 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 374833001856 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 374833001857 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 374833001858 Walker A/P-loop; other site 374833001859 ATP binding site [chemical binding]; other site 374833001860 Q-loop/lid; other site 374833001861 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 374833001862 ABC transporter signature motif; other site 374833001863 Walker B; other site 374833001864 D-loop; other site 374833001865 H-loop/switch region; other site 374833001866 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 374833001867 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 374833001868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 374833001869 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 374833001870 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 374833001871 S-adenosylmethionine binding site [chemical binding]; other site 374833001872 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 374833001873 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 374833001874 catalytic center binding site [active] 374833001875 ATP binding site [chemical binding]; other site 374833001876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 374833001877 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 374833001878 bacterial Hfq-like; Region: Hfq; cd01716 374833001879 hexamer interface [polypeptide binding]; other site 374833001880 Sm1 motif; other site 374833001881 RNA binding site [nucleotide binding]; other site 374833001882 Sm2 motif; other site 374833001883 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 374833001884 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 374833001885 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 374833001886 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 374833001887 catalytic triad [active] 374833001888 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 374833001889 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 374833001890 active site 374833001891 Int/Topo IB signature motif; other site 374833001892 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 374833001893 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 374833001894 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 374833001895 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 374833001896 NADP binding site [chemical binding]; other site 374833001897 active site 374833001898 putative substrate binding site [chemical binding]; other site 374833001899 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 374833001900 ATP binding site [chemical binding]; other site 374833001901 active site 374833001902 substrate binding site [chemical binding]; other site 374833001903 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 374833001904 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 374833001905 RNase E interface [polypeptide binding]; other site 374833001906 trimer interface [polypeptide binding]; other site 374833001907 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 374833001908 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 374833001909 RNase E interface [polypeptide binding]; other site 374833001910 trimer interface [polypeptide binding]; other site 374833001911 active site 374833001912 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 374833001913 putative nucleic acid binding region [nucleotide binding]; other site 374833001914 G-X-X-G motif; other site 374833001915 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 374833001916 RNA binding site [nucleotide binding]; other site 374833001917 domain interface; other site 374833001918 Uncharacterized conserved protein [Function unknown]; Region: COG2836 374833001919 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 374833001920 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 374833001921 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 374833001922 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 374833001923 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 374833001924 dimer interface [polypeptide binding]; other site 374833001925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833001926 catalytic residue [active] 374833001927 EamA-like transporter family; Region: EamA; pfam00892 374833001928 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 374833001929 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 374833001930 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 374833001931 Catalytic site [active] 374833001932 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 374833001933 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 374833001934 GTP-binding protein LepA; Provisional; Region: PRK05433 374833001935 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 374833001936 G1 box; other site 374833001937 putative GEF interaction site [polypeptide binding]; other site 374833001938 GTP/Mg2+ binding site [chemical binding]; other site 374833001939 Switch I region; other site 374833001940 G2 box; other site 374833001941 G3 box; other site 374833001942 Switch II region; other site 374833001943 G4 box; other site 374833001944 G5 box; other site 374833001945 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 374833001946 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 374833001947 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 374833001948 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 374833001949 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 374833001950 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 374833001951 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 374833001952 Walker A motif; other site 374833001953 ATP binding site [chemical binding]; other site 374833001954 Walker B motif; other site 374833001955 DNA polymerase III subunit delta'; Validated; Region: PRK08699 374833001956 DNA polymerase III subunit delta'; Validated; Region: PRK08485 374833001957 PilZ domain; Region: PilZ; cl01260 374833001958 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 374833001959 active site 374833001960 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 374833001961 putative GSH binding site [chemical binding]; other site 374833001962 catalytic residues [active] 374833001963 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374833001964 active site 374833001965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 374833001966 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 374833001967 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 374833001968 active site 374833001969 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 374833001970 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 374833001971 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 374833001972 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 374833001973 substrate binding site [chemical binding]; other site 374833001974 active site 374833001975 DEAD-like helicases superfamily; Region: DEXDc; smart00487 374833001976 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 374833001977 ATP binding site [chemical binding]; other site 374833001978 putative Mg++ binding site [ion binding]; other site 374833001979 Z1 domain; Region: Z1; pfam10593 374833001980 NgoFVII restriction endonuclease; Region: RE_NgoFVII; pfam09565 374833001981 PLD-like domain; Region: PLDc_2; pfam13091 374833001982 putative active site [active] 374833001983 catalytic site [active] 374833001984 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 374833001985 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 374833001986 cofactor binding site; other site 374833001987 DNA binding site [nucleotide binding] 374833001988 substrate interaction site [chemical binding]; other site 374833001989 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 374833001990 DNA repair protein RadA; Provisional; Region: PRK11823 374833001991 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 374833001992 Walker A motif/ATP binding site; other site 374833001993 ATP binding site [chemical binding]; other site 374833001994 Walker B motif; other site 374833001995 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 374833001996 Uncharacterized conserved protein [Function unknown]; Region: COG3439 374833001997 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 374833001998 active site residue [active] 374833001999 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 374833002000 Part of AAA domain; Region: AAA_19; pfam13245 374833002001 Family description; Region: UvrD_C_2; pfam13538 374833002002 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 374833002003 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 374833002004 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 374833002005 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 374833002006 substrate binding pocket [chemical binding]; other site 374833002007 membrane-bound complex binding site; other site 374833002008 hinge residues; other site 374833002009 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 374833002010 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 374833002011 dimer interface [polypeptide binding]; other site 374833002012 conserved gate region; other site 374833002013 putative PBP binding loops; other site 374833002014 ABC-ATPase subunit interface; other site 374833002015 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 374833002016 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 374833002017 Walker A/P-loop; other site 374833002018 ATP binding site [chemical binding]; other site 374833002019 Q-loop/lid; other site 374833002020 ABC transporter signature motif; other site 374833002021 Walker B; other site 374833002022 D-loop; other site 374833002023 H-loop/switch region; other site 374833002024 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 374833002025 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 374833002026 active site 374833002027 substrate binding site [chemical binding]; other site 374833002028 metal binding site [ion binding]; metal-binding site 374833002029 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 374833002030 active site 374833002031 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 374833002032 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 374833002033 transmembrane helices; other site 374833002034 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 374833002035 putative active site [active] 374833002036 catalytic residue [active] 374833002037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 374833002038 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 374833002039 putative coenzyme Q binding site [chemical binding]; other site 374833002040 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 374833002041 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 374833002042 Walker A motif; other site 374833002043 ATP binding site [chemical binding]; other site 374833002044 Walker B motif; other site 374833002045 arginine finger; other site 374833002046 Peptidase family M41; Region: Peptidase_M41; pfam01434 374833002047 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 374833002048 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 374833002049 S-adenosylmethionine binding site [chemical binding]; other site 374833002050 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 374833002051 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 374833002052 dimer interface [polypeptide binding]; other site 374833002053 active site 374833002054 aspartate-rich active site metal binding site; other site 374833002055 allosteric magnesium binding site [ion binding]; other site 374833002056 Schiff base residues; other site 374833002057 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 374833002058 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 374833002059 homodimer interface [polypeptide binding]; other site 374833002060 substrate-cofactor binding pocket; other site 374833002061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833002062 catalytic residue [active] 374833002063 putative GTP cyclohydrolase; Provisional; Region: PRK13674 374833002064 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 374833002065 dimer interface [polypeptide binding]; other site 374833002066 FMN binding site [chemical binding]; other site 374833002067 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 374833002068 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 374833002069 RNA binding surface [nucleotide binding]; other site 374833002070 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 374833002071 active site 374833002072 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 374833002073 ATP-NAD kinase; Region: NAD_kinase; pfam01513 374833002074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 374833002075 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 374833002076 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 374833002077 putative NAD(P) binding site [chemical binding]; other site 374833002078 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 374833002079 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 374833002080 Bacterial transcriptional repressor; Region: TetR; pfam13972 374833002081 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 374833002082 FAD binding domain; Region: FAD_binding_4; pfam01565 374833002083 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 374833002084 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833002085 multidrug efflux protein; Reviewed; Region: PRK01766 374833002086 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 374833002087 cation binding site [ion binding]; other site 374833002088 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 374833002089 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 374833002090 dimer interface [polypeptide binding]; other site 374833002091 motif 1; other site 374833002092 active site 374833002093 motif 2; other site 374833002094 motif 3; other site 374833002095 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 374833002096 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 374833002097 GDP-binding site [chemical binding]; other site 374833002098 ACT binding site; other site 374833002099 IMP binding site; other site 374833002100 Protein of unknown function (DUF723); Region: DUF723; pfam05265 374833002101 NUMOD1 domain; Region: NUMOD1; pfam07453 374833002102 heat shock protein HtpX; Provisional; Region: PRK05457 374833002103 adenylate kinase; Reviewed; Region: adk; PRK00279 374833002104 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 374833002105 AMP-binding site [chemical binding]; other site 374833002106 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 374833002107 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 374833002108 active site 374833002109 dimer interface [polypeptide binding]; other site 374833002110 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 374833002111 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 374833002112 putative ribose interaction site [chemical binding]; other site 374833002113 putative ADP binding site [chemical binding]; other site 374833002114 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 374833002115 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 374833002116 cofactor binding site; other site 374833002117 DNA binding site [nucleotide binding] 374833002118 substrate interaction site [chemical binding]; other site 374833002119 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 374833002120 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 374833002121 HNH endonuclease; Region: HNH_2; pfam13391 374833002122 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 374833002123 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 374833002124 NADP binding site [chemical binding]; other site 374833002125 homopentamer interface [polypeptide binding]; other site 374833002126 substrate binding site [chemical binding]; other site 374833002127 active site 374833002128 Virulence protein [General function prediction only]; Region: COG3943 374833002129 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 374833002130 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374833002131 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 374833002132 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374833002133 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 374833002134 Clp amino terminal domain; Region: Clp_N; pfam02861 374833002135 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 374833002136 Walker A motif; other site 374833002137 ATP binding site [chemical binding]; other site 374833002138 Walker B motif; other site 374833002139 arginine finger; other site 374833002140 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 374833002141 Walker A motif; other site 374833002142 ATP binding site [chemical binding]; other site 374833002143 Walker B motif; other site 374833002144 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 374833002145 Uncharacterized conserved protein [Function unknown]; Region: COG2127 374833002146 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 374833002147 DNA-binding site [nucleotide binding]; DNA binding site 374833002148 RNA-binding motif; other site 374833002149 peptidase PmbA; Provisional; Region: PRK11040 374833002150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 374833002151 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 374833002152 DHH family; Region: DHH; pfam01368 374833002153 DHHA1 domain; Region: DHHA1; pfam02272 374833002154 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 374833002155 Helix-turn-helix domain; Region: HTH_38; pfam13936 374833002156 Homeodomain-like domain; Region: HTH_32; pfam13565 374833002157 Integrase core domain; Region: rve; pfam00665 374833002158 poly(A) polymerase; Region: pcnB; TIGR01942 374833002159 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 374833002160 active site 374833002161 NTP binding site [chemical binding]; other site 374833002162 metal binding triad [ion binding]; metal-binding site 374833002163 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 374833002164 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 374833002165 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 374833002166 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 374833002167 PhoH-like protein; Region: PhoH; pfam02562 374833002168 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 374833002169 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 374833002170 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 374833002171 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 374833002172 trimer interface [polypeptide binding]; other site 374833002173 active site 374833002174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 374833002175 MORN repeat; Region: MORN; cl14787 374833002176 Putative exonuclease, RdgC; Region: RdgC; cl01122 374833002177 GTP-binding protein Der; Reviewed; Region: PRK00093 374833002178 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 374833002179 G1 box; other site 374833002180 GTP/Mg2+ binding site [chemical binding]; other site 374833002181 Switch I region; other site 374833002182 G2 box; other site 374833002183 Switch II region; other site 374833002184 G3 box; other site 374833002185 G4 box; other site 374833002186 G5 box; other site 374833002187 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 374833002188 G1 box; other site 374833002189 GTP/Mg2+ binding site [chemical binding]; other site 374833002190 Switch I region; other site 374833002191 G2 box; other site 374833002192 G3 box; other site 374833002193 Switch II region; other site 374833002194 G4 box; other site 374833002195 G5 box; other site 374833002196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 374833002197 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 374833002198 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 374833002199 dimer interface [polypeptide binding]; other site 374833002200 motif 1; other site 374833002201 active site 374833002202 motif 2; other site 374833002203 motif 3; other site 374833002204 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 374833002205 anticodon binding site; other site 374833002206 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 374833002207 putative active site [active] 374833002208 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 374833002209 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 374833002210 probable active site [active] 374833002211 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 374833002212 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 374833002213 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 374833002214 S-adenosylmethionine binding site [chemical binding]; other site 374833002215 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 374833002216 active site 374833002217 oligomerization interface [polypeptide binding]; other site 374833002218 metal binding site [ion binding]; metal-binding site 374833002219 Pantoate-beta-alanine ligase; Region: PanC; cd00560 374833002220 active site 374833002221 ATP-binding site [chemical binding]; other site 374833002222 pantoate-binding site; other site 374833002223 HXXH motif; other site 374833002224 TPR repeat; Region: TPR_11; pfam13414 374833002225 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 374833002226 binding surface 374833002227 TPR motif; other site 374833002228 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 374833002229 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 374833002230 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 374833002231 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 374833002232 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 374833002233 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 374833002234 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 374833002235 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374833002236 active site 374833002237 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 374833002238 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 374833002239 5S rRNA interface [nucleotide binding]; other site 374833002240 CTC domain interface [polypeptide binding]; other site 374833002241 L16 interface [polypeptide binding]; other site 374833002242 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 374833002243 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 374833002244 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 374833002245 threonine dehydratase; Reviewed; Region: PRK09224 374833002246 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 374833002247 tetramer interface [polypeptide binding]; other site 374833002248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833002249 catalytic residue [active] 374833002250 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 374833002251 putative Ile/Val binding site [chemical binding]; other site 374833002252 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 374833002253 putative Ile/Val binding site [chemical binding]; other site 374833002254 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 374833002255 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 374833002256 Walker A/P-loop; other site 374833002257 ATP binding site [chemical binding]; other site 374833002258 Q-loop/lid; other site 374833002259 ABC transporter signature motif; other site 374833002260 Walker B; other site 374833002261 D-loop; other site 374833002262 H-loop/switch region; other site 374833002263 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 374833002264 dimer interface [polypeptide binding]; other site 374833002265 conserved gate region; other site 374833002266 putative PBP binding loops; other site 374833002267 ABC-ATPase subunit interface; other site 374833002268 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 374833002269 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 374833002270 dimer interface [polypeptide binding]; other site 374833002271 conserved gate region; other site 374833002272 putative PBP binding loops; other site 374833002273 ABC-ATPase subunit interface; other site 374833002274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 374833002275 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 374833002276 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 374833002277 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 374833002278 replicative DNA helicase; Region: DnaB; TIGR00665 374833002279 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 374833002280 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 374833002281 Walker A motif; other site 374833002282 ATP binding site [chemical binding]; other site 374833002283 Walker B motif; other site 374833002284 DNA binding loops [nucleotide binding] 374833002285 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 374833002286 Type II transport protein GspH; Region: GspH; pfam12019 374833002287 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 374833002288 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 374833002289 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 374833002290 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 374833002291 PilX N-terminal; Region: PilX_N; pfam14341 374833002292 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833002293 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 374833002294 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 374833002295 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 374833002296 trimer interface [polypeptide binding]; other site 374833002297 active site 374833002298 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 374833002299 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 374833002300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833002301 homodimer interface [polypeptide binding]; other site 374833002302 catalytic residue [active] 374833002303 hypothetical protein; Validated; Region: PRK02101 374833002304 Transposase domain (DUF772); Region: DUF772; pfam05598 374833002305 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833002306 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 374833002307 Transposase; Region: DEDD_Tnp_IS110; pfam01548 374833002308 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 374833002309 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 374833002310 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 374833002311 Cytochrome c556 [Energy production and conversion]; Region: COG3909 374833002312 malonic semialdehyde reductase; Provisional; Region: PRK10538 374833002313 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 374833002314 putative NAD(P) binding site [chemical binding]; other site 374833002315 homotetramer interface [polypeptide binding]; other site 374833002316 homodimer interface [polypeptide binding]; other site 374833002317 active site 374833002318 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 374833002319 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 374833002320 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 374833002321 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 374833002322 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 374833002323 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 374833002324 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 374833002325 dimer interface [polypeptide binding]; other site 374833002326 active site 374833002327 catalytic residue [active] 374833002328 xanthine permease; Region: pbuX; TIGR03173 374833002329 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 374833002330 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 374833002331 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 374833002332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 374833002333 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 374833002334 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 374833002335 nucleoside/Zn binding site; other site 374833002336 dimer interface [polypeptide binding]; other site 374833002337 catalytic motif [active] 374833002338 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 374833002339 IPP transferase; Region: IPPT; pfam01715 374833002340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 374833002341 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 374833002342 elongation factor P; Validated; Region: PRK00529 374833002343 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 374833002344 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 374833002345 RNA binding site [nucleotide binding]; other site 374833002346 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 374833002347 RNA binding site [nucleotide binding]; other site 374833002348 Methyltransferase domain; Region: Methyltransf_23; pfam13489 374833002349 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 374833002350 S-adenosylmethionine binding site [chemical binding]; other site 374833002351 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 374833002352 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 374833002353 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 374833002354 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 374833002355 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 374833002356 FAD binding site [chemical binding]; other site 374833002357 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 374833002358 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 374833002359 THF binding site; other site 374833002360 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 374833002361 substrate binding site [chemical binding]; other site 374833002362 THF binding site; other site 374833002363 zinc-binding site [ion binding]; other site 374833002364 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 374833002365 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 374833002366 catalytic triad [active] 374833002367 dimer interface [polypeptide binding]; other site 374833002368 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 374833002369 GSH binding site [chemical binding]; other site 374833002370 catalytic residues [active] 374833002371 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 374833002372 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 374833002373 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 374833002374 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 374833002375 Iron-sulfur protein interface; other site 374833002376 proximal quinone binding site [chemical binding]; other site 374833002377 SdhD (CybS) interface [polypeptide binding]; other site 374833002378 proximal heme binding site [chemical binding]; other site 374833002379 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 374833002380 SdhC subunit interface [polypeptide binding]; other site 374833002381 proximal heme binding site [chemical binding]; other site 374833002382 cardiolipin binding site; other site 374833002383 Iron-sulfur protein interface; other site 374833002384 proximal quinone binding site [chemical binding]; other site 374833002385 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 374833002386 L-aspartate oxidase; Provisional; Region: PRK06175 374833002387 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 374833002388 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 374833002389 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 374833002390 Uncharacterized conserved protein [Function unknown]; Region: COG2938 374833002391 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 374833002392 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 374833002393 dimer interface [polypeptide binding]; other site 374833002394 active site 374833002395 citrylCoA binding site [chemical binding]; other site 374833002396 NADH binding [chemical binding]; other site 374833002397 cationic pore residues; other site 374833002398 oxalacetate/citrate binding site [chemical binding]; other site 374833002399 coenzyme A binding site [chemical binding]; other site 374833002400 catalytic triad [active] 374833002401 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 374833002402 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 374833002403 TPP-binding site [chemical binding]; other site 374833002404 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 374833002405 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 374833002406 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 374833002407 E3 interaction surface; other site 374833002408 lipoyl attachment site [posttranslational modification]; other site 374833002409 e3 binding domain; Region: E3_binding; pfam02817 374833002410 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 374833002411 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 374833002412 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 374833002413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 374833002414 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 374833002415 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 374833002416 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 374833002417 CoA-ligase; Region: Ligase_CoA; pfam00549 374833002418 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 374833002419 CoA binding domain; Region: CoA_binding; smart00881 374833002420 CoA-ligase; Region: Ligase_CoA; pfam00549 374833002421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 374833002422 Predicted transcriptional regulator [Transcription]; Region: COG2378 374833002423 WYL domain; Region: WYL; pfam13280 374833002424 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 374833002425 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 374833002426 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 374833002427 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 374833002428 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 374833002429 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 374833002430 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 374833002431 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 374833002432 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 374833002433 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 374833002434 glutamine binding [chemical binding]; other site 374833002435 catalytic triad [active] 374833002436 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 374833002437 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 374833002438 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 374833002439 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833002440 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 374833002441 Replication initiation factor; Region: Rep_trans; pfam02486 374833002442 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 374833002443 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 374833002444 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 374833002445 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 374833002446 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 374833002447 Predicted membrane protein [Function unknown]; Region: COG3686 374833002448 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 374833002449 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 374833002450 ligand binding site [chemical binding]; other site 374833002451 homodimer interface [polypeptide binding]; other site 374833002452 NAD(P) binding site [chemical binding]; other site 374833002453 trimer interface B [polypeptide binding]; other site 374833002454 trimer interface A [polypeptide binding]; other site 374833002455 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 374833002456 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 374833002457 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 374833002458 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 374833002459 motif II; other site 374833002460 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 374833002461 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 374833002462 putative ion selectivity filter; other site 374833002463 putative pore gating glutamate residue; other site 374833002464 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 374833002465 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 374833002466 purine monophosphate binding site [chemical binding]; other site 374833002467 dimer interface [polypeptide binding]; other site 374833002468 putative catalytic residues [active] 374833002469 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 374833002470 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 374833002471 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 374833002472 Transposase; Region: DEDD_Tnp_IS110; pfam01548 374833002473 B-Box C-terminal domain; Region: BBC; smart00502 374833002474 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 374833002475 Mor transcription activator family; Region: Mor; cl02360 374833002476 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 374833002477 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 374833002478 active site 374833002479 metal binding site [ion binding]; metal-binding site 374833002480 Transposase domain (DUF772); Region: DUF772; pfam05598 374833002481 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833002482 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 374833002483 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 374833002484 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 374833002485 YadA-like C-terminal region; Region: YadA; pfam03895 374833002486 Rubredoxin [Energy production and conversion]; Region: COG1773 374833002487 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 374833002488 iron binding site [ion binding]; other site 374833002489 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 374833002490 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 374833002491 active site 374833002492 Uncharacterized conserved protein [Function unknown]; Region: COG2128 374833002493 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 374833002494 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 374833002495 D-lactate dehydrogenase; Provisional; Region: PRK11183 374833002496 FAD binding domain; Region: FAD_binding_4; pfam01565 374833002497 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 374833002498 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 374833002499 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 374833002500 FAD binding domain; Region: FAD_binding_4; pfam01565 374833002501 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 374833002502 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 374833002503 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 374833002504 Cysteine-rich domain; Region: CCG; pfam02754 374833002505 Cysteine-rich domain; Region: CCG; pfam02754 374833002506 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 374833002507 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 374833002508 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 374833002509 FMN binding site [chemical binding]; other site 374833002510 active site 374833002511 catalytic residues [active] 374833002512 substrate binding site [chemical binding]; other site 374833002513 Transposase domain (DUF772); Region: DUF772; pfam05598 374833002514 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833002515 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833002516 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 374833002517 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 374833002518 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 374833002519 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 374833002520 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 374833002521 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 374833002522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 374833002523 HTH-like domain; Region: HTH_21; pfam13276 374833002524 Integrase core domain; Region: rve; pfam00665 374833002525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 374833002526 Smr domain; Region: Smr; pfam01713 374833002527 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 374833002528 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 374833002529 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 374833002530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 374833002531 Coenzyme A binding pocket [chemical binding]; other site 374833002532 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 374833002533 ATP-grasp domain; Region: ATP-grasp; pfam02222 374833002534 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 374833002535 anthranilate synthase component I; Provisional; Region: PRK13565 374833002536 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 374833002537 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 374833002538 ABC transporter ATPase component; Reviewed; Region: PRK11147 374833002539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374833002540 Walker A/P-loop; other site 374833002541 ATP binding site [chemical binding]; other site 374833002542 Q-loop/lid; other site 374833002543 ABC transporter signature motif; other site 374833002544 Walker B; other site 374833002545 D-loop; other site 374833002546 H-loop/switch region; other site 374833002547 ABC transporter; Region: ABC_tran_2; pfam12848 374833002548 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374833002549 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 374833002550 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 374833002551 Outer membrane protein OpcA; Region: OpcA; pfam07239 374833002552 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833002553 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 374833002554 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 374833002555 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 374833002556 dimer interface [polypeptide binding]; other site 374833002557 active site 374833002558 glycine-pyridoxal phosphate binding site [chemical binding]; other site 374833002559 folate binding site [chemical binding]; other site 374833002560 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 374833002561 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 374833002562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 374833002563 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 374833002564 AMP binding site [chemical binding]; other site 374833002565 metal binding site [ion binding]; metal-binding site 374833002566 active site 374833002567 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 374833002568 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 374833002569 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 374833002570 active site 374833002571 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 374833002572 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 374833002573 dimer interface [polypeptide binding]; other site 374833002574 ADP-ribose binding site [chemical binding]; other site 374833002575 active site 374833002576 nudix motif; other site 374833002577 metal binding site [ion binding]; metal-binding site 374833002578 camphor resistance protein CrcB; Provisional; Region: PRK14230 374833002579 Predicted membrane protein [Function unknown]; Region: COG3235 374833002580 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 374833002581 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 374833002582 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 374833002583 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 374833002584 putative catalytic cysteine [active] 374833002585 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 374833002586 homotetrameric interface [polypeptide binding]; other site 374833002587 putative allosteric binding site; other site 374833002588 nucleotide binding site [chemical binding]; other site 374833002589 PUA domain; Region: PUA; pfam01472 374833002590 2-isopropylmalate synthase; Validated; Region: PRK00915 374833002591 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 374833002592 active site 374833002593 catalytic residues [active] 374833002594 metal binding site [ion binding]; metal-binding site 374833002595 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 374833002596 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 374833002597 yecA family protein; Region: ygfB_yecA; TIGR02292 374833002598 SEC-C motif; Region: SEC-C; pfam02810 374833002599 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 374833002600 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 374833002601 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 374833002602 putative active site [active] 374833002603 Zn binding site [ion binding]; other site 374833002604 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 374833002605 feedback inhibition sensing region; other site 374833002606 homohexameric interface [polypeptide binding]; other site 374833002607 nucleotide binding site [chemical binding]; other site 374833002608 N-acetyl-L-glutamate binding site [chemical binding]; other site 374833002609 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 374833002610 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 374833002611 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 374833002612 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 374833002613 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 374833002614 ABC transporter; Region: ABC_tran; pfam00005 374833002615 Predicted transcriptional regulator [Transcription]; Region: COG2932 374833002616 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 374833002617 Catalytic site [active] 374833002618 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 374833002619 Integrase core domain; Region: rve; pfam00665 374833002620 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 374833002621 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 374833002622 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 374833002623 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 374833002624 DNA polymerase IV; Provisional; Region: PRK02794 374833002625 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 374833002626 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 374833002627 Helix-turn-helix domain; Region: HTH_38; pfam13936 374833002628 Homeodomain-like domain; Region: HTH_32; pfam13565 374833002629 Integrase core domain; Region: rve; pfam00665 374833002630 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 374833002631 putative DNA binding site [nucleotide binding]; other site 374833002632 putative Zn2+ binding site [ion binding]; other site 374833002633 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 374833002634 Mor transcription activator family; Region: Mor; cl02360 374833002635 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 374833002636 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 374833002637 active site 374833002638 Uncharacterized conserved protein [Function unknown]; Region: COG3422 374833002639 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 374833002640 phage uncharacterized protein (putative large terminase), C-terminal domain; Region: psiM2_ORF9; TIGR01630 374833002641 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 374833002642 Protein of unknown function (DUF935); Region: DUF935; pfam06074 374833002643 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 374833002644 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 374833002645 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 374833002646 Mu-like prophage I protein [General function prediction only]; Region: COG4388 374833002647 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 374833002648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 374833002649 Phage Tail Collar Domain; Region: Collar; pfam07484 374833002650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 374833002651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 374833002652 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 374833002653 PemK-like protein; Region: PemK; pfam02452 374833002654 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 374833002655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 374833002656 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 374833002657 short chain dehydrogenase; Provisional; Region: PRK08703 374833002658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 374833002659 NAD(P) binding site [chemical binding]; other site 374833002660 active site 374833002661 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 374833002662 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 374833002663 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 374833002664 active site lid residues [active] 374833002665 substrate binding pocket [chemical binding]; other site 374833002666 catalytic residues [active] 374833002667 substrate-Mg2+ binding site; other site 374833002668 aspartate-rich region 1; other site 374833002669 aspartate-rich region 2; other site 374833002670 chaperone protein HscA; Provisional; Region: hscA; PRK05183 374833002671 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 374833002672 nucleotide binding site [chemical binding]; other site 374833002673 putative NEF/HSP70 interaction site [polypeptide binding]; other site 374833002674 SBD interface [polypeptide binding]; other site 374833002675 T5orf172 domain; Region: T5orf172; pfam10544 374833002676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 374833002677 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 374833002678 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 374833002679 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 374833002680 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 374833002681 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 374833002682 catalytic loop [active] 374833002683 iron binding site [ion binding]; other site 374833002684 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 374833002685 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 374833002686 RNA binding surface [nucleotide binding]; other site 374833002687 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 374833002688 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 374833002689 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 374833002690 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 374833002691 Ligand Binding Site [chemical binding]; other site 374833002692 TilS substrate binding domain; Region: TilS; pfam09179 374833002693 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 374833002694 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 374833002695 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 374833002696 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 374833002697 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374833002698 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374833002699 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374833002700 biotin synthase; Region: bioB; TIGR00433 374833002701 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 374833002702 FeS/SAM binding site; other site 374833002703 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 374833002704 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 374833002705 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 374833002706 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 374833002707 sulfite reductase subunit beta; Provisional; Region: PRK13504 374833002708 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 374833002709 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 374833002710 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 374833002711 Flavodoxin; Region: Flavodoxin_1; pfam00258 374833002712 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 374833002713 FAD binding pocket [chemical binding]; other site 374833002714 FAD binding motif [chemical binding]; other site 374833002715 catalytic residues [active] 374833002716 NAD binding pocket [chemical binding]; other site 374833002717 phosphate binding motif [ion binding]; other site 374833002718 beta-alpha-beta structure motif; other site 374833002719 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 374833002720 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 374833002721 CysD dimerization site [polypeptide binding]; other site 374833002722 G1 box; other site 374833002723 putative GEF interaction site [polypeptide binding]; other site 374833002724 GTP/Mg2+ binding site [chemical binding]; other site 374833002725 Switch I region; other site 374833002726 G2 box; other site 374833002727 G3 box; other site 374833002728 Switch II region; other site 374833002729 G4 box; other site 374833002730 G5 box; other site 374833002731 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 374833002732 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 374833002733 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 374833002734 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 374833002735 Active Sites [active] 374833002736 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 374833002737 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 374833002738 Active Sites [active] 374833002739 siroheme synthase; Provisional; Region: cysG; PRK10637 374833002740 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 374833002741 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 374833002742 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 374833002743 active site 374833002744 SAM binding site [chemical binding]; other site 374833002745 homodimer interface [polypeptide binding]; other site 374833002746 Cytochrome b [Energy production and conversion]; Region: COG3658 374833002747 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 374833002748 putative substrate binding site [chemical binding]; other site 374833002749 putative ATP binding site [chemical binding]; other site 374833002750 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 374833002751 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 374833002752 Switch I region; other site 374833002753 G2 box; other site 374833002754 putative GEF interaction site [polypeptide binding]; other site 374833002755 G3 box; other site 374833002756 Switch II region; other site 374833002757 GTP/Mg2+ binding site [chemical binding]; other site 374833002758 G4 box; other site 374833002759 G5 box; other site 374833002760 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 374833002761 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 374833002762 ribonuclease R; Region: RNase_R; TIGR02063 374833002763 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 374833002764 RNB domain; Region: RNB; pfam00773 374833002765 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 374833002766 RNA binding site [nucleotide binding]; other site 374833002767 SPRY domain; Region: SPRY; cl02614 374833002768 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 374833002769 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 374833002770 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 374833002771 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 374833002772 active site 374833002773 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 374833002774 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 374833002775 metal binding triad; other site 374833002776 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 374833002777 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 374833002778 Zn2+ binding site [ion binding]; other site 374833002779 Mg2+ binding site [ion binding]; other site 374833002780 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 374833002781 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 374833002782 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 374833002783 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 374833002784 non-specific DNA binding site [nucleotide binding]; other site 374833002785 salt bridge; other site 374833002786 sequence-specific DNA binding site [nucleotide binding]; other site 374833002787 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 374833002788 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 374833002789 heme binding site [chemical binding]; other site 374833002790 ferroxidase pore; other site 374833002791 ferroxidase diiron center [ion binding]; other site 374833002792 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 374833002793 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 374833002794 heme binding site [chemical binding]; other site 374833002795 ferroxidase pore; other site 374833002796 ferroxidase diiron center [ion binding]; other site 374833002797 Bacterial TniB protein; Region: TniB; pfam05621 374833002798 Integrase core domain; Region: rve; pfam00665 374833002799 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 374833002800 Bacterial TniB protein; Region: TniB; pfam05621 374833002801 AAA domain; Region: AAA_22; pfam13401 374833002802 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 374833002803 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 374833002804 cofactor binding site; other site 374833002805 DNA binding site [nucleotide binding] 374833002806 substrate interaction site [chemical binding]; other site 374833002807 lipoyl synthase; Provisional; Region: PRK05481 374833002808 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 374833002809 FeS/SAM binding site; other site 374833002810 lipoate-protein ligase B; Provisional; Region: PRK14342 374833002811 Protein of unknown function (DUF493); Region: DUF493; cl01102 374833002812 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 374833002813 Domain of unknown function DUF20; Region: UPF0118; pfam01594 374833002814 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 374833002815 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 374833002816 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 374833002817 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 374833002818 ligand binding site [chemical binding]; other site 374833002819 active site 374833002820 UGI interface [polypeptide binding]; other site 374833002821 catalytic site [active] 374833002822 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 374833002823 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 374833002824 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374833002825 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374833002826 ABC transporter; Region: ABC_tran_2; pfam12848 374833002827 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374833002828 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 374833002829 homoserine dehydrogenase; Provisional; Region: PRK06349 374833002830 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 374833002831 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 374833002832 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 374833002833 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 374833002834 IHF dimer interface [polypeptide binding]; other site 374833002835 IHF - DNA interface [nucleotide binding]; other site 374833002836 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 374833002837 Found in ATP-dependent protease La (LON); Region: LON; smart00464 374833002838 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 374833002839 Walker A motif; other site 374833002840 ATP binding site [chemical binding]; other site 374833002841 Walker B motif; other site 374833002842 arginine finger; other site 374833002843 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 374833002844 Methyltransferase domain; Region: Methyltransf_23; pfam13489 374833002845 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 374833002846 S-adenosylmethionine binding site [chemical binding]; other site 374833002847 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 374833002848 AAA domain; Region: AAA_30; pfam13604 374833002849 Family description; Region: UvrD_C_2; pfam13538 374833002850 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 374833002851 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 374833002852 Walker A/P-loop; other site 374833002853 ATP binding site [chemical binding]; other site 374833002854 Q-loop/lid; other site 374833002855 ABC transporter signature motif; other site 374833002856 Walker B; other site 374833002857 D-loop; other site 374833002858 H-loop/switch region; other site 374833002859 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 374833002860 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 374833002861 FtsX-like permease family; Region: FtsX; pfam02687 374833002862 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 374833002863 RecR protein; Region: RecR; pfam02132 374833002864 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 374833002865 putative active site [active] 374833002866 putative metal-binding site [ion binding]; other site 374833002867 tetramer interface [polypeptide binding]; other site 374833002868 SurA N-terminal domain; Region: SurA_N_3; cl07813 374833002869 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 374833002870 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 374833002871 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 374833002872 ArsC family; Region: ArsC; pfam03960 374833002873 putative catalytic residues [active] 374833002874 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 374833002875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374833002876 Walker A/P-loop; other site 374833002877 ATP binding site [chemical binding]; other site 374833002878 ABC transporter signature motif; other site 374833002879 Walker B; other site 374833002880 D-loop; other site 374833002881 H-loop/switch region; other site 374833002882 ABC transporter; Region: ABC_tran_2; pfam12848 374833002883 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374833002884 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 374833002885 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 374833002886 active site 374833002887 NTP binding site [chemical binding]; other site 374833002888 metal binding triad [ion binding]; metal-binding site 374833002889 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 374833002890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 374833002891 Zn2+ binding site [ion binding]; other site 374833002892 Mg2+ binding site [ion binding]; other site 374833002893 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 374833002894 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 374833002895 Walker A motif; other site 374833002896 ATP binding site [chemical binding]; other site 374833002897 Walker B motif; other site 374833002898 arginine finger; other site 374833002899 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 374833002900 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 374833002901 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 374833002902 substrate binding site [chemical binding]; other site 374833002903 hexamer interface [polypeptide binding]; other site 374833002904 metal binding site [ion binding]; metal-binding site 374833002905 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 374833002906 dimer interface [polypeptide binding]; other site 374833002907 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 374833002908 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 374833002909 Walker A motif; other site 374833002910 ATP binding site [chemical binding]; other site 374833002911 Walker B motif; other site 374833002912 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 374833002913 Lumazine binding domain; Region: Lum_binding; pfam00677 374833002914 Lumazine binding domain; Region: Lum_binding; pfam00677 374833002915 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 374833002916 GTP binding site; other site 374833002917 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 374833002918 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 374833002919 dimerization interface [polypeptide binding]; other site 374833002920 GAF domain; Region: GAF_3; pfam13492 374833002921 Histidine kinase; Region: HisKA_3; pfam07730 374833002922 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 374833002923 ATP binding site [chemical binding]; other site 374833002924 Mg2+ binding site [ion binding]; other site 374833002925 G-X-G motif; other site 374833002926 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 374833002927 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 374833002928 active site 374833002929 phosphorylation site [posttranslational modification] 374833002930 intermolecular recognition site; other site 374833002931 dimerization interface [polypeptide binding]; other site 374833002932 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 374833002933 DNA binding residues [nucleotide binding] 374833002934 dimerization interface [polypeptide binding]; other site 374833002935 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 374833002936 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 374833002937 dimerization interface [polypeptide binding]; other site 374833002938 putative ATP binding site [chemical binding]; other site 374833002939 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 374833002940 dimerization interface [polypeptide binding]; other site 374833002941 active site 374833002942 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 374833002943 active site 374833002944 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 374833002945 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 374833002946 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 374833002947 dimerization interface [polypeptide binding]; other site 374833002948 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 374833002949 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374833002950 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 374833002951 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374833002952 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 374833002953 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 374833002954 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 374833002955 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 374833002956 ATP binding site [chemical binding]; other site 374833002957 putative Mg++ binding site [ion binding]; other site 374833002958 recombination factor protein RarA; Reviewed; Region: PRK13342 374833002959 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 374833002960 Walker A motif; other site 374833002961 ATP binding site [chemical binding]; other site 374833002962 Walker B motif; other site 374833002963 arginine finger; other site 374833002964 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 374833002965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 374833002966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374833002967 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 374833002968 dimerization interface [polypeptide binding]; other site 374833002969 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 374833002970 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 374833002971 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 374833002972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833002973 catalytic residue [active] 374833002974 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 374833002975 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 374833002976 FAD binding pocket [chemical binding]; other site 374833002977 FAD binding motif [chemical binding]; other site 374833002978 phosphate binding motif [ion binding]; other site 374833002979 beta-alpha-beta structure motif; other site 374833002980 NAD binding pocket [chemical binding]; other site 374833002981 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 374833002982 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 374833002983 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 374833002984 metal-binding site [ion binding] 374833002985 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 374833002986 Soluble P-type ATPase [General function prediction only]; Region: COG4087 374833002987 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 374833002988 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 374833002989 HflX GTPase family; Region: HflX; cd01878 374833002990 G1 box; other site 374833002991 GTP/Mg2+ binding site [chemical binding]; other site 374833002992 Switch I region; other site 374833002993 G2 box; other site 374833002994 G3 box; other site 374833002995 Switch II region; other site 374833002996 G4 box; other site 374833002997 G5 box; other site 374833002998 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 374833002999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 374833003000 hypothetical protein; Reviewed; Region: PRK00024 374833003001 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 374833003002 MPN+ (JAMM) motif; other site 374833003003 Zinc-binding site [ion binding]; other site 374833003004 Glutamate-cysteine ligase; Region: GshA; pfam08886 374833003005 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 374833003006 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 374833003007 substrate binding site [chemical binding]; other site 374833003008 ligand binding site [chemical binding]; other site 374833003009 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 374833003010 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 374833003011 substrate binding site [chemical binding]; other site 374833003012 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 374833003013 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 374833003014 cofactor binding site; other site 374833003015 DNA binding site [nucleotide binding] 374833003016 substrate interaction site [chemical binding]; other site 374833003017 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 374833003018 NgoBV restriction endonuclease; Region: RE_NgoBV; pfam09564 374833003019 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 374833003020 tartrate dehydrogenase; Region: TTC; TIGR02089 374833003021 Uncharacterized conserved protein [Function unknown]; Region: COG2353 374833003022 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 374833003023 Aspartase; Region: Aspartase; cd01357 374833003024 active sites [active] 374833003025 tetramer interface [polypeptide binding]; other site 374833003026 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 374833003027 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 374833003028 HSP70 interaction site [polypeptide binding]; other site 374833003029 Predicted membrane protein [Function unknown]; Region: COG3671 374833003030 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 374833003031 putative deacylase active site [active] 374833003032 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 374833003033 homotrimer interaction site [polypeptide binding]; other site 374833003034 putative active site [active] 374833003035 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 374833003036 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 374833003037 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 374833003038 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 374833003039 Ligand Binding Site [chemical binding]; other site 374833003040 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 374833003041 substrate binding site [chemical binding]; other site 374833003042 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 374833003043 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 374833003044 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 374833003045 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 374833003046 metal binding site 2 [ion binding]; metal-binding site 374833003047 putative DNA binding helix; other site 374833003048 metal binding site 1 [ion binding]; metal-binding site 374833003049 dimer interface [polypeptide binding]; other site 374833003050 structural Zn2+ binding site [ion binding]; other site 374833003051 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 374833003052 Low molecular weight phosphatase family; Region: LMWPc; cd00115 374833003053 active site 374833003054 glycerate kinase; Region: TIGR00045 374833003055 Methyltransferase domain; Region: Methyltransf_31; pfam13847 374833003056 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 374833003057 S-adenosylmethionine binding site [chemical binding]; other site 374833003058 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 374833003059 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 374833003060 metal-binding site [ion binding] 374833003061 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 374833003062 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 374833003063 active site 374833003064 catalytic triad [active] 374833003065 oxyanion hole [active] 374833003066 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 374833003067 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 374833003068 active site 374833003069 oxyanion hole [active] 374833003070 catalytic triad [active] 374833003071 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 374833003072 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 374833003073 acyl-activating enzyme (AAE) consensus motif; other site 374833003074 putative AMP binding site [chemical binding]; other site 374833003075 putative active site [active] 374833003076 putative CoA binding site [chemical binding]; other site 374833003077 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 374833003078 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 374833003079 Transglycosylase SLT domain; Region: SLT_2; pfam13406 374833003080 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 374833003081 N-acetyl-D-glucosamine binding site [chemical binding]; other site 374833003082 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 374833003083 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 374833003084 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 374833003085 active site 374833003086 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 374833003087 DEAD-like helicases superfamily; Region: DEXDc; smart00487 374833003088 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 374833003089 ATP binding site [chemical binding]; other site 374833003090 putative Mg++ binding site [ion binding]; other site 374833003091 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 374833003092 nucleotide binding region [chemical binding]; other site 374833003093 ATP-binding site [chemical binding]; other site 374833003094 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 374833003095 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 374833003096 tetramerization interface [polypeptide binding]; other site 374833003097 active site 374833003098 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 374833003099 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 374833003100 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 374833003101 enolase; Provisional; Region: eno; PRK00077 374833003102 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 374833003103 dimer interface [polypeptide binding]; other site 374833003104 metal binding site [ion binding]; metal-binding site 374833003105 substrate binding pocket [chemical binding]; other site 374833003106 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 374833003107 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 374833003108 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 374833003109 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 374833003110 catalytic loop [active] 374833003111 iron binding site [ion binding]; other site 374833003112 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 374833003113 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 374833003114 dimer interface [polypeptide binding]; other site 374833003115 putative radical transfer pathway; other site 374833003116 diiron center [ion binding]; other site 374833003117 tyrosyl radical; other site 374833003118 N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; Region: EcoRII_N; cd10016 374833003119 DNA binding site [nucleotide binding] 374833003120 EcoRII C terminal; Region: EcoRII-C; pfam09019 374833003121 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 374833003122 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 374833003123 cofactor binding site; other site 374833003124 DNA binding site [nucleotide binding] 374833003125 substrate interaction site [chemical binding]; other site 374833003126 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 374833003127 ATP cone domain; Region: ATP-cone; pfam03477 374833003128 Class I ribonucleotide reductase; Region: RNR_I; cd01679 374833003129 active site 374833003130 dimer interface [polypeptide binding]; other site 374833003131 catalytic residues [active] 374833003132 effector binding site; other site 374833003133 R2 peptide binding site; other site 374833003134 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 374833003135 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 374833003136 putative acyl-acceptor binding pocket; other site 374833003137 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 374833003138 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 374833003139 DNA binding site [nucleotide binding] 374833003140 catalytic residue [active] 374833003141 H2TH interface [polypeptide binding]; other site 374833003142 putative catalytic residues [active] 374833003143 turnover-facilitating residue; other site 374833003144 intercalation triad [nucleotide binding]; other site 374833003145 8OG recognition residue [nucleotide binding]; other site 374833003146 putative reading head residues; other site 374833003147 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 374833003148 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 374833003149 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 374833003150 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 374833003151 N-acetyl-D-glucosamine binding site [chemical binding]; other site 374833003152 catalytic residue [active] 374833003153 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 374833003154 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 374833003155 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 374833003156 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 374833003157 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 374833003158 RNA binding surface [nucleotide binding]; other site 374833003159 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 374833003160 active site 374833003161 uracil binding [chemical binding]; other site 374833003162 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 374833003163 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 374833003164 CMP-binding site; other site 374833003165 The sites determining sugar specificity; other site 374833003166 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 374833003167 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 374833003168 RNA binding site [nucleotide binding]; other site 374833003169 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 374833003170 RNA binding site [nucleotide binding]; other site 374833003171 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 374833003172 RNA binding site [nucleotide binding]; other site 374833003173 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 374833003174 RNA binding site [nucleotide binding]; other site 374833003175 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 374833003176 RNA binding site [nucleotide binding]; other site 374833003177 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 374833003178 RNA binding site [nucleotide binding]; other site 374833003179 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 374833003180 IHF - DNA interface [nucleotide binding]; other site 374833003181 IHF dimer interface [polypeptide binding]; other site 374833003182 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 374833003183 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 374833003184 DNA binding residues [nucleotide binding] 374833003185 putative dimer interface [polypeptide binding]; other site 374833003186 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 374833003187 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 374833003188 substrate binding site [chemical binding]; other site 374833003189 catalytic Zn binding site [ion binding]; other site 374833003190 NAD binding site [chemical binding]; other site 374833003191 structural Zn binding site [ion binding]; other site 374833003192 dimer interface [polypeptide binding]; other site 374833003193 Putative esterase; Region: Esterase; pfam00756 374833003194 S-formylglutathione hydrolase; Region: PLN02442 374833003195 Predicted ATPase [General function prediction only]; Region: COG1485 374833003196 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 374833003197 active site 374833003198 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 374833003199 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 374833003200 FeS/SAM binding site; other site 374833003201 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 374833003202 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 374833003203 binding surface 374833003204 TPR motif; other site 374833003205 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 374833003206 TPR motif; other site 374833003207 binding surface 374833003208 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 374833003209 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 374833003210 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 374833003211 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 374833003212 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 374833003213 oligomer interface [polypeptide binding]; other site 374833003214 active site residues [active] 374833003215 trigger factor; Provisional; Region: tig; PRK01490 374833003216 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 374833003217 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 374833003218 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 374833003219 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 374833003220 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 374833003221 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 374833003222 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 374833003223 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 374833003224 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 374833003225 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 374833003226 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 374833003227 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 374833003228 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 374833003229 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 374833003230 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 374833003231 generic binding surface I; other site 374833003232 generic binding surface II; other site 374833003233 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 374833003234 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 374833003235 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 374833003236 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 374833003237 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 374833003238 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 374833003239 metal-binding site [ion binding] 374833003240 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 374833003241 Soluble P-type ATPase [General function prediction only]; Region: COG4087 374833003242 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 374833003243 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 374833003244 GIY-YIG motif/motif A; other site 374833003245 active site 374833003246 catalytic site [active] 374833003247 putative DNA binding site [nucleotide binding]; other site 374833003248 metal binding site [ion binding]; metal-binding site 374833003249 UvrB/uvrC motif; Region: UVR; pfam02151 374833003250 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 374833003251 Helix-hairpin-helix motif; Region: HHH; pfam00633 374833003252 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374833003253 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374833003254 Sel1-like repeats; Region: SEL1; smart00671 374833003255 Sel1-like repeats; Region: SEL1; smart00671 374833003256 Sel1-like repeats; Region: SEL1; smart00671 374833003257 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 374833003258 S-adenosylmethionine binding site [chemical binding]; other site 374833003259 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 374833003260 excinuclease ABC subunit B; Provisional; Region: PRK05298 374833003261 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 374833003262 ATP-binding site [chemical binding]; other site 374833003263 ATP binding site [chemical binding]; other site 374833003264 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 374833003265 nucleotide binding region [chemical binding]; other site 374833003266 ATP-binding site [chemical binding]; other site 374833003267 Ultra-violet resistance protein B; Region: UvrB; pfam12344 374833003268 UvrB/uvrC motif; Region: UVR; pfam02151 374833003269 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 374833003270 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 374833003271 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 374833003272 protein binding site [polypeptide binding]; other site 374833003273 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 374833003274 Catalytic dyad [active] 374833003275 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 374833003276 Peptidase family M23; Region: Peptidase_M23; pfam01551 374833003277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 374833003278 CreA protein; Region: CreA; pfam05981 374833003279 Putative transcriptional regulator [Transcription]; Region: COG1678 374833003280 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 374833003281 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 374833003282 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 374833003283 prolyl-tRNA synthetase; Provisional; Region: PRK09194 374833003284 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 374833003285 dimer interface [polypeptide binding]; other site 374833003286 motif 1; other site 374833003287 active site 374833003288 motif 2; other site 374833003289 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 374833003290 putative deacylase active site [active] 374833003291 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 374833003292 active site 374833003293 motif 3; other site 374833003294 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 374833003295 anticodon binding site; other site 374833003296 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 374833003297 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 374833003298 dimer interface [polypeptide binding]; other site 374833003299 TPP-binding site [chemical binding]; other site 374833003300 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 374833003301 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 374833003302 E3 interaction surface; other site 374833003303 lipoyl attachment site [posttranslational modification]; other site 374833003304 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 374833003305 E3 interaction surface; other site 374833003306 lipoyl attachment site [posttranslational modification]; other site 374833003307 e3 binding domain; Region: E3_binding; pfam02817 374833003308 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 374833003309 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 374833003310 E3 interaction surface; other site 374833003311 lipoyl attachment site [posttranslational modification]; other site 374833003312 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 374833003313 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 374833003314 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 374833003315 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 374833003316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 374833003317 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 374833003318 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 374833003319 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 374833003320 active site 374833003321 dimerization interface [polypeptide binding]; other site 374833003322 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 374833003323 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 374833003324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 374833003325 16S rRNA methyltransferase B; Provisional; Region: PRK10901 374833003326 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 374833003327 S-adenosylmethionine binding site [chemical binding]; other site 374833003328 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 374833003329 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 374833003330 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 374833003331 NAD(P) binding site [chemical binding]; other site 374833003332 catalytic residues [active] 374833003333 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 374833003334 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 374833003335 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 374833003336 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 374833003337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 374833003338 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 374833003339 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 374833003340 GatB domain; Region: GatB_Yqey; smart00845 374833003341 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 374833003342 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 374833003343 catalytic loop [active] 374833003344 iron binding site [ion binding]; other site 374833003345 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 374833003346 FAD binding pocket [chemical binding]; other site 374833003347 FAD binding motif [chemical binding]; other site 374833003348 phosphate binding motif [ion binding]; other site 374833003349 beta-alpha-beta structure motif; other site 374833003350 NAD binding pocket [chemical binding]; other site 374833003351 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 374833003352 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 374833003353 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 374833003354 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 374833003355 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 374833003356 RNA binding surface [nucleotide binding]; other site 374833003357 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 374833003358 probable active site [active] 374833003359 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 374833003360 Major Facilitator Superfamily; Region: MFS_1; pfam07690 374833003361 putative substrate translocation pore; other site 374833003362 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 374833003363 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 374833003364 generic binding surface II; other site 374833003365 generic binding surface I; other site 374833003366 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 374833003367 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 374833003368 homodimer interface [polypeptide binding]; other site 374833003369 NAD binding pocket [chemical binding]; other site 374833003370 ATP binding pocket [chemical binding]; other site 374833003371 Mg binding site [ion binding]; other site 374833003372 active-site loop [active] 374833003373 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 374833003374 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 374833003375 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 374833003376 catalytic residues [active] 374833003377 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 374833003378 S-adenosylmethionine binding site [chemical binding]; other site 374833003379 helicase 45; Provisional; Region: PTZ00424 374833003380 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 374833003381 ATP binding site [chemical binding]; other site 374833003382 Mg++ binding site [ion binding]; other site 374833003383 motif III; other site 374833003384 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 374833003385 nucleotide binding region [chemical binding]; other site 374833003386 ATP-binding site [chemical binding]; other site 374833003387 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 374833003388 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 374833003389 inhibitor-cofactor binding pocket; inhibition site 374833003390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833003391 catalytic residue [active] 374833003392 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 374833003393 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 374833003394 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 374833003395 Walker A motif; other site 374833003396 ATP binding site [chemical binding]; other site 374833003397 Walker B motif; other site 374833003398 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 374833003399 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 374833003400 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 374833003401 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 374833003402 RNA binding site [nucleotide binding]; other site 374833003403 active site 374833003404 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 374833003405 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 374833003406 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 374833003407 DNA methylase; Region: N6_N4_Mtase; pfam01555 374833003408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 374833003409 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 374833003410 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 374833003411 phosphate binding site [ion binding]; other site 374833003412 Transcriptional regulator; Region: Rrf2; cl17282 374833003413 Rrf2 family protein; Region: rrf2_super; TIGR00738 374833003414 cysteine desulfurase; Provisional; Region: PRK14012 374833003415 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 374833003416 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374833003417 catalytic residue [active] 374833003418 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 374833003419 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 374833003420 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 374833003421 trimerization site [polypeptide binding]; other site 374833003422 active site 374833003423 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 374833003424 co-chaperone HscB; Provisional; Region: hscB; PRK03578 374833003425 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 374833003426 HSP70 interaction site [polypeptide binding]; other site 374833003427 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 374833003428 DNA gyrase subunit A; Validated; Region: PRK05560 374833003429 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 374833003430 CAP-like domain; other site 374833003431 active site 374833003432 primary dimer interface [polypeptide binding]; other site 374833003433 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374833003434 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374833003435 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374833003436 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374833003437 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374833003438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833003439 DDE superfamily endonuclease; Region: DDE_3; pfam13358 374833003440 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 374833003441 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 374833003442 active site 374833003443 dimer interface [polypeptide binding]; other site 374833003444 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 374833003445 dimer interface [polypeptide binding]; other site 374833003446 active site 374833003447 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 374833003448 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 374833003449 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 374833003450 putative active site [active] 374833003451 glucokinase; Provisional; Region: glk; PRK00292 374833003452 glucokinase, proteobacterial type; Region: glk; TIGR00749 374833003453 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 374833003454 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 374833003455 putative active site [active] 374833003456 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 374833003457 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 374833003458 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 374833003459 phosphogluconate dehydratase; Validated; Region: PRK09054 374833003460 6-phosphogluconate dehydratase; Region: edd; TIGR01196 374833003461 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 374833003462 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 374833003463 active site 374833003464 intersubunit interface [polypeptide binding]; other site 374833003465 catalytic residue [active] 374833003466 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 374833003467 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 374833003468 catalytic Zn binding site [ion binding]; other site 374833003469 structural Zn binding site [ion binding]; other site 374833003470 NAD(P) binding site [chemical binding]; other site 374833003471 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 374833003472 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 374833003473 minor groove reading motif; other site 374833003474 helix-hairpin-helix signature motif; other site 374833003475 substrate binding pocket [chemical binding]; other site 374833003476 active site 374833003477 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 374833003478 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 374833003479 DNA binding and oxoG recognition site [nucleotide binding] 374833003480 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 374833003481 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 374833003482 E-class dimer interface [polypeptide binding]; other site 374833003483 P-class dimer interface [polypeptide binding]; other site 374833003484 active site 374833003485 Cu2+ binding site [ion binding]; other site 374833003486 Zn2+ binding site [ion binding]; other site 374833003487 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 374833003488 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 374833003489 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 374833003490 Transposase domain (DUF772); Region: DUF772; pfam05598 374833003491 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833003492 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 374833003493 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 374833003494 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 374833003495 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 374833003496 Walker A/P-loop; other site 374833003497 ATP binding site [chemical binding]; other site 374833003498 Q-loop/lid; other site 374833003499 ABC transporter signature motif; other site 374833003500 Walker B; other site 374833003501 D-loop; other site 374833003502 H-loop/switch region; other site 374833003503 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833003504 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 374833003505 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 374833003506 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 374833003507 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 374833003508 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 374833003509 aminopeptidase N; Provisional; Region: pepN; PRK14015 374833003510 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 374833003511 active site 374833003512 Zn binding site [ion binding]; other site 374833003513 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 374833003514 active site 374833003515 catalytic site [active] 374833003516 substrate binding site [chemical binding]; other site 374833003517 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 374833003518 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 374833003519 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 374833003520 putative acyl-acceptor binding pocket; other site 374833003521 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 374833003522 active site 374833003523 putative DNA-binding cleft [nucleotide binding]; other site 374833003524 dimer interface [polypeptide binding]; other site 374833003525 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 374833003526 DNA-binding protein Fis; Provisional; Region: PRK01905 374833003527 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 374833003528 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 374833003529 FMN binding site [chemical binding]; other site 374833003530 active site 374833003531 catalytic residues [active] 374833003532 substrate binding site [chemical binding]; other site 374833003533 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 374833003534 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 374833003535 ATP binding site [chemical binding]; other site 374833003536 Mg++ binding site [ion binding]; other site 374833003537 motif III; other site 374833003538 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 374833003539 nucleotide binding region [chemical binding]; other site 374833003540 ATP-binding site [chemical binding]; other site 374833003541 Transposase domain (DUF772); Region: DUF772; pfam05598 374833003542 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833003543 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833003544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 374833003545 Transposase domain (DUF772); Region: DUF772; pfam05598 374833003546 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833003547 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833003548 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 374833003549 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 374833003550 dimer interface [polypeptide binding]; other site 374833003551 putative anticodon binding site; other site 374833003552 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 374833003553 motif 1; other site 374833003554 active site 374833003555 motif 2; other site 374833003556 motif 3; other site 374833003557 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 374833003558 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 374833003559 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 374833003560 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 374833003561 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 374833003562 active site 374833003563 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 374833003564 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 374833003565 eyelet of channel; other site 374833003566 trimer interface [polypeptide binding]; other site 374833003567 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 374833003568 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 374833003569 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 374833003570 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 374833003571 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 374833003572 active site 374833003573 hinge; other site 374833003574 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 374833003575 NlpC/P60 family; Region: NLPC_P60; pfam00877 374833003576 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 374833003577 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 374833003578 putative active site [active] 374833003579 catalytic site [active] 374833003580 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 374833003581 putative active site [active] 374833003582 catalytic site [active] 374833003583 putative transporter; Provisional; Region: PRK10504 374833003584 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 374833003585 putative substrate translocation pore; other site 374833003586 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 374833003587 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 374833003588 Cysteine-rich domain; Region: CCG; pfam02754 374833003589 Cysteine-rich domain; Region: CCG; pfam02754 374833003590 Uncharacterized conserved protein [Function unknown]; Region: COG1556 374833003591 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 374833003592 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 374833003593 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 374833003594 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 374833003595 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 374833003596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 374833003597 Tetratricopeptide repeat; Region: TPR_6; pfam13174 374833003598 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 374833003599 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 374833003600 S-adenosylmethionine binding site [chemical binding]; other site 374833003601 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 374833003602 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 374833003603 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 374833003604 ATP binding site [chemical binding]; other site 374833003605 Mg2+ binding site [ion binding]; other site 374833003606 G-X-G motif; other site 374833003607 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 374833003608 ATP binding site [chemical binding]; other site 374833003609 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 374833003610 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 374833003611 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 374833003612 Walker A motif; other site 374833003613 ATP binding site [chemical binding]; other site 374833003614 Walker B motif; other site 374833003615 arginine finger; other site 374833003616 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 374833003617 hypothetical protein; Validated; Region: PRK00153 374833003618 recombinase A; Provisional; Region: recA; PRK09354 374833003619 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 374833003620 hexamer interface [polypeptide binding]; other site 374833003621 Walker A motif; other site 374833003622 ATP binding site [chemical binding]; other site 374833003623 Walker B motif; other site 374833003624 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 374833003625 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 374833003626 active site 374833003627 catalytic residue [active] 374833003628 dimer interface [polypeptide binding]; other site 374833003629 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 374833003630 Family description; Region: UvrD_C_2; pfam13538 374833003631 DNA polymerase IV; Validated; Region: PRK02406 374833003632 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 374833003633 active site 374833003634 DNA binding site [nucleotide binding] 374833003635 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 374833003636 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 374833003637 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 374833003638 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 374833003639 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 374833003640 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 374833003641 FAD binding pocket [chemical binding]; other site 374833003642 FAD binding motif [chemical binding]; other site 374833003643 phosphate binding motif [ion binding]; other site 374833003644 beta-alpha-beta structure motif; other site 374833003645 NAD binding pocket [chemical binding]; other site 374833003646 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 374833003647 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 374833003648 active site 374833003649 catalytic site [active] 374833003650 substrate binding site [chemical binding]; other site 374833003651 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 374833003652 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 374833003653 FMN binding site [chemical binding]; other site 374833003654 substrate binding site [chemical binding]; other site 374833003655 putative catalytic residue [active] 374833003656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 374833003657 FixH; Region: FixH; pfam05751 374833003658 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 374833003659 4Fe-4S binding domain; Region: Fer4_5; pfam12801 374833003660 4Fe-4S binding domain; Region: Fer4_3; pfam12798 374833003661 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 374833003662 transketolase; Reviewed; Region: PRK12753 374833003663 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 374833003664 TPP-binding site [chemical binding]; other site 374833003665 dimer interface [polypeptide binding]; other site 374833003666 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 374833003667 PYR/PP interface [polypeptide binding]; other site 374833003668 dimer interface [polypeptide binding]; other site 374833003669 TPP binding site [chemical binding]; other site 374833003670 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 374833003671 fumarate hydratase; Reviewed; Region: fumC; PRK00485 374833003672 Class II fumarases; Region: Fumarase_classII; cd01362 374833003673 active site 374833003674 tetramer interface [polypeptide binding]; other site 374833003675 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 374833003676 EamA-like transporter family; Region: EamA; pfam00892 374833003677 EamA-like transporter family; Region: EamA; pfam00892 374833003678 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 374833003679 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 374833003680 dimer interface [polypeptide binding]; other site 374833003681 ssDNA binding site [nucleotide binding]; other site 374833003682 tetramer (dimer of dimers) interface [polypeptide binding]; other site 374833003683 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 374833003684 Major Facilitator Superfamily; Region: MFS_1; pfam07690 374833003685 putative substrate translocation pore; other site 374833003686 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 374833003687 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 374833003688 N-acetyl-D-glucosamine binding site [chemical binding]; other site 374833003689 catalytic residue [active] 374833003690 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833003691 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 374833003692 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 374833003693 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 374833003694 Protein of unknown function (DUF560); Region: DUF560; pfam04575 374833003695 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 374833003696 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 374833003697 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 374833003698 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 374833003699 active site 374833003700 HIGH motif; other site 374833003701 dimer interface [polypeptide binding]; other site 374833003702 KMSKS motif; other site 374833003703 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 374833003704 Clp amino terminal domain; Region: Clp_N; pfam02861 374833003705 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 374833003706 Walker A motif; other site 374833003707 ATP binding site [chemical binding]; other site 374833003708 Walker B motif; other site 374833003709 arginine finger; other site 374833003710 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 374833003711 Walker A motif; other site 374833003712 ATP binding site [chemical binding]; other site 374833003713 Walker B motif; other site 374833003714 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 374833003715 aminotransferase AlaT; Validated; Region: PRK09265 374833003716 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 374833003717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833003718 homodimer interface [polypeptide binding]; other site 374833003719 catalytic residue [active] 374833003720 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 374833003721 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 374833003722 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 374833003723 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 374833003724 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 374833003725 NAD(P) binding site [chemical binding]; other site 374833003726 phosphoglycolate phosphatase; Provisional; Region: PRK13222 374833003727 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 374833003728 motif II; other site 374833003729 recombination regulator RecX; Reviewed; Region: recX; PRK00117 374833003730 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 374833003731 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 374833003732 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 374833003733 Peptidase family M23; Region: Peptidase_M23; pfam01551 374833003734 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 374833003735 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 374833003736 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 374833003737 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 374833003738 Transporter associated domain; Region: CorC_HlyC; smart01091 374833003739 succinic semialdehyde dehydrogenase; Region: PLN02278 374833003740 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 374833003741 tetramerization interface [polypeptide binding]; other site 374833003742 NAD(P) binding site [chemical binding]; other site 374833003743 catalytic residues [active] 374833003744 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 374833003745 carbon starvation protein A; Provisional; Region: PRK15015 374833003746 Carbon starvation protein CstA; Region: CstA; pfam02554 374833003747 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 374833003748 Uncharacterized small protein [Function unknown]; Region: COG2879 374833003749 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 374833003750 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 374833003751 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 374833003752 aspartate kinase; Reviewed; Region: PRK06635 374833003753 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 374833003754 nucleotide binding site [chemical binding]; other site 374833003755 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 374833003756 putative allosteric regulatory site; other site 374833003757 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 374833003758 ribonuclease PH; Reviewed; Region: rph; PRK00173 374833003759 Ribonuclease PH; Region: RNase_PH_bact; cd11362 374833003760 hexamer interface [polypeptide binding]; other site 374833003761 active site 374833003762 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 374833003763 Ligand Binding Site [chemical binding]; other site 374833003764 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 374833003765 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 374833003766 putative ATP binding site [chemical binding]; other site 374833003767 putative substrate interface [chemical binding]; other site 374833003768 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 374833003769 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 374833003770 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 374833003771 active site 374833003772 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 374833003773 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 374833003774 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 374833003775 active site 374833003776 HIGH motif; other site 374833003777 KMSK motif region; other site 374833003778 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 374833003779 tRNA binding surface [nucleotide binding]; other site 374833003780 anticodon binding site; other site 374833003781 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 374833003782 Sulfatase; Region: Sulfatase; cl17466 374833003783 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 374833003784 dimer interface [polypeptide binding]; other site 374833003785 conserved gate region; other site 374833003786 putative PBP binding loops; other site 374833003787 ABC-ATPase subunit interface; other site 374833003788 Staphylococcal nuclease homologues; Region: SNc; smart00318 374833003789 Catalytic site; other site 374833003790 Staphylococcal nuclease homologue; Region: SNase; pfam00565 374833003791 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 374833003792 tetramer (dimer of dimers) interface [polypeptide binding]; other site 374833003793 active site 374833003794 dimer interface [polypeptide binding]; other site 374833003795 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 374833003796 homotrimer interaction site [polypeptide binding]; other site 374833003797 zinc binding site [ion binding]; other site 374833003798 CDP-binding sites; other site 374833003799 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 374833003800 substrate binding site; other site 374833003801 dimer interface; other site 374833003802 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 374833003803 active site 374833003804 substrate binding site [chemical binding]; other site 374833003805 catalytic site [active] 374833003806 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 374833003807 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 374833003808 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 374833003809 propionate/acetate kinase; Provisional; Region: PRK12379 374833003810 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 374833003811 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 374833003812 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 374833003813 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 374833003814 DsbD alpha interface [polypeptide binding]; other site 374833003815 catalytic residues [active] 374833003816 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 374833003817 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 374833003818 active site lid residues [active] 374833003819 substrate binding pocket [chemical binding]; other site 374833003820 catalytic residues [active] 374833003821 substrate-Mg2+ binding site; other site 374833003822 aspartate-rich region 1; other site 374833003823 aspartate-rich region 2; other site 374833003824 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 374833003825 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 374833003826 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 374833003827 FAD binding domain; Region: FAD_binding_4; pfam01565 374833003828 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 374833003829 SmpB-tmRNA interface; other site 374833003830 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 374833003831 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 374833003832 putative active site [active] 374833003833 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 374833003834 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 374833003835 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 374833003836 DNA binding site [nucleotide binding] 374833003837 active site 374833003838 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 374833003839 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 374833003840 metal binding site [ion binding]; metal-binding site 374833003841 dimer interface [polypeptide binding]; other site 374833003842 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 374833003843 Hemerythrin-like domain; Region: Hr-like; cd12108 374833003844 Fe binding site [ion binding]; other site 374833003845 Azurin [Energy production and conversion]; Region: COG3241 374833003846 Protein of unknown function (DUF721); Region: DUF721; pfam05258 374833003847 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 374833003848 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 374833003849 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 374833003850 SEC-C motif; Region: SEC-C; pfam02810 374833003851 DNA primase; Validated; Region: dnaG; PRK05667 374833003852 CHC2 zinc finger; Region: zf-CHC2; cl17510 374833003853 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 374833003854 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 374833003855 active site 374833003856 metal binding site [ion binding]; metal-binding site 374833003857 interdomain interaction site; other site 374833003858 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 374833003859 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 374833003860 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 374833003861 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 374833003862 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 374833003863 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 374833003864 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 374833003865 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 374833003866 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 374833003867 DNA binding residues [nucleotide binding] 374833003868 Transposase domain (DUF772); Region: DUF772; pfam05598 374833003869 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833003870 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833003871 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833003872 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 374833003873 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 374833003874 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 374833003875 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 374833003876 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 374833003877 CTP synthetase; Validated; Region: pyrG; PRK05380 374833003878 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 374833003879 Catalytic site [active] 374833003880 active site 374833003881 UTP binding site [chemical binding]; other site 374833003882 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 374833003883 active site 374833003884 putative oxyanion hole; other site 374833003885 catalytic triad [active] 374833003886 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 374833003887 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 374833003888 acyl-activating enzyme (AAE) consensus motif; other site 374833003889 putative AMP binding site [chemical binding]; other site 374833003890 putative active site [active] 374833003891 putative CoA binding site [chemical binding]; other site 374833003892 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 374833003893 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 374833003894 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 374833003895 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 374833003896 glutathione synthetase; Provisional; Region: PRK05246 374833003897 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 374833003898 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 374833003899 glutaminyl-tRNA synthetase; Region: glnS; TIGR00440 374833003900 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374833003901 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 374833003902 KMSKS motif; other site 374833003903 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 374833003904 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 374833003905 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 374833003906 putative DNA binding site [nucleotide binding]; other site 374833003907 putative Zn2+ binding site [ion binding]; other site 374833003908 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 374833003909 Predicted membrane protein [Function unknown]; Region: COG2431 374833003910 Transcriptional regulators [Transcription]; Region: GntR; COG1802 374833003911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 374833003912 DNA-binding site [nucleotide binding]; DNA binding site 374833003913 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 374833003914 OsmC-like protein; Region: OsmC; cl00767 374833003915 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 374833003916 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 374833003917 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 374833003918 active site 374833003919 substrate binding site [chemical binding]; other site 374833003920 cosubstrate binding site; other site 374833003921 catalytic site [active] 374833003922 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 374833003923 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 374833003924 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 374833003925 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 374833003926 multifunctional aminopeptidase A; Provisional; Region: PRK00913 374833003927 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 374833003928 interface (dimer of trimers) [polypeptide binding]; other site 374833003929 Substrate-binding/catalytic site; other site 374833003930 Zn-binding sites [ion binding]; other site 374833003931 Predicted permeases [General function prediction only]; Region: COG0795 374833003932 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 374833003933 Predicted permeases [General function prediction only]; Region: COG0795 374833003934 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 374833003935 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 374833003936 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 374833003937 substrate binding site [chemical binding]; other site 374833003938 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 374833003939 substrate binding site [chemical binding]; other site 374833003940 ligand binding site [chemical binding]; other site 374833003941 ornithine carbamoyltransferase; Validated; Region: PRK02102 374833003942 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 374833003943 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 374833003944 ketol-acid reductoisomerase; Provisional; Region: PRK05479 374833003945 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 374833003946 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 374833003947 Uncharacterized conserved protein [Function unknown]; Region: COG1359 374833003948 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 374833003949 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 374833003950 putative valine binding site [chemical binding]; other site 374833003951 dimer interface [polypeptide binding]; other site 374833003952 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 374833003953 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 374833003954 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 374833003955 PYR/PP interface [polypeptide binding]; other site 374833003956 dimer interface [polypeptide binding]; other site 374833003957 TPP binding site [chemical binding]; other site 374833003958 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 374833003959 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 374833003960 TPP-binding site [chemical binding]; other site 374833003961 dimer interface [polypeptide binding]; other site 374833003962 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 374833003963 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 374833003964 Cu(I) binding site [ion binding]; other site 374833003965 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 374833003966 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 374833003967 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 374833003968 GIY-YIG motif/motif A; other site 374833003969 putative active site [active] 374833003970 putative metal binding site [ion binding]; other site 374833003971 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 374833003972 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 374833003973 NAD binding site [chemical binding]; other site 374833003974 dimerization interface [polypeptide binding]; other site 374833003975 product binding site; other site 374833003976 substrate binding site [chemical binding]; other site 374833003977 zinc binding site [ion binding]; other site 374833003978 catalytic residues [active] 374833003979 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 374833003980 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 374833003981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833003982 homodimer interface [polypeptide binding]; other site 374833003983 catalytic residue [active] 374833003984 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 374833003985 putative active site pocket [active] 374833003986 4-fold oligomerization interface [polypeptide binding]; other site 374833003987 metal binding residues [ion binding]; metal-binding site 374833003988 3-fold/trimer interface [polypeptide binding]; other site 374833003989 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 374833003990 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 374833003991 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 374833003992 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 374833003993 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 374833003994 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 374833003995 putative inner membrane peptidase; Provisional; Region: PRK11778 374833003996 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 374833003997 tandem repeat interface [polypeptide binding]; other site 374833003998 oligomer interface [polypeptide binding]; other site 374833003999 active site residues [active] 374833004000 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 374833004001 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 374833004002 Cupin; Region: Cupin_6; pfam12852 374833004003 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 374833004004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 374833004005 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 374833004006 EamA-like transporter family; Region: EamA; pfam00892 374833004007 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 374833004008 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 374833004009 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 374833004010 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 374833004011 motif 1; other site 374833004012 active site 374833004013 motif 2; other site 374833004014 motif 3; other site 374833004015 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 374833004016 DHHA1 domain; Region: DHHA1; pfam02272 374833004017 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 374833004018 Methyltransferase domain; Region: Methyltransf_26; pfam13659 374833004019 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 374833004020 catalytic core [active] 374833004021 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 374833004022 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 374833004023 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 374833004024 CAP-like domain; other site 374833004025 active site 374833004026 primary dimer interface [polypeptide binding]; other site 374833004027 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 374833004028 dimer interface [polypeptide binding]; other site 374833004029 phosphorylation site [posttranslational modification] 374833004030 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 374833004031 Mg2+ binding site [ion binding]; other site 374833004032 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 374833004033 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 374833004034 active site 374833004035 phosphorylation site [posttranslational modification] 374833004036 intermolecular recognition site; other site 374833004037 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 374833004038 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 374833004039 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 374833004040 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 374833004041 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 374833004042 homodimer interface [polypeptide binding]; other site 374833004043 substrate-cofactor binding pocket; other site 374833004044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833004045 catalytic residue [active] 374833004046 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 374833004047 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 374833004048 substrate binding pocket [chemical binding]; other site 374833004049 membrane-bound complex binding site; other site 374833004050 hinge residues; other site 374833004051 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 374833004052 Fumarase C-terminus; Region: Fumerase_C; pfam05683 374833004053 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 374833004054 TrkA-N domain; Region: TrkA_N; pfam02254 374833004055 TrkA-C domain; Region: TrkA_C; pfam02080 374833004056 TrkA-N domain; Region: TrkA_N; pfam02254 374833004057 TrkA-C domain; Region: TrkA_C; pfam02080 374833004058 Homeodomain-like domain; Region: HTH_32; pfam13565 374833004059 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 374833004060 Integrase core domain; Region: rve; pfam00665 374833004061 Transposase domain (DUF772); Region: DUF772; pfam05598 374833004062 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833004063 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 374833004064 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 374833004065 dimer interface [polypeptide binding]; other site 374833004066 substrate binding site [chemical binding]; other site 374833004067 ATP binding site [chemical binding]; other site 374833004068 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 374833004069 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 374833004070 tellurite resistance protein TehB; Provisional; Region: PRK11207 374833004071 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 374833004072 RNA/DNA hybrid binding site [nucleotide binding]; other site 374833004073 active site 374833004074 HIT domain; Region: HIT; pfam01230 374833004075 HIT family signature motif; other site 374833004076 catalytic residue [active] 374833004077 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 374833004078 dimer interface [polypeptide binding]; other site 374833004079 catalytic triad [active] 374833004080 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 374833004081 catalytic residues [active] 374833004082 dimer interface [polypeptide binding]; other site 374833004083 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 374833004084 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 374833004085 Helix-turn-helix domain; Region: HTH_38; pfam13936 374833004086 Homeodomain-like domain; Region: HTH_32; pfam13565 374833004087 Integrase core domain; Region: rve; pfam00665 374833004088 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833004089 Pilin (bacterial filament); Region: Pilin; pfam00114 374833004090 Pilin (bacterial filament); Region: Pilin; pfam00114 374833004091 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833004092 Pilin (bacterial filament); Region: Pilin; pfam00114 374833004093 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374833004094 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 374833004095 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 374833004096 putative FMN binding site [chemical binding]; other site 374833004097 putative metal dependent hydrolase; Provisional; Region: PRK11598 374833004098 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 374833004099 Sulfatase; Region: Sulfatase; pfam00884 374833004100 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 374833004101 homodimer interface [polypeptide binding]; other site 374833004102 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 374833004103 substrate-cofactor binding pocket; other site 374833004104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833004105 catalytic residue [active] 374833004106 ribosome maturation protein RimP; Reviewed; Region: PRK00092 374833004107 Sm and related proteins; Region: Sm_like; cl00259 374833004108 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 374833004109 putative oligomer interface [polypeptide binding]; other site 374833004110 putative RNA binding site [nucleotide binding]; other site 374833004111 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 374833004112 NusA N-terminal domain; Region: NusA_N; pfam08529 374833004113 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 374833004114 RNA binding site [nucleotide binding]; other site 374833004115 homodimer interface [polypeptide binding]; other site 374833004116 NusA-like KH domain; Region: KH_5; pfam13184 374833004117 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 374833004118 G-X-X-G motif; other site 374833004119 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 374833004120 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 374833004121 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 374833004122 translation initiation factor IF-2; Region: IF-2; TIGR00487 374833004123 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 374833004124 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 374833004125 G1 box; other site 374833004126 putative GEF interaction site [polypeptide binding]; other site 374833004127 GTP/Mg2+ binding site [chemical binding]; other site 374833004128 Switch I region; other site 374833004129 G2 box; other site 374833004130 G3 box; other site 374833004131 Switch II region; other site 374833004132 G4 box; other site 374833004133 G5 box; other site 374833004134 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 374833004135 Translation-initiation factor 2; Region: IF-2; pfam11987 374833004136 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 374833004137 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 374833004138 G1 box; other site 374833004139 GTP/Mg2+ binding site [chemical binding]; other site 374833004140 G2 box; other site 374833004141 Switch I region; other site 374833004142 G3 box; other site 374833004143 Switch II region; other site 374833004144 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 374833004145 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 374833004146 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 374833004147 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 374833004148 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 374833004149 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 374833004150 hypothetical protein; Validated; Region: PRK00110 374833004151 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 374833004152 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 374833004153 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 374833004154 active site 374833004155 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 374833004156 substrate binding site [chemical binding]; other site 374833004157 catalytic residues [active] 374833004158 dimer interface [polypeptide binding]; other site 374833004159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833004160 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 374833004161 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 374833004162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 374833004163 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 374833004164 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 374833004165 S-adenosylmethionine binding site [chemical binding]; other site 374833004166 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 374833004167 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 374833004168 Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]; Region: Dfp; COG0452 374833004169 Flavoprotein; Region: Flavoprotein; pfam02441 374833004170 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 374833004171 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 374833004172 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 374833004173 Zn2+ binding site [ion binding]; other site 374833004174 Mg2+ binding site [ion binding]; other site 374833004175 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 374833004176 synthetase active site [active] 374833004177 NTP binding site [chemical binding]; other site 374833004178 metal binding site [ion binding]; metal-binding site 374833004179 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 374833004180 ACT domain; Region: ACT_4; pfam13291 374833004181 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 374833004182 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 374833004183 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 374833004184 catalytic site [active] 374833004185 G-X2-G-X-G-K; other site 374833004186 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374833004187 active site 374833004188 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 374833004189 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 374833004190 active site 374833004191 motif I; other site 374833004192 motif II; other site 374833004193 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 374833004194 putative protease; Provisional; Region: PRK15452 374833004195 Peptidase family U32; Region: Peptidase_U32; pfam01136 374833004196 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 374833004197 putative active site [active] 374833004198 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 374833004199 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 374833004200 heme binding pocket [chemical binding]; other site 374833004201 heme ligand [chemical binding]; other site 374833004202 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 374833004203 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 374833004204 Paraquat-inducible protein A; Region: PqiA; pfam04403 374833004205 Paraquat-inducible protein A; Region: PqiA; pfam04403 374833004206 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 374833004207 mce related protein; Region: MCE; pfam02470 374833004208 mce related protein; Region: MCE; pfam02470 374833004209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 374833004210 Protein of unknown function (DUF330); Region: DUF330; pfam03886 374833004211 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 374833004212 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 374833004213 active site 374833004214 catalytic triad [active] 374833004215 oxyanion hole [active] 374833004216 switch loop; other site 374833004217 glycine dehydrogenase; Provisional; Region: PRK05367 374833004218 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 374833004219 tetramer interface [polypeptide binding]; other site 374833004220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833004221 catalytic residue [active] 374833004222 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 374833004223 tetramer interface [polypeptide binding]; other site 374833004224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833004225 catalytic residue [active] 374833004226 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 374833004227 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 374833004228 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 374833004229 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 374833004230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833004231 homodimer interface [polypeptide binding]; other site 374833004232 catalytic residue [active] 374833004233 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 374833004234 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 374833004235 S-adenosylmethionine binding site [chemical binding]; other site 374833004236 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 374833004237 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 374833004238 Tetramer interface [polypeptide binding]; other site 374833004239 active site 374833004240 FMN-binding site [chemical binding]; other site 374833004241 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 374833004242 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 374833004243 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 374833004244 ATP binding site [chemical binding]; other site 374833004245 Mg2+ binding site [ion binding]; other site 374833004246 G-X-G motif; other site 374833004247 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 374833004248 anchoring element; other site 374833004249 dimer interface [polypeptide binding]; other site 374833004250 ATP binding site [chemical binding]; other site 374833004251 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 374833004252 active site 374833004253 metal binding site [ion binding]; metal-binding site 374833004254 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 374833004255 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 374833004256 putative active site [active] 374833004257 Ap4A binding site [chemical binding]; other site 374833004258 nudix motif; other site 374833004259 putative metal binding site [ion binding]; other site 374833004260 seryl-tRNA synthetase; Provisional; Region: PRK05431 374833004261 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 374833004262 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 374833004263 dimer interface [polypeptide binding]; other site 374833004264 active site 374833004265 motif 1; other site 374833004266 motif 2; other site 374833004267 motif 3; other site 374833004268 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 374833004269 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 374833004270 putative ligand binding site [chemical binding]; other site 374833004271 putative NAD binding site [chemical binding]; other site 374833004272 catalytic site [active] 374833004273 peptide chain release factor 1; Validated; Region: prfA; PRK00591 374833004274 This domain is found in peptide chain release factors; Region: PCRF; smart00937 374833004275 RF-1 domain; Region: RF-1; pfam00472 374833004276 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 374833004277 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 374833004278 active site 374833004279 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 374833004280 homodimer interface [polypeptide binding]; other site 374833004281 active site 374833004282 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 374833004283 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 374833004284 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 374833004285 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 374833004286 active site 374833004287 substrate binding site [chemical binding]; other site 374833004288 metal binding site [ion binding]; metal-binding site 374833004289 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 374833004290 dihydropteroate synthase; Region: DHPS; TIGR01496 374833004291 substrate binding pocket [chemical binding]; other site 374833004292 dimer interface [polypeptide binding]; other site 374833004293 inhibitor binding site; inhibition site 374833004294 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 374833004295 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 374833004296 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 374833004297 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 374833004298 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 374833004299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 374833004300 Predicted membrane protein [Function unknown]; Region: COG4648 374833004301 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 374833004302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833004303 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 374833004304 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 374833004305 dimer interface [polypeptide binding]; other site 374833004306 active site 374833004307 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 374833004308 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 374833004309 putative metal binding site; other site 374833004310 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 374833004311 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 374833004312 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 374833004313 Na2 binding site [ion binding]; other site 374833004314 putative substrate binding site 1 [chemical binding]; other site 374833004315 Na binding site 1 [ion binding]; other site 374833004316 putative substrate binding site 2 [chemical binding]; other site 374833004317 ApbE family; Region: ApbE; pfam02424 374833004318 thymidylate synthase; Reviewed; Region: thyA; PRK01827 374833004319 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 374833004320 active site 374833004321 dimerization interface [polypeptide binding]; other site 374833004322 glutamate dehydrogenase; Provisional; Region: PRK09414 374833004323 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 374833004324 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 374833004325 NAD(P) binding site [chemical binding]; other site 374833004326 Transcriptional regulators [Transcription]; Region: FadR; COG2186 374833004327 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 374833004328 DNA-binding site [nucleotide binding]; DNA binding site 374833004329 FCD domain; Region: FCD; pfam07729 374833004330 L-lactate permease; Region: Lactate_perm; cl00701 374833004331 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 374833004332 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 374833004333 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 374833004334 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 374833004335 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 374833004336 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 374833004337 HlyD family secretion protein; Region: HlyD_3; pfam13437 374833004338 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 374833004339 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 374833004340 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 374833004341 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 374833004342 AbgT putative transporter family; Region: ABG_transport; pfam03806 374833004343 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 374833004344 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 374833004345 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 374833004346 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 374833004347 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 374833004348 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 374833004349 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 374833004350 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 374833004351 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 374833004352 Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]; Region: CcoQ; COG4736 374833004353 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 374833004354 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 374833004355 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 374833004356 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 374833004357 Putative water exit pathway; other site 374833004358 Binuclear center (active site) [active] 374833004359 Putative proton exit pathway; other site 374833004360 Low-spin heme binding site [chemical binding]; other site 374833004361 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 374833004362 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 374833004363 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 374833004364 protein binding site [polypeptide binding]; other site 374833004365 TIGR01244 family protein; Region: TIGR01244 374833004366 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 374833004367 TolR protein; Region: tolR; TIGR02801 374833004368 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 374833004369 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 374833004370 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 374833004371 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 374833004372 Peptidase family M50; Region: Peptidase_M50; pfam02163 374833004373 active site 374833004374 putative substrate binding region [chemical binding]; other site 374833004375 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 374833004376 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 374833004377 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 374833004378 C-terminal domain interface [polypeptide binding]; other site 374833004379 GSH binding site (G-site) [chemical binding]; other site 374833004380 catalytic residues [active] 374833004381 putative dimer interface [polypeptide binding]; other site 374833004382 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 374833004383 N-terminal domain interface [polypeptide binding]; other site 374833004384 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 374833004385 HD domain; Region: HD_4; pfam13328 374833004386 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 374833004387 synthetase active site [active] 374833004388 NTP binding site [chemical binding]; other site 374833004389 metal binding site [ion binding]; metal-binding site 374833004390 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 374833004391 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 374833004392 DDE superfamily endonuclease; Region: DDE_3; pfam13358 374833004393 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 374833004394 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 374833004395 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 374833004396 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 374833004397 HlyD family secretion protein; Region: HlyD_3; pfam13437 374833004398 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 374833004399 Replication initiation factor; Region: Rep_trans; pfam02486 374833004400 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 374833004401 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 374833004402 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 374833004403 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 374833004404 G1 box; other site 374833004405 GTP/Mg2+ binding site [chemical binding]; other site 374833004406 G2 box; other site 374833004407 Switch I region; other site 374833004408 G3 box; other site 374833004409 Switch II region; other site 374833004410 G4 box; other site 374833004411 G5 box; other site 374833004412 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 374833004413 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 374833004414 active site 374833004415 phosphorylation site [posttranslational modification] 374833004416 intermolecular recognition site; other site 374833004417 dimerization interface [polypeptide binding]; other site 374833004418 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 374833004419 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 374833004420 S-adenosylmethionine binding site [chemical binding]; other site 374833004421 Protein of unknown function (DUF452); Region: DUF452; cl01062 374833004422 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 374833004423 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 374833004424 substrate-cofactor binding pocket; other site 374833004425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374833004426 catalytic residue [active] 374833004427 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 374833004428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 374833004429 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 374833004430 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 374833004431 transmembrane helices; other site 374833004432 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 374833004433 agmatinase; Region: agmatinase; TIGR01230 374833004434 oligomer interface [polypeptide binding]; other site 374833004435 putative active site [active] 374833004436 Mn binding site [ion binding]; other site 374833004437 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 374833004438 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 374833004439 dimer interface [polypeptide binding]; other site 374833004440 active site 374833004441 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 374833004442 catalytic residues [active] 374833004443 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 374833004444 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 374833004445 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 374833004446 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 374833004447 dimer interface [polypeptide binding]; other site 374833004448 anticodon binding site; other site 374833004449 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 374833004450 homodimer interface [polypeptide binding]; other site 374833004451 motif 1; other site 374833004452 active site 374833004453 motif 2; other site 374833004454 GAD domain; Region: GAD; pfam02938 374833004455 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 374833004456 motif 3; other site 374833004457 Uncharacterized conserved protein [Function unknown]; Region: COG2928 374833004458 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 374833004459 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 374833004460 dimerization interface [polypeptide binding]; other site 374833004461 substrate binding site [chemical binding]; other site 374833004462 active site 374833004463 calcium binding site [ion binding]; other site 374833004464 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 374833004465 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 374833004466 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 374833004467 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 374833004468 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 374833004469 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 374833004470 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 374833004471 Fic family protein [Function unknown]; Region: COG3177 374833004472 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 374833004473 Fic/DOC family; Region: Fic; pfam02661 374833004474 Transposase domain (DUF772); Region: DUF772; pfam05598 374833004475 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833004476 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833004477 glutamate racemase; Provisional; Region: PRK00865 374833004478 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 374833004479 AMIN domain; Region: AMIN; pfam11741 374833004480 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 374833004481 active site 374833004482 metal binding site [ion binding]; metal-binding site 374833004483 Fic family protein [Function unknown]; Region: COG3177 374833004484 Fic/DOC family; Region: Fic; pfam02661 374833004485 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 374833004486 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 374833004487 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 374833004488 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 374833004489 active site 374833004490 8-oxo-dGMP binding site [chemical binding]; other site 374833004491 nudix motif; other site 374833004492 metal binding site [ion binding]; metal-binding site 374833004493 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 374833004494 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 374833004495 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 374833004496 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 374833004497 active site 374833004498 iron coordination sites [ion binding]; other site 374833004499 substrate binding pocket [chemical binding]; other site 374833004500 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 374833004501 active site 374833004502 hydrophilic channel; other site 374833004503 dimerization interface [polypeptide binding]; other site 374833004504 catalytic residues [active] 374833004505 active site lid [active] 374833004506 Recombination protein O N terminal; Region: RecO_N; pfam11967 374833004507 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 374833004508 Recombination protein O C terminal; Region: RecO_C; pfam02565 374833004509 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 374833004510 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 374833004511 Prephenate dehydratase; Region: PDT; pfam00800 374833004512 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 374833004513 putative L-Phe binding site [chemical binding]; other site 374833004514 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 374833004515 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 374833004516 putative substrate translocation pore; other site 374833004517 EamA-like transporter family; Region: EamA; pfam00892 374833004518 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 374833004519 EamA-like transporter family; Region: EamA; pfam00892 374833004520 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 374833004521 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833004522 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 374833004523 Predicted amidohydrolase [General function prediction only]; Region: COG0388 374833004524 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 374833004525 putative active site [active] 374833004526 catalytic triad [active] 374833004527 dimer interface [polypeptide binding]; other site 374833004528 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 374833004529 prephenate dehydrogenase; Validated; Region: PRK08507 374833004530 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 374833004531 Transcriptional regulator; Region: Rrf2; cl17282 374833004532 Rrf2 family protein; Region: rrf2_super; TIGR00738 374833004533 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 374833004534 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 374833004535 propionate/acetate kinase; Provisional; Region: PRK12379 374833004536 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 374833004537 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 374833004538 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 374833004539 substrate binding site [chemical binding]; other site 374833004540 ligand binding site [chemical binding]; other site 374833004541 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 374833004542 substrate binding site [chemical binding]; other site 374833004543 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 374833004544 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 374833004545 dimer interface [polypeptide binding]; other site 374833004546 active site 374833004547 citrylCoA binding site [chemical binding]; other site 374833004548 oxalacetate/citrate binding site [chemical binding]; other site 374833004549 coenzyme A binding site [chemical binding]; other site 374833004550 catalytic triad [active] 374833004551 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 374833004552 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 374833004553 tetramer interface [polypeptide binding]; other site 374833004554 active site 374833004555 Mg2+/Mn2+ binding site [ion binding]; other site 374833004556 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 374833004557 cell division protein FtsZ; Validated; Region: PRK09330 374833004558 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 374833004559 nucleotide binding site [chemical binding]; other site 374833004560 SulA interaction site; other site 374833004561 cell division protein FtsA; Region: ftsA; TIGR01174 374833004562 Cell division protein FtsA; Region: FtsA; smart00842 374833004563 Cell division protein FtsA; Region: FtsA; pfam14450 374833004564 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 374833004565 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 374833004566 Cell division protein FtsQ; Region: FtsQ; pfam03799 374833004567 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 374833004568 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 374833004569 ATP-grasp domain; Region: ATP-grasp_4; cl17255 374833004570 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 374833004571 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374833004572 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374833004573 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374833004574 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 374833004575 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 374833004576 active site 374833004577 homodimer interface [polypeptide binding]; other site 374833004578 cell division protein FtsW; Region: ftsW; TIGR02614 374833004579 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 374833004580 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374833004581 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374833004582 Sel1 repeat; Region: Sel1; cl02723 374833004583 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 374833004584 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 374833004585 Mg++ binding site [ion binding]; other site 374833004586 putative catalytic motif [active] 374833004587 putative substrate binding site [chemical binding]; other site 374833004588 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 374833004589 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374833004590 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 374833004591 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374833004592 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374833004593 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 374833004594 Sulfatase; Region: Sulfatase; pfam00884 374833004595 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 374833004596 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374833004597 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374833004598 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374833004599 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 374833004600 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 374833004601 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 374833004602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 374833004603 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 374833004604 MraW methylase family; Region: Methyltransf_5; cl17771 374833004605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 374833004606 MraZ protein; Region: MraZ; pfam02381 374833004607 MraZ protein; Region: MraZ; pfam02381 374833004608 Uncharacterized conserved protein [Function unknown]; Region: COG1565 374833004609 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 374833004610 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 374833004611 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 374833004612 catalytic residues [active] 374833004613 hinge region; other site 374833004614 alpha helical domain; other site 374833004615 cell division protein FtsN; Region: ftsN; TIGR02223 374833004616 Sporulation related domain; Region: SPOR; pfam05036 374833004617 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 374833004618 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 374833004619 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 374833004620 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 374833004621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 374833004622 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 374833004623 Na binding site [ion binding]; other site 374833004624 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 374833004625 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 374833004626 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 374833004627 Glutamate binding site [chemical binding]; other site 374833004628 NAD binding site [chemical binding]; other site 374833004629 catalytic residues [active] 374833004630 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 374833004631 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 374833004632 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 374833004633 putative catalytic site [active] 374833004634 putative phosphate binding site [ion binding]; other site 374833004635 active site 374833004636 metal binding site A [ion binding]; metal-binding site 374833004637 DNA binding site [nucleotide binding] 374833004638 putative AP binding site [nucleotide binding]; other site 374833004639 putative metal binding site B [ion binding]; other site 374833004640 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 374833004641 dimerization interface [polypeptide binding]; other site 374833004642 putative DNA binding site [nucleotide binding]; other site 374833004643 putative Zn2+ binding site [ion binding]; other site 374833004644 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 374833004645 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 374833004646 dimerization interface [polypeptide binding]; other site 374833004647 active site 374833004648 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 374833004649 quinolinate synthetase; Provisional; Region: PRK09375 374833004650 L-aspartate oxidase; Provisional; Region: PRK06175 374833004651 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 374833004652 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 374833004653 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 374833004654 motif II; other site 374833004655 maltose phosphorylase; Provisional; Region: PRK13807 374833004656 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 374833004657 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 374833004658 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 374833004659 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 374833004660 active site 374833004661 catalytic residues [active] 374833004662 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 374833004663 putative substrate translocation pore; other site 374833004664 Major Facilitator Superfamily; Region: MFS_1; pfam07690 374833004665 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 374833004666 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374833004667 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374833004668 ABC transporter; Region: ABC_tran_2; pfam12848 374833004669 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374833004670 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 374833004671 tetramer interfaces [polypeptide binding]; other site 374833004672 binuclear metal-binding site [ion binding]; other site 374833004673 thiamine monophosphate kinase; Provisional; Region: PRK05731 374833004674 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 374833004675 dimerization interface [polypeptide binding]; other site 374833004676 ATP binding site [chemical binding]; other site 374833004677 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 374833004678 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 374833004679 ligand binding site [chemical binding]; other site 374833004680 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 374833004681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374833004682 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 374833004683 substrate binding site [chemical binding]; other site 374833004684 dimerization interface [polypeptide binding]; other site 374833004685 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 374833004686 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 374833004687 ligand binding site [chemical binding]; other site 374833004688 flexible hinge region; other site 374833004689 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 374833004690 putative switch regulator; other site 374833004691 non-specific DNA interactions [nucleotide binding]; other site 374833004692 DNA binding site [nucleotide binding] 374833004693 sequence specific DNA binding site [nucleotide binding]; other site 374833004694 putative cAMP binding site [chemical binding]; other site 374833004695 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 374833004696 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 374833004697 FeS/SAM binding site; other site 374833004698 HemN C-terminal domain; Region: HemN_C; pfam06969 374833004699 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 374833004700 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 374833004701 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 374833004702 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 374833004703 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 374833004704 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 374833004705 active site 374833004706 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 374833004707 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 374833004708 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 374833004709 Pretoxin HINT domain; Region: PT-HINT; pfam07591 374833004710 thioester formation/cholesterol transfer; other site 374833004711 protein-splicing catalytic site; other site 374833004712 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 374833004713 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 374833004714 GIY-YIG motif/motif A; other site 374833004715 putative active site [active] 374833004716 putative metal binding site [ion binding]; other site 374833004717 muropeptide transporter; Reviewed; Region: ampG; PRK11902 374833004718 AmpG-like permease; Region: 2A0125; TIGR00901 374833004719 glutamine synthetase; Provisional; Region: glnA; PRK09469 374833004720 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 374833004721 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 374833004722 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 374833004723 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 374833004724 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 374833004725 shikimate binding site; other site 374833004726 NAD(P) binding site [chemical binding]; other site 374833004727 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 374833004728 Transglycosylase; Region: Transgly; cl17702 374833004729 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 374833004730 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 374833004731 Walker A/P-loop; other site 374833004732 ATP binding site [chemical binding]; other site 374833004733 Q-loop/lid; other site 374833004734 ABC transporter signature motif; other site 374833004735 Walker B; other site 374833004736 D-loop; other site 374833004737 H-loop/switch region; other site 374833004738 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 374833004739 OstA-like protein; Region: OstA; pfam03968 374833004740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 374833004741 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 374833004742 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 374833004743 active site 374833004744 motif I; other site 374833004745 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 374833004746 motif II; other site 374833004747 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 374833004748 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 374833004749 putative active site [active] 374833004750 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 374833004751 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 374833004752 putative active site [active] 374833004753 transaldolase; Provisional; Region: PRK03903 374833004754 catalytic residue [active] 374833004755 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 374833004756 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 374833004757 active site 374833004758 HIGH motif; other site 374833004759 nucleotide binding site [chemical binding]; other site 374833004760 active site 374833004761 KMSKS motif; other site 374833004762 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 374833004763 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 374833004764 FMN binding site [chemical binding]; other site 374833004765 active site 374833004766 catalytic residues [active] 374833004767 substrate binding site [chemical binding]; other site 374833004768 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 374833004769 dimerization interface [polypeptide binding]; other site 374833004770 putative tRNAtyr binding site [nucleotide binding]; other site 374833004771 putative active site [active] 374833004772 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 374833004773 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 374833004774 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 374833004775 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 374833004776 YciI-like protein; Reviewed; Region: PRK11370 374833004777 intracellular septation protein A; Reviewed; Region: PRK00259 374833004778 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 374833004779 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 374833004780 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 374833004781 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 374833004782 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 374833004783 dimer interface [polypeptide binding]; other site 374833004784 active site 374833004785 metal binding site [ion binding]; metal-binding site 374833004786 glutathione binding site [chemical binding]; other site 374833004787 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 374833004788 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 374833004789 TPR motif; other site 374833004790 binding surface 374833004791 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 374833004792 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 374833004793 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 374833004794 homodimer interface [polypeptide binding]; other site 374833004795 substrate-cofactor binding pocket; other site 374833004796 catalytic residue [active] 374833004797 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 374833004798 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 374833004799 NAD binding site [chemical binding]; other site 374833004800 homotetramer interface [polypeptide binding]; other site 374833004801 homodimer interface [polypeptide binding]; other site 374833004802 substrate binding site [chemical binding]; other site 374833004803 active site 374833004804 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 374833004805 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 374833004806 trimer interface [polypeptide binding]; other site 374833004807 active site 374833004808 substrate binding site [chemical binding]; other site 374833004809 CoA binding site [chemical binding]; other site 374833004810 Phosphoglucose isomerase; Region: PGI; pfam00342 374833004811 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 374833004812 active site 374833004813 dimer interface [polypeptide binding]; other site 374833004814 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 374833004815 dimer interface [polypeptide binding]; other site 374833004816 active site 374833004817 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 374833004818 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 374833004819 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 374833004820 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 374833004821 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 374833004822 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 374833004823 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 374833004824 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 374833004825 CoA-binding site [chemical binding]; other site 374833004826 ATP-binding [chemical binding]; other site 374833004827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 374833004828 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 374833004829 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 374833004830 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 374833004831 Walker A motif; other site 374833004832 ATP binding site [chemical binding]; other site 374833004833 Walker B motif; other site 374833004834 Predicted membrane protein [Function unknown]; Region: COG2707 374833004835 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 374833004836 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 374833004837 substrate binding pocket [chemical binding]; other site 374833004838 chain length determination region; other site 374833004839 substrate-Mg2+ binding site; other site 374833004840 catalytic residues [active] 374833004841 aspartate-rich region 1; other site 374833004842 active site lid residues [active] 374833004843 aspartate-rich region 2; other site 374833004844 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 374833004845 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 374833004846 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 374833004847 hypothetical protein; Provisional; Region: PRK09126 374833004848 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 374833004849 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 374833004850 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 374833004851 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 374833004852 putative substrate translocation pore; other site 374833004853 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 374833004854 HlyD family secretion protein; Region: HlyD_3; pfam13437 374833004855 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 374833004856 hypothetical protein; Provisional; Region: PRK11212 374833004857 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 374833004858 Peptidase family M23; Region: Peptidase_M23; pfam01551 374833004859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 374833004860 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 374833004861 binding surface 374833004862 Tetratricopeptide repeat; Region: TPR_16; pfam13432 374833004863 TPR motif; other site 374833004864 Protein of unknown function (DUF560); Region: DUF560; pfam04575 374833004865 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 374833004866 Autotransporter beta-domain; Region: Autotransporter; pfam03797 374833004867 Predicted membrane protein [Function unknown]; Region: COG1981 374833004868 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 374833004869 putative active site [active] 374833004870 putative metal binding residues [ion binding]; other site 374833004871 signature motif; other site 374833004872 putative dimer interface [polypeptide binding]; other site 374833004873 putative phosphate binding site [ion binding]; other site 374833004874 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 374833004875 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 374833004876 folate binding site [chemical binding]; other site 374833004877 NADP+ binding site [chemical binding]; other site 374833004878 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 374833004879 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 374833004880 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833004881 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 374833004882 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 374833004883 signal recognition particle protein; Provisional; Region: PRK10867 374833004884 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 374833004885 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 374833004886 P loop; other site 374833004887 GTP binding site [chemical binding]; other site 374833004888 Signal peptide binding domain; Region: SRP_SPB; pfam02978 374833004889 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 374833004890 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 374833004891 catalytic residues [active] 374833004892 hinge region; other site 374833004893 alpha helical domain; other site 374833004894 Uncharacterized conserved protein [Function unknown]; Region: COG1432 374833004895 LabA_like proteins; Region: LabA_like; cd06167 374833004896 putative metal binding site [ion binding]; other site 374833004897 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 374833004898 dimer interface [polypeptide binding]; other site 374833004899 FMN binding site [chemical binding]; other site 374833004900 Predicted membrane protein [Function unknown]; Region: COG2259 374833004901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374833004902 Transcriptional regulator [Transcription]; Region: LysR; COG0583 374833004903 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 374833004904 putative effector binding pocket; other site 374833004905 dimerization interface [polypeptide binding]; other site 374833004906 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 374833004907 DNA photolyase; Region: DNA_photolyase; pfam00875 374833004908 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 374833004909 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 374833004910 DEAD_2; Region: DEAD_2; pfam06733 374833004911 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 374833004912 Protein of unknown function (DUF533); Region: DUF533; pfam04391 374833004913 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 374833004914 putative metal binding site [ion binding]; other site 374833004915 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 374833004916 adenylosuccinate lyase; Provisional; Region: PRK09285 374833004917 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 374833004918 tetramer interface [polypeptide binding]; other site 374833004919 active site 374833004920 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 374833004921 Exoribonuclease R [Transcription]; Region: VacB; COG0557 374833004922 RNB domain; Region: RNB; pfam00773 374833004923 SurA N-terminal domain; Region: SurA_N; pfam09312 374833004924 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 374833004925 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 374833004926 Organic solvent tolerance protein; Region: OstA_C; pfam04453 374833004927 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 374833004928 Phosphotransferase enzyme family; Region: APH; pfam01636 374833004929 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 374833004930 catalytic residues [active] 374833004931 hinge region; other site 374833004932 alpha helical domain; other site 374833004933 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 374833004934 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 374833004935 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 374833004936 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 374833004937 active site 374833004938 ribulose/triose binding site [chemical binding]; other site 374833004939 phosphate binding site [ion binding]; other site 374833004940 substrate (anthranilate) binding pocket [chemical binding]; other site 374833004941 product (indole) binding pocket [chemical binding]; other site 374833004942 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 374833004943 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 374833004944 ATP binding site [chemical binding]; other site 374833004945 putative Mg++ binding site [ion binding]; other site 374833004946 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 374833004947 nucleotide binding region [chemical binding]; other site 374833004948 ATP-binding site [chemical binding]; other site 374833004949 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 374833004950 Helicase and RNase D C-terminal; Region: HRDC; smart00341 374833004951 Helicase and RNase D C-terminal; Region: HRDC; smart00341 374833004952 Helicase and RNase D C-terminal; Region: HRDC; smart00341 374833004953 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 374833004954 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 374833004955 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 374833004956 Serine hydrolase (FSH1); Region: FSH1; pfam03959 374833004957 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 374833004958 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374833004959 active site 374833004960 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 374833004961 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 374833004962 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 374833004963 Predicted membrane protein [Function unknown]; Region: COG3212 374833004964 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 374833004965 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 374833004966 RuvA N terminal domain; Region: RuvA_N; pfam01330 374833004967 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 374833004968 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 374833004969 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 374833004970 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 374833004971 Walker A/P-loop; other site 374833004972 ATP binding site [chemical binding]; other site 374833004973 Q-loop/lid; other site 374833004974 ABC transporter signature motif; other site 374833004975 Walker B; other site 374833004976 D-loop; other site 374833004977 H-loop/switch region; other site 374833004978 GTPase RsgA; Reviewed; Region: PRK00098 374833004979 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 374833004980 RNA binding site [nucleotide binding]; other site 374833004981 homodimer interface [polypeptide binding]; other site 374833004982 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 374833004983 GTPase/Zn-binding domain interface [polypeptide binding]; other site 374833004984 GTP/Mg2+ binding site [chemical binding]; other site 374833004985 G4 box; other site 374833004986 G5 box; other site 374833004987 G1 box; other site 374833004988 Switch I region; other site 374833004989 G2 box; other site 374833004990 G3 box; other site 374833004991 Switch II region; other site 374833004992 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 374833004993 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 374833004994 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 374833004995 substrate binding pocket [chemical binding]; other site 374833004996 chain length determination region; other site 374833004997 substrate-Mg2+ binding site; other site 374833004998 catalytic residues [active] 374833004999 aspartate-rich region 1; other site 374833005000 active site lid residues [active] 374833005001 aspartate-rich region 2; other site 374833005002 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 374833005003 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 374833005004 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 374833005005 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 374833005006 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 374833005007 Uncharacterized conserved protein [Function unknown]; Region: COG1479 374833005008 Protein of unknown function DUF262; Region: DUF262; pfam03235 374833005009 Protein of unknown function DUF262; Region: DUF262; pfam03235 374833005010 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 374833005011 Cupin domain; Region: Cupin_2; cl17218 374833005012 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 374833005013 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 374833005014 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 374833005015 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 374833005016 Fic/DOC family; Region: Fic; pfam02661 374833005017 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 374833005018 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 374833005019 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 374833005020 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 374833005021 4Fe-4S binding domain; Region: Fer4; cl02805 374833005022 4Fe-4S binding domain; Region: Fer4; pfam00037 374833005023 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 374833005024 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 374833005025 NADH dehydrogenase subunit G; Validated; Region: PRK09129 374833005026 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 374833005027 catalytic loop [active] 374833005028 iron binding site [ion binding]; other site 374833005029 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 374833005030 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 374833005031 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 374833005032 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 374833005033 GIY-YIG motif/motif A; other site 374833005034 putative active site [active] 374833005035 putative metal binding site [ion binding]; other site 374833005036 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 374833005037 SLBB domain; Region: SLBB; pfam10531 374833005038 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 374833005039 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 374833005040 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 374833005041 putative dimer interface [polypeptide binding]; other site 374833005042 [2Fe-2S] cluster binding site [ion binding]; other site 374833005043 NADH dehydrogenase subunit D; Validated; Region: PRK06075 374833005044 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 374833005045 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 374833005046 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 374833005047 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 374833005048 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 374833005049 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 374833005050 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 374833005051 S-adenosylmethionine binding site [chemical binding]; other site 374833005052 spermidine synthase; Provisional; Region: PRK03612 374833005053 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833005054 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 374833005055 DNA helicase II; Region: uvrD; TIGR01075 374833005056 Family description; Region: UvrD_C_2; pfam13538 374833005057 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 374833005058 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 374833005059 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 374833005060 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 374833005061 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 374833005062 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 374833005063 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 374833005064 Helix-turn-helix domain; Region: HTH_38; pfam13936 374833005065 Homeodomain-like domain; Region: HTH_32; pfam13565 374833005066 Integrase core domain; Region: rve; pfam00665 374833005067 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 374833005068 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 374833005069 metal binding triad; other site 374833005070 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 374833005071 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 374833005072 metal binding triad; other site 374833005073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 374833005074 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 374833005075 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 374833005076 quinone interaction residues [chemical binding]; other site 374833005077 active site 374833005078 catalytic residues [active] 374833005079 FMN binding site [chemical binding]; other site 374833005080 substrate binding site [chemical binding]; other site 374833005081 acyl carrier protein; Provisional; Region: acpP; PRK00982 374833005082 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 374833005083 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 374833005084 dimer interface [polypeptide binding]; other site 374833005085 active site 374833005086 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 374833005087 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 374833005088 putative ADP-binding pocket [chemical binding]; other site 374833005089 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 374833005090 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 374833005091 tetramer interface [polypeptide binding]; other site 374833005092 heme binding pocket [chemical binding]; other site 374833005093 NADPH binding site [chemical binding]; other site 374833005094 Predicted membrane protein [Function unknown]; Region: COG1971 374833005095 Domain of unknown function DUF; Region: DUF204; pfam02659 374833005096 Domain of unknown function DUF; Region: DUF204; pfam02659 374833005097 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 374833005098 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 374833005099 active site 374833005100 Zn binding site [ion binding]; other site 374833005101 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 374833005102 Mechanosensitive ion channel; Region: MS_channel; pfam00924 374833005103 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 374833005104 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 374833005105 Mg2+ binding site [ion binding]; other site 374833005106 G-X-G motif; other site 374833005107 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 374833005108 anchoring element; other site 374833005109 dimer interface [polypeptide binding]; other site 374833005110 ATP binding site [chemical binding]; other site 374833005111 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 374833005112 active site 374833005113 putative metal-binding site [ion binding]; other site 374833005114 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 374833005115 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 374833005116 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 374833005117 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 374833005118 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 374833005119 putative cation:proton antiport protein; Provisional; Region: PRK10669 374833005120 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 374833005121 TrkA-N domain; Region: TrkA_N; pfam02254 374833005122 TrkA-C domain; Region: TrkA_C; pfam02080 374833005123 ferredoxin; Provisional; Region: PRK08764 374833005124 Putative Fe-S cluster; Region: FeS; cl17515 374833005125 4Fe-4S binding domain; Region: Fer4; pfam00037 374833005126 4Fe-4S binding domain; Region: Fer4; pfam00037 374833005127 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 374833005128 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 374833005129 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 374833005130 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 374833005131 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 374833005132 metal binding site 2 [ion binding]; metal-binding site 374833005133 putative DNA binding helix; other site 374833005134 metal binding site 1 [ion binding]; metal-binding site 374833005135 dimer interface [polypeptide binding]; other site 374833005136 structural Zn2+ binding site [ion binding]; other site 374833005137 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 374833005138 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 374833005139 dihydrodipicolinate reductase; Provisional; Region: PRK00048 374833005140 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 374833005141 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 374833005142 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 374833005143 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 374833005144 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 374833005145 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 374833005146 RNA binding surface [nucleotide binding]; other site 374833005147 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 374833005148 active site 374833005149 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 374833005150 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 374833005151 homodimer interface [polypeptide binding]; other site 374833005152 oligonucleotide binding site [chemical binding]; other site 374833005153 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 374833005154 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 374833005155 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 374833005156 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 374833005157 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 374833005158 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 374833005159 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 374833005160 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 374833005161 RNA/DNA hybrid binding site [nucleotide binding]; other site 374833005162 active site 374833005163 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 374833005164 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 374833005165 P-loop; other site 374833005166 Magnesium ion binding site [ion binding]; other site 374833005167 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 374833005168 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 374833005169 Magnesium ion binding site [ion binding]; other site 374833005170 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 374833005171 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 374833005172 S-adenosylmethionine binding site [chemical binding]; other site 374833005173 Predicted membrane protein [Function unknown]; Region: COG1289 374833005174 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 374833005175 ribosome recycling factor; Reviewed; Region: frr; PRK00083 374833005176 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 374833005177 hinge region; other site 374833005178 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 374833005179 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 374833005180 catalytic residue [active] 374833005181 putative FPP diphosphate binding site; other site 374833005182 putative FPP binding hydrophobic cleft; other site 374833005183 dimer interface [polypeptide binding]; other site 374833005184 putative IPP diphosphate binding site; other site 374833005185 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 374833005186 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 374833005187 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 374833005188 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 374833005189 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 374833005190 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 374833005191 zinc metallopeptidase RseP; Provisional; Region: PRK10779 374833005192 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 374833005193 active site 374833005194 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 374833005195 protein binding site [polypeptide binding]; other site 374833005196 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 374833005197 protein binding site [polypeptide binding]; other site 374833005198 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 374833005199 putative substrate binding region [chemical binding]; other site 374833005200 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 374833005201 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374833005202 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374833005203 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374833005204 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374833005205 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374833005206 Surface antigen; Region: Bac_surface_Ag; pfam01103 374833005207 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 374833005208 periplasmic chaperone; Provisional; Region: PRK10780 374833005209 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 374833005210 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 374833005211 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 374833005212 trimer interface [polypeptide binding]; other site 374833005213 active site 374833005214 UDP-GlcNAc binding site [chemical binding]; other site 374833005215 lipid binding site [chemical binding]; lipid-binding site 374833005216 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 374833005217 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 374833005218 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 374833005219 active site 374833005220 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 374833005221 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 374833005222 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 374833005223 hydroxyglutarate oxidase; Provisional; Region: PRK11728 374833005224 zinc transporter ZupT; Provisional; Region: PRK04201 374833005225 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 374833005226 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 374833005227 HIGH motif; other site 374833005228 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 374833005229 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 374833005230 active site 374833005231 KMSKS motif; other site 374833005232 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 374833005233 tRNA binding surface [nucleotide binding]; other site 374833005234 anticodon binding site; other site 374833005235 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 374833005236 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 374833005237 dimerization interface [polypeptide binding]; other site 374833005238 cell division topological specificity factor MinE; Provisional; Region: PRK13989 374833005239 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 374833005240 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 374833005241 Switch I; other site 374833005242 Switch II; other site 374833005243 septum formation inhibitor; Reviewed; Region: minC; PRK04516 374833005244 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 374833005245 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 374833005246 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 374833005247 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 374833005248 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 374833005249 alphaNTD homodimer interface [polypeptide binding]; other site 374833005250 alphaNTD - beta interaction site [polypeptide binding]; other site 374833005251 alphaNTD - beta' interaction site [polypeptide binding]; other site 374833005252 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 374833005253 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 374833005254 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 374833005255 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 374833005256 RNA binding surface [nucleotide binding]; other site 374833005257 30S ribosomal protein S11; Validated; Region: PRK05309 374833005258 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 374833005259 30S ribosomal protein S13; Region: bact_S13; TIGR03631 374833005260 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 374833005261 rRNA binding site [nucleotide binding]; other site 374833005262 predicted 30S ribosome binding site; other site 374833005263 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 374833005264 SecY translocase; Region: SecY; pfam00344 374833005265 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 374833005266 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 374833005267 23S rRNA binding site [nucleotide binding]; other site 374833005268 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 374833005269 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 374833005270 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 374833005271 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 374833005272 5S rRNA interface [nucleotide binding]; other site 374833005273 23S rRNA interface [nucleotide binding]; other site 374833005274 L5 interface [polypeptide binding]; other site 374833005275 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 374833005276 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 374833005277 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 374833005278 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 374833005279 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 374833005280 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 374833005281 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 374833005282 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 374833005283 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 374833005284 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 374833005285 RNA binding site [nucleotide binding]; other site 374833005286 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 374833005287 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 374833005288 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 374833005289 23S rRNA interface [nucleotide binding]; other site 374833005290 putative translocon interaction site; other site 374833005291 signal recognition particle (SRP54) interaction site; other site 374833005292 L23 interface [polypeptide binding]; other site 374833005293 trigger factor interaction site; other site 374833005294 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 374833005295 23S rRNA interface [nucleotide binding]; other site 374833005296 5S rRNA interface [nucleotide binding]; other site 374833005297 putative antibiotic binding site [chemical binding]; other site 374833005298 L25 interface [polypeptide binding]; other site 374833005299 L27 interface [polypeptide binding]; other site 374833005300 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 374833005301 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 374833005302 G-X-X-G motif; other site 374833005303 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 374833005304 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 374833005305 putative translocon binding site; other site 374833005306 protein-rRNA interface [nucleotide binding]; other site 374833005307 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 374833005308 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 374833005309 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 374833005310 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 374833005311 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 374833005312 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 374833005313 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 374833005314 Transposase domain (DUF772); Region: DUF772; pfam05598 374833005315 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833005316 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 374833005317 elongation factor Tu; Reviewed; Region: PRK00049 374833005318 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 374833005319 G1 box; other site 374833005320 GEF interaction site [polypeptide binding]; other site 374833005321 GTP/Mg2+ binding site [chemical binding]; other site 374833005322 Switch I region; other site 374833005323 G2 box; other site 374833005324 G3 box; other site 374833005325 Switch II region; other site 374833005326 G4 box; other site 374833005327 G5 box; other site 374833005328 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 374833005329 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 374833005330 Antibiotic Binding Site [chemical binding]; other site 374833005331 elongation factor G; Reviewed; Region: PRK00007 374833005332 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 374833005333 G1 box; other site 374833005334 putative GEF interaction site [polypeptide binding]; other site 374833005335 GTP/Mg2+ binding site [chemical binding]; other site 374833005336 Switch I region; other site 374833005337 G2 box; other site 374833005338 G3 box; other site 374833005339 Switch II region; other site 374833005340 G4 box; other site 374833005341 G5 box; other site 374833005342 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 374833005343 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 374833005344 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 374833005345 30S ribosomal protein S7; Validated; Region: PRK05302 374833005346 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 374833005347 S17 interaction site [polypeptide binding]; other site 374833005348 S8 interaction site; other site 374833005349 16S rRNA interaction site [nucleotide binding]; other site 374833005350 streptomycin interaction site [chemical binding]; other site 374833005351 23S rRNA interaction site [nucleotide binding]; other site 374833005352 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 374833005353 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 374833005354 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 374833005355 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 374833005356 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 374833005357 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 374833005358 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 374833005359 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 374833005360 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 374833005361 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 374833005362 DNA binding site [nucleotide binding] 374833005363 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 374833005364 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 374833005365 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 374833005366 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 374833005367 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 374833005368 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 374833005369 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 374833005370 RPB3 interaction site [polypeptide binding]; other site 374833005371 RPB1 interaction site [polypeptide binding]; other site 374833005372 RPB11 interaction site [polypeptide binding]; other site 374833005373 RPB10 interaction site [polypeptide binding]; other site 374833005374 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 374833005375 core dimer interface [polypeptide binding]; other site 374833005376 peripheral dimer interface [polypeptide binding]; other site 374833005377 L10 interface [polypeptide binding]; other site 374833005378 L11 interface [polypeptide binding]; other site 374833005379 putative EF-Tu interaction site [polypeptide binding]; other site 374833005380 putative EF-G interaction site [polypeptide binding]; other site 374833005381 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 374833005382 23S rRNA interface [nucleotide binding]; other site 374833005383 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 374833005384 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 374833005385 mRNA/rRNA interface [nucleotide binding]; other site 374833005386 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 374833005387 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 374833005388 23S rRNA interface [nucleotide binding]; other site 374833005389 L7/L12 interface [polypeptide binding]; other site 374833005390 putative thiostrepton binding site; other site 374833005391 L25 interface [polypeptide binding]; other site 374833005392 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 374833005393 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 374833005394 putative homodimer interface [polypeptide binding]; other site 374833005395 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 374833005396 heterodimer interface [polypeptide binding]; other site 374833005397 homodimer interface [polypeptide binding]; other site 374833005398 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 374833005399 elongation factor Tu; Reviewed; Region: PRK00049 374833005400 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 374833005401 G1 box; other site 374833005402 GEF interaction site [polypeptide binding]; other site 374833005403 GTP/Mg2+ binding site [chemical binding]; other site 374833005404 Switch I region; other site 374833005405 G2 box; other site 374833005406 G3 box; other site 374833005407 Switch II region; other site 374833005408 G4 box; other site 374833005409 G5 box; other site 374833005410 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 374833005411 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 374833005412 Antibiotic Binding Site [chemical binding]; other site 374833005413 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 374833005414 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 374833005415 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 374833005416 S-adenosylmethionine binding site [chemical binding]; other site 374833005417 DNA topoisomerase I; Validated; Region: PRK06599 374833005418 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 374833005419 active site 374833005420 putative metal-binding site [ion binding]; other site 374833005421 interdomain interaction site; other site 374833005422 nucleotide binding site [chemical binding]; other site 374833005423 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 374833005424 domain I; other site 374833005425 DNA binding groove [nucleotide binding] 374833005426 phosphate binding site [ion binding]; other site 374833005427 domain II; other site 374833005428 domain III; other site 374833005429 nucleotide binding site [chemical binding]; other site 374833005430 catalytic site [active] 374833005431 domain IV; other site 374833005432 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 374833005433 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 374833005434 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 374833005435 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 374833005436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Smg; COG2922 374833005437 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 374833005438 DNA protecting protein DprA; Region: dprA; TIGR00732 374833005439 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 374833005440 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 374833005441 active site 374833005442 phosphorylation site [posttranslational modification] 374833005443 intermolecular recognition site; other site 374833005444 dimerization interface [polypeptide binding]; other site 374833005445 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 374833005446 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 374833005447 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 374833005448 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 374833005449 dimerization interface [polypeptide binding]; other site 374833005450 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 374833005451 dimer interface [polypeptide binding]; other site 374833005452 phosphorylation site [posttranslational modification] 374833005453 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 374833005454 ATP binding site [chemical binding]; other site 374833005455 Mg2+ binding site [ion binding]; other site 374833005456 G-X-G motif; other site 374833005457 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 374833005458 16S rRNA methyltransferase B; Provisional; Region: PRK10901 374833005459 NusB family; Region: NusB; pfam01029 374833005460 putative RNA binding site [nucleotide binding]; other site 374833005461 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 374833005462 S-adenosylmethionine binding site [chemical binding]; other site 374833005463 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 374833005464 putative ADP-ribose binding site [chemical binding]; other site 374833005465 putative active site [active] 374833005466 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 374833005467 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 374833005468 putative active site [active] 374833005469 substrate binding site [chemical binding]; other site 374833005470 putative cosubstrate binding site; other site 374833005471 catalytic site [active] 374833005472 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 374833005473 substrate binding site [chemical binding]; other site 374833005474 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 374833005475 active site 374833005476 catalytic residues [active] 374833005477 metal binding site [ion binding]; metal-binding site 374833005478 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 374833005479 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 374833005480 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 374833005481 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 374833005482 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 374833005483 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 374833005484 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 374833005485 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 374833005486 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 374833005487 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 374833005488 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 374833005489 Coenzyme A binding pocket [chemical binding]; other site 374833005490 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 374833005491 putative active site [active] 374833005492 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833005493 Predicted methyltransferases [General function prediction only]; Region: COG0313 374833005494 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 374833005495 putative SAM binding site [chemical binding]; other site 374833005496 putative homodimer interface [polypeptide binding]; other site 374833005497 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 374833005498 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 374833005499 dimer interface [polypeptide binding]; other site 374833005500 active site 374833005501 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 374833005502 BON domain; Region: BON; pfam04972 374833005503 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 374833005504 active site 374833005505 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 374833005506 non-specific DNA binding site [nucleotide binding]; other site 374833005507 salt bridge; other site 374833005508 sequence-specific DNA binding site [nucleotide binding]; other site 374833005509 malate:quinone oxidoreductase; Validated; Region: PRK05257 374833005510 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 374833005511 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 374833005512 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 374833005513 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 374833005514 rRNA interaction site [nucleotide binding]; other site 374833005515 S8 interaction site; other site 374833005516 putative laminin-1 binding site; other site 374833005517 elongation factor Ts; Provisional; Region: tsf; PRK09377 374833005518 UBA/TS-N domain; Region: UBA; pfam00627 374833005519 Elongation factor TS; Region: EF_TS; pfam00889 374833005520 Elongation factor TS; Region: EF_TS; pfam00889 374833005521 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 374833005522 putative nucleotide binding site [chemical binding]; other site 374833005523 uridine monophosphate binding site [chemical binding]; other site 374833005524 homohexameric interface [polypeptide binding]; other site 374833005525 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 374833005526 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 374833005527 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 374833005528 Pyocin large subunit [General function prediction only]; Region: COG5529 374833005529 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 374833005530 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 374833005531 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833005532 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 374833005533 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 374833005534 tandem repeat interface [polypeptide binding]; other site 374833005535 oligomer interface [polypeptide binding]; other site 374833005536 active site residues [active] 374833005537 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 374833005538 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 374833005539 putative MPT binding site; other site 374833005540 argininosuccinate synthase; Validated; Region: PRK05370 374833005541 argininosuccinate synthase; Provisional; Region: PRK13820 374833005542 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 374833005543 serine/threonine transporter SstT; Provisional; Region: PRK13628 374833005544 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 374833005545 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 374833005546 Surface antigen; Region: Bac_surface_Ag; pfam01103 374833005547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 374833005548 Family of unknown function (DUF490); Region: DUF490; pfam04357 374833005549 Family of unknown function (DUF490); Region: DUF490; pfam04357 374833005550 Family of unknown function (DUF490); Region: DUF490; pfam04357 374833005551 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 374833005552 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833005553 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 374833005554 POT family; Region: PTR2; cl17359 374833005555 peptide chain release factor 2; Validated; Region: prfB; PRK00578 374833005556 This domain is found in peptide chain release factors; Region: PCRF; smart00937 374833005557 RF-1 domain; Region: RF-1; pfam00472 374833005558 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 374833005559 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 374833005560 active site 374833005561 nucleophile elbow; other site 374833005562 Predicted membrane protein [Function unknown]; Region: COG2259 374833005563 Protein of unknown function (DUF692); Region: DUF692; pfam05114 374833005564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 374833005565 RNA polymerase sigma factor; Provisional; Region: PRK12532 374833005566 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 374833005567 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 374833005568 DNA binding residues [nucleotide binding] 374833005569 Putative zinc-finger; Region: zf-HC2; pfam13490 374833005570 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374833005571 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 374833005572 Transposase domain (DUF772); Region: DUF772; pfam05598 374833005573 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 374833005574 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 374833005575 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 374833005576 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 374833005577 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 374833005578 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 374833005579 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 374833005580 Uncharacterized conserved protein [Function unknown]; Region: COG1739 374833005581 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 374833005582 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 374833005583 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 374833005584 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 374833005585 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 374833005586 Electron transfer flavoprotein domain; Region: ETF; pfam01012 374833005587 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 374833005588 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 374833005589 putative active site [active] 374833005590 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 374833005591 metal binding site [ion binding]; metal-binding site 374833005592 catalytic triad [active] 374833005593 conserved cis-peptide bond; other site 374833005594 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 374833005595 homodimer interaction site [polypeptide binding]; other site 374833005596 cofactor binding site; other site 374833005597 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 374833005598 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 374833005599 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 374833005600 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 374833005601 MutS domain I; Region: MutS_I; pfam01624 374833005602 MutS domain II; Region: MutS_II; pfam05188 374833005603 MutS domain III; Region: MutS_III; pfam05192 374833005604 MutS domain V; Region: MutS_V; pfam00488 374833005605 Walker A/P-loop; other site 374833005606 ATP binding site [chemical binding]; other site 374833005607 Q-loop/lid; other site 374833005608 ABC transporter signature motif; other site 374833005609 Walker B; other site 374833005610 D-loop; other site 374833005611 H-loop/switch region; other site