-- dump date 20140619_163548 -- class Genbank::misc_feature -- table misc_feature_note -- id note 935588000001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935588000002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935588000003 Coenzyme A binding pocket [chemical binding]; other site 935588000004 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 935588000005 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 935588000006 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 935588000007 active site 935588000008 HIGH motif; other site 935588000009 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 935588000010 active site 935588000011 KMSKS motif; other site 935588000012 Uncharacterized conserved protein [Function unknown]; Region: COG1434 935588000013 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 935588000014 putative active site [active] 935588000015 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 935588000016 ArsC family; Region: ArsC; pfam03960 935588000017 catalytic residues [active] 935588000018 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 935588000019 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935588000020 catalytic residues [active] 935588000021 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 935588000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935588000023 Walker A/P-loop; other site 935588000024 ATP binding site [chemical binding]; other site 935588000025 Q-loop/lid; other site 935588000026 ABC transporter signature motif; other site 935588000027 Walker B; other site 935588000028 D-loop; other site 935588000029 H-loop/switch region; other site 935588000030 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 935588000031 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 935588000032 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 935588000033 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 935588000034 Phosphoglycerate kinase; Region: PGK; pfam00162 935588000035 substrate binding site [chemical binding]; other site 935588000036 hinge regions; other site 935588000037 ADP binding site [chemical binding]; other site 935588000038 catalytic site [active] 935588000039 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 935588000040 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 935588000041 hinge; other site 935588000042 active site 935588000043 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 935588000044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 935588000045 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 935588000046 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 935588000047 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 935588000048 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 935588000049 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 935588000050 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 935588000051 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 935588000052 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 935588000053 Pilin (bacterial filament); Region: Pilin; pfam00114 935588000054 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588000055 Pilin (bacterial filament); Region: Pilin; pfam00114 935588000056 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588000057 Pilin (bacterial filament); Region: Pilin; pfam00114 935588000058 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588000059 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588000060 Pilin (bacterial filament); Region: Pilin; pfam00114 935588000061 Pilin (bacterial filament); Region: Pilin; pfam00114 935588000062 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588000063 Pilin (bacterial filament); Region: Pilin; pfam00114 935588000064 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588000065 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588000066 Pilin (bacterial filament); Region: Pilin; pfam00114 935588000067 Pilin (bacterial filament); Region: Pilin; pfam00114 935588000068 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588000069 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588000070 Pilin (bacterial filament); Region: Pilin; pfam00114 935588000071 Transposase domain (DUF772); Region: DUF772; pfam05598 935588000072 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588000073 DDE superfamily endonuclease; Region: DDE_4; cl17710 935588000074 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 935588000075 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935588000076 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 935588000077 glycerate dehydrogenase; Provisional; Region: PRK06487 935588000078 putative ligand binding site [chemical binding]; other site 935588000079 putative NAD binding site [chemical binding]; other site 935588000080 catalytic site [active] 935588000081 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 935588000082 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 935588000083 active site 935588000084 HIGH motif; other site 935588000085 KMSKS motif; other site 935588000086 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 935588000087 tRNA binding surface [nucleotide binding]; other site 935588000088 anticodon binding site; other site 935588000089 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 935588000090 dimer interface [polypeptide binding]; other site 935588000091 putative tRNA-binding site [nucleotide binding]; other site 935588000092 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 935588000093 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 935588000094 glutaminase active site [active] 935588000095 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 935588000096 dimer interface [polypeptide binding]; other site 935588000097 active site 935588000098 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 935588000099 dimer interface [polypeptide binding]; other site 935588000100 active site 935588000101 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 935588000102 MltA specific insert domain; Region: MltA; pfam03562 935588000103 3D domain; Region: 3D; pfam06725 935588000104 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 935588000105 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 935588000106 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 935588000107 Imelysin; Region: Peptidase_M75; pfam09375 935588000108 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 935588000109 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 935588000110 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 935588000111 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 935588000112 PhnA protein; Region: PhnA; pfam03831 935588000113 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 935588000114 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 935588000115 Substrate binding site; other site 935588000116 Mg++ binding site; other site 935588000117 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 935588000118 active site 935588000119 substrate binding site [chemical binding]; other site 935588000120 CoA binding site [chemical binding]; other site 935588000121 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 935588000122 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 935588000123 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 935588000124 Conserved TM helix; Region: TM_helix; pfam05552 935588000125 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935588000126 Competence-damaged protein; Region: CinA; pfam02464 935588000127 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 935588000128 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 935588000129 catalytic residues [active] 935588000130 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 935588000131 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 935588000132 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 935588000133 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 935588000134 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 935588000135 P loop; other site 935588000136 GTP binding site [chemical binding]; other site 935588000137 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 935588000138 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 935588000139 TIGR01666 family membrane protein; Region: YCCS 935588000140 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 935588000141 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935588000142 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 935588000143 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 935588000144 Walker A motif; other site 935588000145 ATP binding site [chemical binding]; other site 935588000146 Walker B motif; other site 935588000147 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 935588000148 SPOC domain; Region: SPOC; pfam07744 935588000149 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 935588000150 Walker A motif; other site 935588000151 ATP binding site [chemical binding]; other site 935588000152 Walker B motif; other site 935588000153 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 935588000154 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935588000155 catalytic residue [active] 935588000156 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 935588000157 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 935588000158 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 935588000159 comEA protein; Region: comE; TIGR01259 935588000160 Helix-hairpin-helix motif; Region: HHH; pfam00633 935588000161 chaperone protein DnaJ; Provisional; Region: PRK10767 935588000162 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 935588000163 HSP70 interaction site [polypeptide binding]; other site 935588000164 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 935588000165 substrate binding site [polypeptide binding]; other site 935588000166 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 935588000167 Zn binding sites [ion binding]; other site 935588000168 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 935588000169 dimer interface [polypeptide binding]; other site 935588000170 Predicted membrane protein [Function unknown]; Region: COG1297 935588000171 putative oligopeptide transporter, OPT family; Region: TIGR00733 935588000172 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 935588000173 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 935588000174 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 935588000175 substrate binding site; other site 935588000176 tetramer interface; other site 935588000177 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 935588000178 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 935588000179 NAD binding site [chemical binding]; other site 935588000180 substrate binding site [chemical binding]; other site 935588000181 homodimer interface [polypeptide binding]; other site 935588000182 active site 935588000183 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 935588000184 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 935588000185 NeuB family; Region: NeuB; pfam03102 935588000186 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 935588000187 NeuB binding interface [polypeptide binding]; other site 935588000188 putative substrate binding site [chemical binding]; other site 935588000189 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 935588000190 ligand binding site; other site 935588000191 tetramer interface; other site 935588000192 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 935588000193 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 935588000194 active site 935588000195 homodimer interface [polypeptide binding]; other site 935588000196 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 935588000197 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 935588000198 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 935588000199 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 935588000200 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 935588000201 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 935588000202 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 935588000203 Walker A/P-loop; other site 935588000204 ATP binding site [chemical binding]; other site 935588000205 Q-loop/lid; other site 935588000206 ABC transporter signature motif; other site 935588000207 Walker B; other site 935588000208 D-loop; other site 935588000209 H-loop/switch region; other site 935588000210 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 935588000211 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 935588000212 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 935588000213 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 935588000214 RNA binding site [nucleotide binding]; other site 935588000215 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 935588000216 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 935588000217 cofactor binding site; other site 935588000218 DNA binding site [nucleotide binding] 935588000219 substrate interaction site [chemical binding]; other site 935588000220 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 935588000221 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 935588000222 NAD binding site [chemical binding]; other site 935588000223 substrate binding site [chemical binding]; other site 935588000224 homodimer interface [polypeptide binding]; other site 935588000225 active site 935588000226 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 935588000227 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 935588000228 substrate binding site; other site 935588000229 tetramer interface; other site 935588000230 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 935588000231 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 935588000232 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 935588000233 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 935588000234 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 935588000235 Sel1-like repeats; Region: SEL1; smart00671 935588000236 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 935588000237 Sel1-like repeats; Region: SEL1; smart00671 935588000238 Sel1-like repeats; Region: SEL1; smart00671 935588000239 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 935588000240 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 935588000241 cyanate hydratase; Validated; Region: PRK02866 935588000242 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 935588000243 pyruvate kinase; Provisional; Region: PRK05826 935588000244 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 935588000245 domain interfaces; other site 935588000246 active site 935588000247 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 935588000248 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 935588000249 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935588000250 HlyD family secretion protein; Region: HlyD_3; pfam13437 935588000251 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 935588000252 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 935588000253 putative active site [active] 935588000254 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935588000255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935588000256 Walker A/P-loop; other site 935588000257 ATP binding site [chemical binding]; other site 935588000258 Q-loop/lid; other site 935588000259 ABC transporter signature motif; other site 935588000260 Walker B; other site 935588000261 D-loop; other site 935588000262 H-loop/switch region; other site 935588000263 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 935588000264 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 935588000265 putative active site [active] 935588000266 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 935588000267 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 935588000268 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935588000269 Coenzyme A binding pocket [chemical binding]; other site 935588000270 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 935588000271 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 935588000272 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 935588000273 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 935588000274 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 935588000275 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 935588000276 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935588000277 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 935588000278 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 935588000279 active site 935588000280 catalytic residues [active] 935588000281 metal binding site [ion binding]; metal-binding site 935588000282 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 935588000283 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 935588000284 putative active site [active] 935588000285 substrate binding site [chemical binding]; other site 935588000286 putative cosubstrate binding site; other site 935588000287 catalytic site [active] 935588000288 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 935588000289 substrate binding site [chemical binding]; other site 935588000290 16S rRNA methyltransferase B; Provisional; Region: PRK10901 935588000291 NusB family; Region: NusB; pfam01029 935588000292 putative RNA binding site [nucleotide binding]; other site 935588000293 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 935588000294 S-adenosylmethionine binding site [chemical binding]; other site 935588000295 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 935588000296 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 935588000297 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 935588000298 dimerization interface [polypeptide binding]; other site 935588000299 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 935588000300 dimer interface [polypeptide binding]; other site 935588000301 phosphorylation site [posttranslational modification] 935588000302 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 935588000303 ATP binding site [chemical binding]; other site 935588000304 Mg2+ binding site [ion binding]; other site 935588000305 G-X-G motif; other site 935588000306 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 935588000307 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 935588000308 active site 935588000309 phosphorylation site [posttranslational modification] 935588000310 intermolecular recognition site; other site 935588000311 dimerization interface [polypeptide binding]; other site 935588000312 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 935588000313 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 935588000314 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 935588000315 DNA protecting protein DprA; Region: dprA; TIGR00732 935588000316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Smg; COG2922 935588000317 DNA topoisomerase I; Validated; Region: PRK06599 935588000318 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 935588000319 active site 935588000320 interdomain interaction site; other site 935588000321 putative metal-binding site [ion binding]; other site 935588000322 nucleotide binding site [chemical binding]; other site 935588000323 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 935588000324 domain I; other site 935588000325 DNA binding groove [nucleotide binding] 935588000326 phosphate binding site [ion binding]; other site 935588000327 domain II; other site 935588000328 domain III; other site 935588000329 nucleotide binding site [chemical binding]; other site 935588000330 catalytic site [active] 935588000331 domain IV; other site 935588000332 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935588000333 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 935588000334 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935588000335 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935588000336 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 935588000337 sequence-specific DNA binding site [nucleotide binding]; other site 935588000338 salt bridge; other site 935588000339 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588000340 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588000341 Homeodomain-like domain; Region: HTH_32; pfam13565 935588000342 Integrase core domain; Region: rve; pfam00665 935588000343 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 935588000344 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 935588000345 S-adenosylmethionine binding site [chemical binding]; other site 935588000346 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 935588000347 elongation factor Tu; Reviewed; Region: PRK00049 935588000348 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 935588000349 G1 box; other site 935588000350 GEF interaction site [polypeptide binding]; other site 935588000351 GTP/Mg2+ binding site [chemical binding]; other site 935588000352 Switch I region; other site 935588000353 G2 box; other site 935588000354 G3 box; other site 935588000355 Switch II region; other site 935588000356 G4 box; other site 935588000357 G5 box; other site 935588000358 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 935588000359 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 935588000360 Antibiotic Binding Site [chemical binding]; other site 935588000361 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 935588000362 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 935588000363 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 935588000364 putative homodimer interface [polypeptide binding]; other site 935588000365 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 935588000366 heterodimer interface [polypeptide binding]; other site 935588000367 homodimer interface [polypeptide binding]; other site 935588000368 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 935588000369 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 935588000370 23S rRNA interface [nucleotide binding]; other site 935588000371 L7/L12 interface [polypeptide binding]; other site 935588000372 putative thiostrepton binding site; other site 935588000373 L25 interface [polypeptide binding]; other site 935588000374 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 935588000375 mRNA/rRNA interface [nucleotide binding]; other site 935588000376 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 935588000377 23S rRNA interface [nucleotide binding]; other site 935588000378 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 935588000379 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 935588000380 core dimer interface [polypeptide binding]; other site 935588000381 peripheral dimer interface [polypeptide binding]; other site 935588000382 L10 interface [polypeptide binding]; other site 935588000383 L11 interface [polypeptide binding]; other site 935588000384 putative EF-Tu interaction site [polypeptide binding]; other site 935588000385 putative EF-G interaction site [polypeptide binding]; other site 935588000386 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 935588000387 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 935588000388 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 935588000389 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 935588000390 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 935588000391 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 935588000392 RPB3 interaction site [polypeptide binding]; other site 935588000393 RPB1 interaction site [polypeptide binding]; other site 935588000394 RPB11 interaction site [polypeptide binding]; other site 935588000395 RPB10 interaction site [polypeptide binding]; other site 935588000396 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 935588000397 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 935588000398 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 935588000399 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 935588000400 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 935588000401 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 935588000402 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 935588000403 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 935588000404 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 935588000405 DNA binding site [nucleotide binding] 935588000406 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 935588000407 Protein of unknown function (DUF560); Region: DUF560; pfam04575 935588000408 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 935588000409 S17 interaction site [polypeptide binding]; other site 935588000410 S8 interaction site; other site 935588000411 16S rRNA interaction site [nucleotide binding]; other site 935588000412 streptomycin interaction site [chemical binding]; other site 935588000413 23S rRNA interaction site [nucleotide binding]; other site 935588000414 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 935588000415 30S ribosomal protein S7; Validated; Region: PRK05302 935588000416 elongation factor G; Reviewed; Region: PRK00007 935588000417 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 935588000418 G1 box; other site 935588000419 putative GEF interaction site [polypeptide binding]; other site 935588000420 GTP/Mg2+ binding site [chemical binding]; other site 935588000421 Switch I region; other site 935588000422 G2 box; other site 935588000423 G3 box; other site 935588000424 Switch II region; other site 935588000425 G4 box; other site 935588000426 G5 box; other site 935588000427 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 935588000428 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 935588000429 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 935588000430 elongation factor Tu; Reviewed; Region: PRK00049 935588000431 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 935588000432 G1 box; other site 935588000433 GEF interaction site [polypeptide binding]; other site 935588000434 GTP/Mg2+ binding site [chemical binding]; other site 935588000435 Switch I region; other site 935588000436 G2 box; other site 935588000437 G3 box; other site 935588000438 Switch II region; other site 935588000439 G4 box; other site 935588000440 G5 box; other site 935588000441 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 935588000442 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 935588000443 Antibiotic Binding Site [chemical binding]; other site 935588000444 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 935588000445 Transposase domain (DUF772); Region: DUF772; pfam05598 935588000446 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588000447 DDE superfamily endonuclease; Region: DDE_4; cl17710 935588000448 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 935588000449 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 935588000450 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 935588000451 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 935588000452 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 935588000453 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 935588000454 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 935588000455 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 935588000456 putative translocon binding site; other site 935588000457 protein-rRNA interface [nucleotide binding]; other site 935588000458 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 935588000459 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 935588000460 G-X-X-G motif; other site 935588000461 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 935588000462 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 935588000463 23S rRNA interface [nucleotide binding]; other site 935588000464 5S rRNA interface [nucleotide binding]; other site 935588000465 putative antibiotic binding site [chemical binding]; other site 935588000466 L25 interface [polypeptide binding]; other site 935588000467 L27 interface [polypeptide binding]; other site 935588000468 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 935588000469 23S rRNA interface [nucleotide binding]; other site 935588000470 putative translocon interaction site; other site 935588000471 signal recognition particle (SRP54) interaction site; other site 935588000472 L23 interface [polypeptide binding]; other site 935588000473 trigger factor interaction site; other site 935588000474 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 935588000475 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 935588000476 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 935588000477 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 935588000478 RNA binding site [nucleotide binding]; other site 935588000479 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 935588000480 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 935588000481 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 935588000482 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 935588000483 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 935588000484 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 935588000485 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 935588000486 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 935588000487 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 935588000488 5S rRNA interface [nucleotide binding]; other site 935588000489 23S rRNA interface [nucleotide binding]; other site 935588000490 L5 interface [polypeptide binding]; other site 935588000491 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 935588000492 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 935588000493 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 935588000494 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 935588000495 23S rRNA binding site [nucleotide binding]; other site 935588000496 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 935588000497 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 935588000498 SecY translocase; Region: SecY; pfam00344 935588000499 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 935588000500 rRNA binding site [nucleotide binding]; other site 935588000501 predicted 30S ribosome binding site; other site 935588000502 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 935588000503 30S ribosomal protein S13; Region: bact_S13; TIGR03631 935588000504 30S ribosomal protein S11; Validated; Region: PRK05309 935588000505 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 935588000506 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 935588000507 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 935588000508 RNA binding surface [nucleotide binding]; other site 935588000509 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 935588000510 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 935588000511 alphaNTD homodimer interface [polypeptide binding]; other site 935588000512 alphaNTD - beta interaction site [polypeptide binding]; other site 935588000513 alphaNTD - beta' interaction site [polypeptide binding]; other site 935588000514 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 935588000515 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 935588000516 septum formation inhibitor; Reviewed; Region: minC; PRK04516 935588000517 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 935588000518 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 935588000519 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 935588000520 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 935588000521 Switch I; other site 935588000522 Switch II; other site 935588000523 cell division topological specificity factor MinE; Provisional; Region: PRK13989 935588000524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935588000525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935588000526 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 935588000527 dimerization interface [polypeptide binding]; other site 935588000528 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 935588000529 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 935588000530 HIGH motif; other site 935588000531 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 935588000532 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 935588000533 active site 935588000534 KMSKS motif; other site 935588000535 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 935588000536 tRNA binding surface [nucleotide binding]; other site 935588000537 anticodon binding site; other site 935588000538 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 935588000539 zinc transporter ZupT; Provisional; Region: PRK04201 935588000540 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 935588000541 hydroxyglutarate oxidase; Provisional; Region: PRK11728 935588000542 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 935588000543 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 935588000544 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 935588000545 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 935588000546 active site 935588000547 Abi-like protein; Region: Abi_2; pfam07751 935588000548 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 935588000549 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 935588000550 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 935588000551 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 935588000552 trimer interface [polypeptide binding]; other site 935588000553 active site 935588000554 UDP-GlcNAc binding site [chemical binding]; other site 935588000555 lipid binding site [chemical binding]; lipid-binding site 935588000556 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 935588000557 periplasmic chaperone; Provisional; Region: PRK10780 935588000558 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 935588000559 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935588000560 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935588000561 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935588000562 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935588000563 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935588000564 Surface antigen; Region: Bac_surface_Ag; pfam01103 935588000565 zinc metallopeptidase RseP; Provisional; Region: PRK10779 935588000566 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 935588000567 active site 935588000568 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 935588000569 protein binding site [polypeptide binding]; other site 935588000570 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 935588000571 protein binding site [polypeptide binding]; other site 935588000572 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 935588000573 putative substrate binding region [chemical binding]; other site 935588000574 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 935588000575 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 935588000576 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 935588000577 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 935588000578 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 935588000579 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 935588000580 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 935588000581 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 935588000582 catalytic residue [active] 935588000583 putative FPP diphosphate binding site; other site 935588000584 putative FPP binding hydrophobic cleft; other site 935588000585 dimer interface [polypeptide binding]; other site 935588000586 putative IPP diphosphate binding site; other site 935588000587 ribosome recycling factor; Reviewed; Region: frr; PRK00083 935588000588 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 935588000589 hinge region; other site 935588000590 Predicted membrane protein [Function unknown]; Region: COG1289 935588000591 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935588000592 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 935588000593 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 935588000594 S-adenosylmethionine binding site [chemical binding]; other site 935588000595 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 935588000596 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 935588000597 P-loop; other site 935588000598 Magnesium ion binding site [ion binding]; other site 935588000599 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 935588000600 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 935588000601 Magnesium ion binding site [ion binding]; other site 935588000602 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 935588000603 RNA/DNA hybrid binding site [nucleotide binding]; other site 935588000604 active site 935588000605 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 935588000606 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 935588000607 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 935588000608 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 935588000609 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 935588000610 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 935588000611 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 935588000612 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588000613 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588000614 Homeodomain-like domain; Region: HTH_32; pfam13565 935588000615 Integrase core domain; Region: rve; pfam00665 935588000616 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 935588000617 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 935588000618 homodimer interface [polypeptide binding]; other site 935588000619 oligonucleotide binding site [chemical binding]; other site 935588000620 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 935588000621 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 935588000622 RNA binding surface [nucleotide binding]; other site 935588000623 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935588000624 active site 935588000625 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 935588000626 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 935588000627 dihydrodipicolinate reductase; Provisional; Region: PRK00048 935588000628 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 935588000629 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 935588000630 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 935588000631 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 935588000632 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 935588000633 metal binding site 2 [ion binding]; metal-binding site 935588000634 putative DNA binding helix; other site 935588000635 metal binding site 1 [ion binding]; metal-binding site 935588000636 dimer interface [polypeptide binding]; other site 935588000637 structural Zn2+ binding site [ion binding]; other site 935588000638 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 935588000639 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 935588000640 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 935588000641 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 935588000642 ferredoxin; Provisional; Region: PRK08764 935588000643 Putative Fe-S cluster; Region: FeS; cl17515 935588000644 4Fe-4S binding domain; Region: Fer4; pfam00037 935588000645 4Fe-4S binding domain; Region: Fer4; pfam00037 935588000646 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 935588000647 putative cation:proton antiport protein; Provisional; Region: PRK10669 935588000648 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 935588000649 TrkA-N domain; Region: TrkA_N; pfam02254 935588000650 TrkA-C domain; Region: TrkA_C; pfam02080 935588000651 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 935588000652 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 935588000653 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 935588000654 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 935588000655 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 935588000656 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 935588000657 Mg2+ binding site [ion binding]; other site 935588000658 G-X-G motif; other site 935588000659 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 935588000660 anchoring element; other site 935588000661 dimer interface [polypeptide binding]; other site 935588000662 ATP binding site [chemical binding]; other site 935588000663 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 935588000664 active site 935588000665 putative metal-binding site [ion binding]; other site 935588000666 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 935588000667 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 935588000668 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935588000669 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 935588000670 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 935588000671 active site 935588000672 Zn binding site [ion binding]; other site 935588000673 Predicted membrane protein [Function unknown]; Region: COG1971 935588000674 Domain of unknown function DUF; Region: DUF204; pfam02659 935588000675 Domain of unknown function DUF; Region: DUF204; pfam02659 935588000676 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 935588000677 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 935588000678 tetramer interface [polypeptide binding]; other site 935588000679 heme binding pocket [chemical binding]; other site 935588000680 NADPH binding site [chemical binding]; other site 935588000681 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 935588000682 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 935588000683 putative substrate translocation pore; other site 935588000684 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 935588000685 Sodium Bile acid symporter family; Region: SBF; cl17470 935588000686 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 935588000687 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 935588000688 dimer interface [polypeptide binding]; other site 935588000689 active site 935588000690 acyl carrier protein; Provisional; Region: acpP; PRK00982 935588000691 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 935588000692 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 935588000693 quinone interaction residues [chemical binding]; other site 935588000694 active site 935588000695 catalytic residues [active] 935588000696 FMN binding site [chemical binding]; other site 935588000697 substrate binding site [chemical binding]; other site 935588000698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 935588000699 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 935588000700 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935588000701 metal binding triad; other site 935588000702 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 935588000703 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935588000704 metal binding triad; other site 935588000705 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588000706 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588000707 Homeodomain-like domain; Region: HTH_32; pfam13565 935588000708 Integrase core domain; Region: rve; pfam00665 935588000709 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 935588000710 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 935588000711 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 935588000712 putative active site [active] 935588000713 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 935588000714 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 935588000715 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 935588000716 DNA helicase II; Region: uvrD; TIGR01075 935588000717 Part of AAA domain; Region: AAA_19; pfam13245 935588000718 Family description; Region: UvrD_C_2; pfam13538 935588000719 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 935588000720 spermidine synthase; Provisional; Region: PRK03612 935588000721 spermidine synthase; Provisional; Region: PRK03612 935588000722 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 935588000723 S-adenosylmethionine binding site [chemical binding]; other site 935588000724 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 935588000725 NADH dehydrogenase subunit B; Validated; Region: PRK06411 935588000726 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 935588000727 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 935588000728 NADH dehydrogenase subunit D; Validated; Region: PRK06075 935588000729 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 935588000730 NADH dehydrogenase subunit E; Validated; Region: PRK07539 935588000731 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 935588000732 putative dimer interface [polypeptide binding]; other site 935588000733 [2Fe-2S] cluster binding site [ion binding]; other site 935588000734 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 935588000735 SLBB domain; Region: SLBB; pfam10531 935588000736 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 935588000737 NADH dehydrogenase subunit G; Validated; Region: PRK09129 935588000738 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 935588000739 catalytic loop [active] 935588000740 iron binding site [ion binding]; other site 935588000741 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 935588000742 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 935588000743 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 935588000744 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 935588000745 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 935588000746 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 935588000747 4Fe-4S binding domain; Region: Fer4; cl02805 935588000748 4Fe-4S binding domain; Region: Fer4; pfam00037 935588000749 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 935588000750 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 935588000751 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 935588000752 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 935588000753 Fic/DOC family; Region: Fic; pfam02661 935588000754 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 935588000755 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 935588000756 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935588000757 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 935588000758 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935588000759 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 935588000760 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935588000761 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 935588000762 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 935588000763 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 935588000764 substrate binding pocket [chemical binding]; other site 935588000765 chain length determination region; other site 935588000766 substrate-Mg2+ binding site; other site 935588000767 catalytic residues [active] 935588000768 aspartate-rich region 1; other site 935588000769 active site lid residues [active] 935588000770 aspartate-rich region 2; other site 935588000771 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 935588000772 GTPase RsgA; Reviewed; Region: PRK00098 935588000773 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 935588000774 RNA binding site [nucleotide binding]; other site 935588000775 homodimer interface [polypeptide binding]; other site 935588000776 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 935588000777 GTPase/Zn-binding domain interface [polypeptide binding]; other site 935588000778 GTP/Mg2+ binding site [chemical binding]; other site 935588000779 G4 box; other site 935588000780 G5 box; other site 935588000781 G1 box; other site 935588000782 Switch I region; other site 935588000783 G2 box; other site 935588000784 G3 box; other site 935588000785 Switch II region; other site 935588000786 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 935588000787 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935588000788 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 935588000789 Walker A/P-loop; other site 935588000790 ATP binding site [chemical binding]; other site 935588000791 Q-loop/lid; other site 935588000792 ABC transporter signature motif; other site 935588000793 Walker B; other site 935588000794 D-loop; other site 935588000795 H-loop/switch region; other site 935588000796 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 935588000797 RuvA N terminal domain; Region: RuvA_N; pfam01330 935588000798 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 935588000799 Predicted membrane protein [Function unknown]; Region: COG3212 935588000800 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 935588000801 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 935588000802 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 935588000803 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 935588000804 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 935588000805 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935588000806 active site 935588000807 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 935588000808 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 935588000809 TAP-like protein; Region: Abhydrolase_4; pfam08386 935588000810 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 935588000811 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 935588000812 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 935588000813 ATP binding site [chemical binding]; other site 935588000814 putative Mg++ binding site [ion binding]; other site 935588000815 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 935588000816 nucleotide binding region [chemical binding]; other site 935588000817 ATP-binding site [chemical binding]; other site 935588000818 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 935588000819 HRDC domain; Region: HRDC; pfam00570 935588000820 Helicase and RNase D C-terminal; Region: HRDC; smart00341 935588000821 Helicase and RNase D C-terminal; Region: HRDC; smart00341 935588000822 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 935588000823 active site 935588000824 ribulose/triose binding site [chemical binding]; other site 935588000825 phosphate binding site [ion binding]; other site 935588000826 substrate (anthranilate) binding pocket [chemical binding]; other site 935588000827 product (indole) binding pocket [chemical binding]; other site 935588000828 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 935588000829 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 935588000830 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 935588000831 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 935588000832 catalytic residues [active] 935588000833 hinge region; other site 935588000834 alpha helical domain; other site 935588000835 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 935588000836 Phosphotransferase enzyme family; Region: APH; pfam01636 935588000837 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 935588000838 Organic solvent tolerance protein; Region: OstA_C; pfam04453 935588000839 SurA N-terminal domain; Region: SurA_N; pfam09312 935588000840 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 935588000841 Exoribonuclease R [Transcription]; Region: VacB; COG0557 935588000842 RNB domain; Region: RNB; pfam00773 935588000843 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 935588000844 adenylosuccinate lyase; Provisional; Region: PRK09285 935588000845 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 935588000846 tetramer interface [polypeptide binding]; other site 935588000847 active site 935588000848 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 935588000849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 935588000850 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 935588000851 putative metal binding site [ion binding]; other site 935588000852 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 935588000853 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 935588000854 DEAD_2; Region: DEAD_2; pfam06733 935588000855 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 935588000856 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935588000857 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 935588000858 cofactor binding site; other site 935588000859 DNA binding site [nucleotide binding] 935588000860 substrate interaction site [chemical binding]; other site 935588000861 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 935588000862 Methyltransferase domain; Region: Methyltransf_26; pfam13659 935588000863 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935588000864 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588000865 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 935588000866 DNA photolyase; Region: DNA_photolyase; pfam00875 935588000867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935588000868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935588000869 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 935588000870 putative effector binding pocket; other site 935588000871 dimerization interface [polypeptide binding]; other site 935588000872 Predicted membrane protein [Function unknown]; Region: COG2259 935588000873 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 935588000874 dimer interface [polypeptide binding]; other site 935588000875 FMN binding site [chemical binding]; other site 935588000876 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 935588000877 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 935588000878 catalytic residues [active] 935588000879 hinge region; other site 935588000880 alpha helical domain; other site 935588000881 signal recognition particle protein; Provisional; Region: PRK10867 935588000882 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 935588000883 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 935588000884 P loop; other site 935588000885 GTP binding site [chemical binding]; other site 935588000886 Signal peptide binding domain; Region: SRP_SPB; pfam02978 935588000887 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 935588000888 comEA protein; Region: comE; TIGR01259 935588000889 Helix-hairpin-helix motif; Region: HHH; pfam00633 935588000890 Transposase domain (DUF772); Region: DUF772; pfam05598 935588000891 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588000892 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588000893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588000894 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 935588000895 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 935588000896 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 935588000897 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 935588000898 folate binding site [chemical binding]; other site 935588000899 NADP+ binding site [chemical binding]; other site 935588000900 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 935588000901 putative active site [active] 935588000902 putative metal binding residues [ion binding]; other site 935588000903 signature motif; other site 935588000904 putative dimer interface [polypeptide binding]; other site 935588000905 putative phosphate binding site [ion binding]; other site 935588000906 Predicted membrane protein [Function unknown]; Region: COG1981 935588000907 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 935588000908 Autotransporter beta-domain; Region: Autotransporter; pfam03797 935588000909 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 935588000910 binding surface 935588000911 Tetratricopeptide repeat; Region: TPR_16; pfam13432 935588000912 TPR motif; other site 935588000913 Protein of unknown function (DUF560); Region: DUF560; pfam04575 935588000914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 935588000915 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 935588000916 Peptidase family M23; Region: Peptidase_M23; pfam01551 935588000917 hypothetical protein; Provisional; Region: PRK11212 935588000918 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 935588000919 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 935588000920 HlyD family secretion protein; Region: HlyD_3; pfam13437 935588000921 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 935588000922 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 935588000923 putative substrate translocation pore; other site 935588000924 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 935588000925 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 935588000926 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 935588000927 hypothetical protein; Provisional; Region: PRK09126 935588000928 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 935588000929 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 935588000930 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 935588000931 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 935588000932 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 935588000933 substrate binding pocket [chemical binding]; other site 935588000934 chain length determination region; other site 935588000935 substrate-Mg2+ binding site; other site 935588000936 catalytic residues [active] 935588000937 aspartate-rich region 1; other site 935588000938 active site lid residues [active] 935588000939 aspartate-rich region 2; other site 935588000940 Predicted membrane protein [Function unknown]; Region: COG2707 935588000941 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 935588000942 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 935588000943 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 935588000944 Walker A motif; other site 935588000945 ATP binding site [chemical binding]; other site 935588000946 Walker B motif; other site 935588000947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 935588000948 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 935588000949 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 935588000950 CoA-binding site [chemical binding]; other site 935588000951 ATP-binding [chemical binding]; other site 935588000952 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 935588000953 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 935588000954 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 935588000955 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 935588000956 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 935588000957 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 935588000958 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 935588000959 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 935588000960 active site 935588000961 dimer interface [polypeptide binding]; other site 935588000962 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 935588000963 dimer interface [polypeptide binding]; other site 935588000964 active site 935588000965 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 935588000966 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 935588000967 trimer interface [polypeptide binding]; other site 935588000968 active site 935588000969 substrate binding site [chemical binding]; other site 935588000970 CoA binding site [chemical binding]; other site 935588000971 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 935588000972 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 935588000973 NAD binding site [chemical binding]; other site 935588000974 homotetramer interface [polypeptide binding]; other site 935588000975 homodimer interface [polypeptide binding]; other site 935588000976 substrate binding site [chemical binding]; other site 935588000977 active site 935588000978 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 935588000979 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 935588000980 homodimer interface [polypeptide binding]; other site 935588000981 substrate-cofactor binding pocket; other site 935588000982 catalytic residue [active] 935588000983 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 935588000984 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 935588000985 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 935588000986 TPR motif; other site 935588000987 binding surface 935588000988 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935588000989 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 935588000990 dimer interface [polypeptide binding]; other site 935588000991 active site 935588000992 metal binding site [ion binding]; metal-binding site 935588000993 glutathione binding site [chemical binding]; other site 935588000994 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 935588000995 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935588000996 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 935588000997 intracellular septation protein A; Reviewed; Region: PRK00259 935588000998 YciI-like protein; Reviewed; Region: PRK11370 935588000999 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 935588001000 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 935588001001 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 935588001002 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 935588001003 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 935588001004 putative active site [active] 935588001005 dimerization interface [polypeptide binding]; other site 935588001006 putative tRNAtyr binding site [nucleotide binding]; other site 935588001007 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 935588001008 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 935588001009 FMN binding site [chemical binding]; other site 935588001010 active site 935588001011 catalytic residues [active] 935588001012 substrate binding site [chemical binding]; other site 935588001013 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 935588001014 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 935588001015 active site 935588001016 HIGH motif; other site 935588001017 nucleotide binding site [chemical binding]; other site 935588001018 active site 935588001019 KMSKS motif; other site 935588001020 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 935588001021 putative active site [active] 935588001022 transaldolase; Provisional; Region: PRK03903 935588001023 catalytic residue [active] 935588001024 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 935588001025 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 935588001026 putative active site [active] 935588001027 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 935588001028 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 935588001029 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 935588001030 active site 935588001031 motif I; other site 935588001032 motif II; other site 935588001033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 935588001034 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 935588001035 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 935588001036 OstA-like protein; Region: OstA; pfam03968 935588001037 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 935588001038 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 935588001039 Walker A/P-loop; other site 935588001040 ATP binding site [chemical binding]; other site 935588001041 Q-loop/lid; other site 935588001042 ABC transporter signature motif; other site 935588001043 Walker B; other site 935588001044 D-loop; other site 935588001045 H-loop/switch region; other site 935588001046 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 935588001047 Transglycosylase; Region: Transgly; cl17702 935588001048 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 935588001049 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 935588001050 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 935588001051 shikimate binding site; other site 935588001052 NAD(P) binding site [chemical binding]; other site 935588001053 glutamine synthetase; Provisional; Region: glnA; PRK09469 935588001054 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 935588001055 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 935588001056 muropeptide transporter; Reviewed; Region: ampG; PRK11902 935588001057 AmpG-like permease; Region: 2A0125; TIGR00901 935588001058 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 935588001059 GIY-YIG motif/motif A; other site 935588001060 putative active site [active] 935588001061 putative metal binding site [ion binding]; other site 935588001062 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 935588001063 Pretoxin HINT domain; Region: PT-HINT; pfam07591 935588001064 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 935588001065 thioester formation/cholesterol transfer; other site 935588001066 protein-splicing catalytic site; other site 935588001067 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 935588001068 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 935588001069 Pretoxin HINT domain; Region: PT-HINT; pfam07591 935588001070 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 935588001071 thioester formation/cholesterol transfer; other site 935588001072 protein-splicing catalytic site; other site 935588001073 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935588001074 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 935588001075 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 935588001076 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 935588001077 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 935588001078 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 935588001079 FeS/SAM binding site; other site 935588001080 HemN C-terminal domain; Region: HemN_C; pfam06969 935588001081 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 935588001082 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 935588001083 ligand binding site [chemical binding]; other site 935588001084 flexible hinge region; other site 935588001085 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 935588001086 putative switch regulator; other site 935588001087 non-specific DNA interactions [nucleotide binding]; other site 935588001088 DNA binding site [nucleotide binding] 935588001089 sequence specific DNA binding site [nucleotide binding]; other site 935588001090 putative cAMP binding site [chemical binding]; other site 935588001091 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 935588001092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935588001093 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 935588001094 substrate binding site [chemical binding]; other site 935588001095 dimerization interface [polypeptide binding]; other site 935588001096 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 935588001097 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 935588001098 ligand binding site [chemical binding]; other site 935588001099 thiamine-monophosphate kinase; Region: thiL; TIGR01379 935588001100 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 935588001101 ATP binding site [chemical binding]; other site 935588001102 dimerization interface [polypeptide binding]; other site 935588001103 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 935588001104 tetramer interfaces [polypeptide binding]; other site 935588001105 binuclear metal-binding site [ion binding]; other site 935588001106 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 935588001107 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935588001108 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935588001109 ABC transporter; Region: ABC_tran_2; pfam12848 935588001110 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935588001111 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 935588001112 putative substrate translocation pore; other site 935588001113 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935588001114 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 935588001115 active site 935588001116 catalytic residues [active] 935588001117 maltose phosphorylase; Provisional; Region: PRK13807 935588001118 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 935588001119 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 935588001120 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 935588001121 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 935588001122 motif II; other site 935588001123 Transposase domain (DUF772); Region: DUF772; pfam05598 935588001124 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588001125 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588001126 L-aspartate oxidase; Provisional; Region: PRK06175 935588001127 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 935588001128 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 935588001129 quinolinate synthetase; Provisional; Region: PRK09375 935588001130 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 935588001131 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 935588001132 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 935588001133 dimerization interface [polypeptide binding]; other site 935588001134 active site 935588001135 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 935588001136 dimerization interface [polypeptide binding]; other site 935588001137 putative DNA binding site [nucleotide binding]; other site 935588001138 putative Zn2+ binding site [ion binding]; other site 935588001139 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 935588001140 putative catalytic site [active] 935588001141 putative phosphate binding site [ion binding]; other site 935588001142 active site 935588001143 metal binding site A [ion binding]; metal-binding site 935588001144 DNA binding site [nucleotide binding] 935588001145 putative AP binding site [nucleotide binding]; other site 935588001146 putative metal binding site B [ion binding]; other site 935588001147 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 935588001148 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935588001149 AAA domain; Region: AAA_21; pfam13304 935588001150 Q-loop/lid; other site 935588001151 ABC transporter signature motif; other site 935588001152 Walker B; other site 935588001153 D-loop; other site 935588001154 H-loop/switch region; other site 935588001155 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 935588001156 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 935588001157 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 935588001158 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 935588001159 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 935588001160 Glutamate binding site [chemical binding]; other site 935588001161 NAD binding site [chemical binding]; other site 935588001162 catalytic residues [active] 935588001163 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 935588001164 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 935588001165 Na binding site [ion binding]; other site 935588001166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 935588001167 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 935588001168 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 935588001169 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 935588001170 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 935588001171 cell division protein FtsN; Region: ftsN; TIGR02223 935588001172 Sporulation related domain; Region: SPOR; pfam05036 935588001173 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 935588001174 catalytic residues [active] 935588001175 hinge region; other site 935588001176 alpha helical domain; other site 935588001177 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 935588001178 Uncharacterized conserved protein [Function unknown]; Region: COG1565 935588001179 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 935588001180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 935588001181 MraZ protein; Region: MraZ; pfam02381 935588001182 MraZ protein; Region: MraZ; pfam02381 935588001183 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 935588001184 MraW methylase family; Region: Methyltransf_5; cl17771 935588001185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 935588001186 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 935588001187 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 935588001188 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935588001189 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 935588001190 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935588001191 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935588001192 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935588001193 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 935588001194 Sulfatase; Region: Sulfatase; pfam00884 935588001195 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935588001196 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 935588001197 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935588001198 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935588001199 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 935588001200 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 935588001201 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 935588001202 Mg++ binding site [ion binding]; other site 935588001203 putative catalytic motif [active] 935588001204 putative substrate binding site [chemical binding]; other site 935588001205 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 935588001206 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935588001207 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935588001208 cell division protein FtsW; Region: ftsW; TIGR02614 935588001209 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 935588001210 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 935588001211 active site 935588001212 homodimer interface [polypeptide binding]; other site 935588001213 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 935588001214 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935588001215 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935588001216 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935588001217 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 935588001218 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 935588001219 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935588001220 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 935588001221 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 935588001222 Cell division protein FtsQ; Region: FtsQ; pfam03799 935588001223 cell division protein FtsA; Region: ftsA; TIGR01174 935588001224 Cell division protein FtsA; Region: FtsA; smart00842 935588001225 Cell division protein FtsA; Region: FtsA; pfam14450 935588001226 cell division protein FtsZ; Validated; Region: PRK09330 935588001227 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 935588001228 nucleotide binding site [chemical binding]; other site 935588001229 SulA interaction site; other site 935588001230 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 935588001231 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 935588001232 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 935588001233 tetramer interface [polypeptide binding]; other site 935588001234 active site 935588001235 Mg2+/Mn2+ binding site [ion binding]; other site 935588001236 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 935588001237 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 935588001238 dimer interface [polypeptide binding]; other site 935588001239 active site 935588001240 citrylCoA binding site [chemical binding]; other site 935588001241 oxalacetate/citrate binding site [chemical binding]; other site 935588001242 coenzyme A binding site [chemical binding]; other site 935588001243 catalytic triad [active] 935588001244 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 935588001245 Fatty acid desaturase; Region: FA_desaturase; pfam00487 935588001246 putative di-iron ligands [ion binding]; other site 935588001247 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 935588001248 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935588001249 EamA-like transporter family; Region: EamA; pfam00892 935588001250 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 935588001251 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 935588001252 substrate binding site [chemical binding]; other site 935588001253 ligand binding site [chemical binding]; other site 935588001254 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 935588001255 substrate binding site [chemical binding]; other site 935588001256 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 935588001257 propionate/acetate kinase; Provisional; Region: PRK12379 935588001258 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 935588001259 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 935588001260 Transcriptional regulator; Region: Rrf2; cl17282 935588001261 Rrf2 family protein; Region: rrf2_super; TIGR00738 935588001262 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 935588001263 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 935588001264 prephenate dehydrogenase; Validated; Region: PRK08507 935588001265 Predicted amidohydrolase [General function prediction only]; Region: COG0388 935588001266 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 935588001267 putative active site [active] 935588001268 catalytic triad [active] 935588001269 dimer interface [polypeptide binding]; other site 935588001270 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 935588001271 EamA-like transporter family; Region: EamA; pfam00892 935588001272 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 935588001273 EamA-like transporter family; Region: EamA; pfam00892 935588001274 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 935588001275 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 935588001276 putative substrate translocation pore; other site 935588001277 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 935588001278 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 935588001279 Prephenate dehydratase; Region: PDT; pfam00800 935588001280 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 935588001281 putative L-Phe binding site [chemical binding]; other site 935588001282 Recombination protein O N terminal; Region: RecO_N; pfam11967 935588001283 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 935588001284 Recombination protein O C terminal; Region: RecO_C; pfam02565 935588001285 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 935588001286 active site 935588001287 hydrophilic channel; other site 935588001288 dimerization interface [polypeptide binding]; other site 935588001289 catalytic residues [active] 935588001290 active site lid [active] 935588001291 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 935588001292 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 935588001293 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 935588001294 active site 935588001295 8-oxo-dGMP binding site [chemical binding]; other site 935588001296 nudix motif; other site 935588001297 metal binding site [ion binding]; metal-binding site 935588001298 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 935588001299 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 935588001300 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 935588001301 Fic family protein [Function unknown]; Region: COG3177 935588001302 Fic/DOC family; Region: Fic; pfam02661 935588001303 AMIN domain; Region: AMIN; pfam11741 935588001304 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 935588001305 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 935588001306 active site 935588001307 metal binding site [ion binding]; metal-binding site 935588001308 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 935588001309 glutamate racemase; Provisional; Region: PRK00865 935588001310 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 935588001311 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 935588001312 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 935588001313 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 935588001314 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 935588001315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 935588001316 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 935588001317 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 935588001318 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 935588001319 dimerization interface [polypeptide binding]; other site 935588001320 substrate binding site [chemical binding]; other site 935588001321 active site 935588001322 calcium binding site [ion binding]; other site 935588001323 Uncharacterized conserved protein [Function unknown]; Region: COG2928 935588001324 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 935588001325 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 935588001326 dimer interface [polypeptide binding]; other site 935588001327 anticodon binding site; other site 935588001328 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 935588001329 homodimer interface [polypeptide binding]; other site 935588001330 motif 1; other site 935588001331 active site 935588001332 motif 2; other site 935588001333 GAD domain; Region: GAD; pfam02938 935588001334 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 935588001335 motif 3; other site 935588001336 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 935588001337 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 935588001338 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 935588001339 dimer interface [polypeptide binding]; other site 935588001340 active site 935588001341 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935588001342 catalytic residues [active] 935588001343 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 935588001344 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 935588001345 agmatinase; Region: agmatinase; TIGR01230 935588001346 oligomer interface [polypeptide binding]; other site 935588001347 putative active site [active] 935588001348 Mn binding site [ion binding]; other site 935588001349 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 935588001350 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 935588001351 transmembrane helices; other site 935588001352 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935588001353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 935588001354 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 935588001355 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 935588001356 substrate-cofactor binding pocket; other site 935588001357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588001358 catalytic residue [active] 935588001359 Protein of unknown function (DUF452); Region: DUF452; cl01062 935588001360 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 935588001361 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 935588001362 S-adenosylmethionine binding site [chemical binding]; other site 935588001363 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 935588001364 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 935588001365 active site 935588001366 phosphorylation site [posttranslational modification] 935588001367 intermolecular recognition site; other site 935588001368 dimerization interface [polypeptide binding]; other site 935588001369 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 935588001370 G1 box; other site 935588001371 GTP/Mg2+ binding site [chemical binding]; other site 935588001372 G2 box; other site 935588001373 Switch I region; other site 935588001374 G3 box; other site 935588001375 Switch II region; other site 935588001376 G4 box; other site 935588001377 G5 box; other site 935588001378 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 935588001379 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 935588001380 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 935588001381 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 935588001382 Replication initiation factor; Region: Rep_trans; pfam02486 935588001383 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588001384 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588001385 Homeodomain-like domain; Region: HTH_32; pfam13565 935588001386 Integrase core domain; Region: rve; pfam00665 935588001387 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588001388 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588001389 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588001390 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588001391 haemagglutination activity domain; Region: Haemagg_act; pfam05860 935588001392 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 935588001393 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 935588001394 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 935588001395 RNAase interaction site [polypeptide binding]; other site 935588001396 haemagglutination activity domain; Region: Haemagg_act; pfam05860 935588001397 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588001398 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588001399 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588001400 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588001401 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588001402 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 935588001403 Transposase IS200 like; Region: Y1_Tnp; pfam01797 935588001404 potential frameshift: common BLAST hit: gi|146329804|ref|YP_001210207.1| IS605 family transposase 935588001405 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 935588001406 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 935588001407 Probable transposase; Region: OrfB_IS605; pfam01385 935588001408 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 935588001409 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 935588001410 Initiator Replication protein; Region: Rep_3; pfam01051 935588001411 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 935588001412 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 935588001413 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 935588001414 haemagglutination activity domain; Region: Haemagg_act; pfam05860 935588001415 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588001416 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935588001417 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588001418 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935588001419 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588001420 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 935588001421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 935588001422 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935588001423 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588001424 Integrase core domain; Region: rve; pfam00665 935588001425 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 935588001426 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 935588001427 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 935588001428 Ligand Binding Site [chemical binding]; other site 935588001429 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 935588001430 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 935588001431 active site 935588001432 Predicted membrane protein [Function unknown]; Region: COG3759 935588001433 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 935588001434 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 935588001435 FeS/SAM binding site; other site 935588001436 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 935588001437 beta-hexosaminidase; Provisional; Region: PRK05337 935588001438 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 935588001439 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 935588001440 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 935588001441 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 935588001442 protein binding site [polypeptide binding]; other site 935588001443 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 935588001444 protein binding site [polypeptide binding]; other site 935588001445 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 935588001446 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 935588001447 minor groove reading motif; other site 935588001448 helix-hairpin-helix signature motif; other site 935588001449 substrate binding pocket [chemical binding]; other site 935588001450 active site 935588001451 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 935588001452 Predicted membrane protein [Function unknown]; Region: COG1238 935588001453 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 935588001454 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 935588001455 putative substrate translocation pore; other site 935588001456 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 935588001457 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 935588001458 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 935588001459 Transporter associated domain; Region: CorC_HlyC; smart01091 935588001460 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 935588001461 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 935588001462 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 935588001463 domain interfaces; other site 935588001464 active site 935588001465 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 935588001466 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 935588001467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588001468 homodimer interface [polypeptide binding]; other site 935588001469 catalytic residue [active] 935588001470 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 935588001471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 935588001472 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 935588001473 L-lactate permease; Region: Lactate_perm; cl00701 935588001474 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 935588001475 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 935588001476 putative active site [active] 935588001477 putative metal binding site [ion binding]; other site 935588001478 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 935588001479 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 935588001480 Walker A/P-loop; other site 935588001481 ATP binding site [chemical binding]; other site 935588001482 Q-loop/lid; other site 935588001483 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 935588001484 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 935588001485 ABC transporter signature motif; other site 935588001486 Walker B; other site 935588001487 D-loop; other site 935588001488 H-loop/switch region; other site 935588001489 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 935588001490 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 935588001491 NAD binding site [chemical binding]; other site 935588001492 substrate binding site [chemical binding]; other site 935588001493 catalytic Zn binding site [ion binding]; other site 935588001494 tetramer interface [polypeptide binding]; other site 935588001495 structural Zn binding site [ion binding]; other site 935588001496 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 935588001497 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 935588001498 macrolide transporter subunit MacA; Provisional; Region: PRK11578 935588001499 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935588001500 HlyD family secretion protein; Region: HlyD_3; pfam13437 935588001501 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 935588001502 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935588001503 Walker A/P-loop; other site 935588001504 ATP binding site [chemical binding]; other site 935588001505 Q-loop/lid; other site 935588001506 ABC transporter signature motif; other site 935588001507 Walker B; other site 935588001508 D-loop; other site 935588001509 H-loop/switch region; other site 935588001510 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935588001511 FtsX-like permease family; Region: FtsX; pfam02687 935588001512 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 935588001513 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 935588001514 dimerization domain [polypeptide binding]; other site 935588001515 dimer interface [polypeptide binding]; other site 935588001516 catalytic residues [active] 935588001517 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 935588001518 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 935588001519 ATP binding site [chemical binding]; other site 935588001520 putative Mg++ binding site [ion binding]; other site 935588001521 helicase superfamily c-terminal domain; Region: HELICc; smart00490 935588001522 ATP-binding site [chemical binding]; other site 935588001523 NnrS protein; Region: NnrS; cl01258 935588001524 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 935588001525 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 935588001526 nucleotide binding site [chemical binding]; other site 935588001527 NEF interaction site [polypeptide binding]; other site 935588001528 SBD interface [polypeptide binding]; other site 935588001529 Predicted transcriptional regulator [Transcription]; Region: COG2932 935588001530 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 935588001531 Catalytic site [active] 935588001532 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 935588001533 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 935588001534 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 935588001535 serine acetyltransferase; Provisional; Region: cysE; PRK11132 935588001536 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 935588001537 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 935588001538 trimer interface [polypeptide binding]; other site 935588001539 active site 935588001540 substrate binding site [chemical binding]; other site 935588001541 CoA binding site [chemical binding]; other site 935588001542 GrpE; Region: GrpE; pfam01025 935588001543 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 935588001544 dimer interface [polypeptide binding]; other site 935588001545 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 935588001546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 935588001547 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 935588001548 ApbE family; Region: ApbE; pfam02424 935588001549 Transposase domain (DUF772); Region: DUF772; pfam05598 935588001550 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588001551 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588001552 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588001553 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588001554 Homeodomain-like domain; Region: HTH_32; pfam13565 935588001555 Integrase core domain; Region: rve; pfam00665 935588001556 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 935588001557 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 935588001558 catalytic loop [active] 935588001559 iron binding site [ion binding]; other site 935588001560 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 935588001561 FAD binding pocket [chemical binding]; other site 935588001562 FAD binding motif [chemical binding]; other site 935588001563 phosphate binding motif [ion binding]; other site 935588001564 beta-alpha-beta structure motif; other site 935588001565 NAD binding pocket [chemical binding]; other site 935588001566 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 935588001567 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 935588001568 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 935588001569 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 935588001570 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 935588001571 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 935588001572 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 935588001573 E3 interaction surface; other site 935588001574 lipoyl attachment site [posttranslational modification]; other site 935588001575 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 935588001576 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 935588001577 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 935588001578 transmembrane helices; other site 935588001579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 935588001580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 935588001581 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 935588001582 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 935588001583 putative DNA binding site [nucleotide binding]; other site 935588001584 putative Zn2+ binding site [ion binding]; other site 935588001585 AsnC family; Region: AsnC_trans_reg; pfam01037 935588001586 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 935588001587 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 935588001588 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 935588001589 lipoyl attachment site [posttranslational modification]; other site 935588001590 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 935588001591 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 935588001592 tRNA; other site 935588001593 putative tRNA binding site [nucleotide binding]; other site 935588001594 putative NADP binding site [chemical binding]; other site 935588001595 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 935588001596 FMN-binding domain; Region: FMN_bind; cl01081 935588001597 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 935588001598 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 935588001599 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 935588001600 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935588001601 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 935588001602 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 935588001603 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588001604 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588001605 Homeodomain-like domain; Region: HTH_32; pfam13565 935588001606 Integrase core domain; Region: rve; pfam00665 935588001607 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588001608 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 935588001609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588001610 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 935588001611 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935588001612 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935588001613 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 935588001614 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 935588001615 metal binding site [ion binding]; metal-binding site 935588001616 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 935588001617 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 935588001618 ABC-ATPase subunit interface; other site 935588001619 dimer interface [polypeptide binding]; other site 935588001620 putative PBP binding regions; other site 935588001621 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 935588001622 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 935588001623 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 935588001624 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 935588001625 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 935588001626 RimM N-terminal domain; Region: RimM; pfam01782 935588001627 PRC-barrel domain; Region: PRC; pfam05239 935588001628 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 935588001629 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 935588001630 CoA binding domain; Region: CoA_binding_2; pfam13380 935588001631 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935588001632 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935588001633 Coenzyme A binding pocket [chemical binding]; other site 935588001634 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935588001635 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 935588001636 dimerization interface [polypeptide binding]; other site 935588001637 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 935588001638 dimer interface [polypeptide binding]; other site 935588001639 phosphorylation site [posttranslational modification] 935588001640 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 935588001641 ATP binding site [chemical binding]; other site 935588001642 Mg2+ binding site [ion binding]; other site 935588001643 G-X-G motif; other site 935588001644 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935588001645 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 935588001646 active site 935588001647 phosphorylation site [posttranslational modification] 935588001648 intermolecular recognition site; other site 935588001649 dimerization interface [polypeptide binding]; other site 935588001650 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 935588001651 DNA binding site [nucleotide binding] 935588001652 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 935588001653 O-Antigen ligase; Region: Wzy_C; pfam04932 935588001654 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 935588001655 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 935588001656 Maf-like protein; Region: Maf; pfam02545 935588001657 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 935588001658 active site 935588001659 dimer interface [polypeptide binding]; other site 935588001660 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 935588001661 sec-independent translocase; Provisional; Region: PRK00708 935588001662 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 935588001663 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 935588001664 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 935588001665 nucleotide binding site/active site [active] 935588001666 HIT family signature motif; other site 935588001667 catalytic residue [active] 935588001668 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 935588001669 metal binding site [ion binding]; metal-binding site 935588001670 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 935588001671 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 935588001672 putative NAD(P) binding site [chemical binding]; other site 935588001673 catalytic Zn binding site [ion binding]; other site 935588001674 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 935588001675 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 935588001676 putative active site [active] 935588001677 Zn binding site [ion binding]; other site 935588001678 Preprotein translocase subunit; Region: YajC; pfam02699 935588001679 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 935588001680 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 935588001681 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 935588001682 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 935588001683 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 935588001684 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 935588001685 Protein export membrane protein; Region: SecD_SecF; pfam02355 935588001686 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 935588001687 16S/18S rRNA binding site [nucleotide binding]; other site 935588001688 S13e-L30e interaction site [polypeptide binding]; other site 935588001689 25S rRNA binding site [nucleotide binding]; other site 935588001690 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 935588001691 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935588001692 Walker A/P-loop; other site 935588001693 ATP binding site [chemical binding]; other site 935588001694 Q-loop/lid; other site 935588001695 ABC transporter signature motif; other site 935588001696 Walker B; other site 935588001697 D-loop; other site 935588001698 H-loop/switch region; other site 935588001699 TOBE domain; Region: TOBE_2; pfam08402 935588001700 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 935588001701 dimer interface [polypeptide binding]; other site 935588001702 conserved gate region; other site 935588001703 putative PBP binding loops; other site 935588001704 ABC-ATPase subunit interface; other site 935588001705 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 935588001706 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 935588001707 dimer interface [polypeptide binding]; other site 935588001708 conserved gate region; other site 935588001709 putative PBP binding loops; other site 935588001710 ABC-ATPase subunit interface; other site 935588001711 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 935588001712 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 935588001713 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 935588001714 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588001715 transcription termination factor Rho; Provisional; Region: rho; PRK09376 935588001716 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 935588001717 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 935588001718 RNA binding site [nucleotide binding]; other site 935588001719 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 935588001720 multimer interface [polypeptide binding]; other site 935588001721 Walker A motif; other site 935588001722 ATP binding site [chemical binding]; other site 935588001723 Walker B motif; other site 935588001724 phosphoenolpyruvate synthase; Validated; Region: PRK06464 935588001725 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 935588001726 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 935588001727 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 935588001728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 935588001729 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 935588001730 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 935588001731 motif II; other site 935588001732 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 935588001733 dinuclear metal binding motif [ion binding]; other site 935588001734 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 935588001735 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 935588001736 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 935588001737 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 935588001738 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 935588001739 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 935588001740 trimer interface [polypeptide binding]; other site 935588001741 putative metal binding site [ion binding]; other site 935588001742 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 935588001743 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 935588001744 G1 box; other site 935588001745 putative GEF interaction site [polypeptide binding]; other site 935588001746 GTP/Mg2+ binding site [chemical binding]; other site 935588001747 Switch I region; other site 935588001748 G2 box; other site 935588001749 G3 box; other site 935588001750 Switch II region; other site 935588001751 G4 box; other site 935588001752 G5 box; other site 935588001753 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 935588001754 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 935588001755 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 935588001756 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 935588001757 substrate binding site [chemical binding]; other site 935588001758 glutamase interaction surface [polypeptide binding]; other site 935588001759 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 935588001760 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 935588001761 catalytic residues [active] 935588001762 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 935588001763 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 935588001764 putative active site [active] 935588001765 oxyanion strand; other site 935588001766 catalytic triad [active] 935588001767 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 935588001768 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 935588001769 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 935588001770 Walker A/P-loop; other site 935588001771 ATP binding site [chemical binding]; other site 935588001772 Q-loop/lid; other site 935588001773 ABC transporter signature motif; other site 935588001774 Walker B; other site 935588001775 D-loop; other site 935588001776 H-loop/switch region; other site 935588001777 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 935588001778 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 935588001779 dimer interface [polypeptide binding]; other site 935588001780 conserved gate region; other site 935588001781 putative PBP binding loops; other site 935588001782 ABC-ATPase subunit interface; other site 935588001783 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 935588001784 dimer interface [polypeptide binding]; other site 935588001785 conserved gate region; other site 935588001786 ABC-ATPase subunit interface; other site 935588001787 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 935588001788 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 935588001789 argininosuccinate lyase; Provisional; Region: PRK00855 935588001790 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 935588001791 active sites [active] 935588001792 tetramer interface [polypeptide binding]; other site 935588001793 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 935588001794 active site 935588001795 tetramer interface; other site 935588001796 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 935588001797 active site 935588001798 dimerization interface [polypeptide binding]; other site 935588001799 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 935588001800 dimer interface [polypeptide binding]; other site 935588001801 substrate binding site [chemical binding]; other site 935588001802 metal binding sites [ion binding]; metal-binding site 935588001803 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 935588001804 nudix motif; other site 935588001805 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935588001806 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935588001807 Pretoxin HINT domain; Region: PT-HINT; pfam07591 935588001808 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 935588001809 thioester formation/cholesterol transfer; other site 935588001810 protein-splicing catalytic site; other site 935588001811 Cation transport protein; Region: TrkH; cl17365 935588001812 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 935588001813 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 935588001814 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 935588001815 active site 935588001816 metal binding site [ion binding]; metal-binding site 935588001817 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 935588001818 homotrimer interaction site [polypeptide binding]; other site 935588001819 putative active site [active] 935588001820 Opacity family porin protein; Region: Opacity; pfam02462 935588001821 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 935588001822 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 935588001823 FeS/SAM binding site; other site 935588001824 HemN C-terminal domain; Region: HemN_C; pfam06969 935588001825 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 935588001826 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 935588001827 nucleotide binding pocket [chemical binding]; other site 935588001828 K-X-D-G motif; other site 935588001829 catalytic site [active] 935588001830 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 935588001831 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 935588001832 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 935588001833 Dimer interface [polypeptide binding]; other site 935588001834 BRCT sequence motif; other site 935588001835 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 935588001836 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 935588001837 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 935588001838 amidase catalytic site [active] 935588001839 Zn binding residues [ion binding]; other site 935588001840 substrate binding site [chemical binding]; other site 935588001841 YceG-like family; Region: YceG; pfam02618 935588001842 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 935588001843 dimerization interface [polypeptide binding]; other site 935588001844 thymidylate kinase; Validated; Region: tmk; PRK00698 935588001845 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 935588001846 TMP-binding site; other site 935588001847 ATP-binding site [chemical binding]; other site 935588001848 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 935588001849 Malic enzyme, N-terminal domain; Region: malic; pfam00390 935588001850 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 935588001851 putative NAD(P) binding site [chemical binding]; other site 935588001852 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 935588001853 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 935588001854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 935588001855 Uncharacterized conserved protein [Function unknown]; Region: COG2835 935588001856 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 935588001857 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 935588001858 Ligand binding site; other site 935588001859 oligomer interface; other site 935588001860 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 935588001861 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 935588001862 substrate binding site [chemical binding]; other site 935588001863 active site 935588001864 catalytic residues [active] 935588001865 heterodimer interface [polypeptide binding]; other site 935588001866 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 935588001867 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 935588001868 CNP1-like family; Region: CNP1; pfam08750 935588001869 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 935588001870 CPxP motif; other site 935588001871 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 935588001872 active site 935588001873 substrate binding pocket [chemical binding]; other site 935588001874 dimer interface [polypeptide binding]; other site 935588001875 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 935588001876 putative RNA binding site [nucleotide binding]; other site 935588001877 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 935588001878 homopentamer interface [polypeptide binding]; other site 935588001879 active site 935588001880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 935588001881 ribonuclease III; Reviewed; Region: rnc; PRK00102 935588001882 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 935588001883 dimerization interface [polypeptide binding]; other site 935588001884 active site 935588001885 metal binding site [ion binding]; metal-binding site 935588001886 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 935588001887 dsRNA binding site [nucleotide binding]; other site 935588001888 GTPase Era; Reviewed; Region: era; PRK00089 935588001889 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 935588001890 G1 box; other site 935588001891 GTP/Mg2+ binding site [chemical binding]; other site 935588001892 Switch I region; other site 935588001893 G2 box; other site 935588001894 Switch II region; other site 935588001895 G3 box; other site 935588001896 G4 box; other site 935588001897 G5 box; other site 935588001898 KH domain; Region: KH_2; pfam07650 935588001899 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 935588001900 active site 935588001901 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 935588001902 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 935588001903 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 935588001904 amidophosphoribosyltransferase; Provisional; Region: PRK09246 935588001905 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 935588001906 active site 935588001907 tetramer interface [polypeptide binding]; other site 935588001908 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935588001909 active site 935588001910 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 935588001911 Colicin V production protein; Region: Colicin_V; pfam02674 935588001912 cell division protein FtsN; Region: ftsN; TIGR02223 935588001913 Sporulation related domain; Region: SPOR; pfam05036 935588001914 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 935588001915 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935588001916 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935588001917 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935588001918 Walker A/P-loop; other site 935588001919 ATP binding site [chemical binding]; other site 935588001920 Q-loop/lid; other site 935588001921 ABC transporter signature motif; other site 935588001922 Walker B; other site 935588001923 D-loop; other site 935588001924 H-loop/switch region; other site 935588001925 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 935588001926 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 935588001927 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 935588001928 putative active site [active] 935588001929 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 935588001930 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 935588001931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588001932 catalytic residue [active] 935588001933 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 935588001934 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 935588001935 Autotransporter beta-domain; Region: Autotransporter; pfam03797 935588001936 Transposase domain (DUF772); Region: DUF772; pfam05598 935588001937 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588001938 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588001939 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 935588001940 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 935588001941 Competence protein; Region: Competence; pfam03772 935588001942 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935588001943 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 935588001944 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 935588001945 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935588001946 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 935588001947 RNA binding surface [nucleotide binding]; other site 935588001948 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935588001949 active site 935588001950 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 935588001951 Sodium Bile acid symporter family; Region: SBF; pfam01758 935588001952 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 935588001953 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 935588001954 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 935588001955 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 935588001956 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 935588001957 Predicted membrane protein/domain [Function unknown]; Region: COG1714 935588001958 hypothetical protein; Provisional; Region: PRK11820 935588001959 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 935588001960 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 935588001961 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 935588001962 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 935588001963 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935588001964 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 935588001965 DNA binding residues [nucleotide binding] 935588001966 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 935588001967 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 935588001968 putative active site [active] 935588001969 catalytic triad [active] 935588001970 putative dimer interface [polypeptide binding]; other site 935588001971 Protein of unknown function (DUF808); Region: DUF808; cl01002 935588001972 potassium/proton antiporter; Reviewed; Region: PRK05326 935588001973 potassium/proton antiporter; Reviewed; Region: PRK05326 935588001974 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 935588001975 Cytochrome c; Region: Cytochrom_C; pfam00034 935588001976 ferrochelatase; Reviewed; Region: hemH; PRK00035 935588001977 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 935588001978 C-terminal domain interface [polypeptide binding]; other site 935588001979 active site 935588001980 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 935588001981 active site 935588001982 N-terminal domain interface [polypeptide binding]; other site 935588001983 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 935588001984 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 935588001985 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 935588001986 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 935588001987 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 935588001988 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 935588001989 active site 935588001990 dimer interface [polypeptide binding]; other site 935588001991 motif 1; other site 935588001992 motif 2; other site 935588001993 motif 3; other site 935588001994 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 935588001995 anticodon binding site; other site 935588001996 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 935588001997 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 935588001998 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 935588001999 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 935588002000 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 935588002001 23S rRNA binding site [nucleotide binding]; other site 935588002002 L21 binding site [polypeptide binding]; other site 935588002003 L13 binding site [polypeptide binding]; other site 935588002004 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 935588002005 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 935588002006 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 935588002007 dimer interface [polypeptide binding]; other site 935588002008 motif 1; other site 935588002009 active site 935588002010 motif 2; other site 935588002011 motif 3; other site 935588002012 AAA domain; Region: AAA_21; pfam13304 935588002013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935588002014 Walker B; other site 935588002015 D-loop; other site 935588002016 H-loop/switch region; other site 935588002017 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 935588002018 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 935588002019 putative tRNA-binding site [nucleotide binding]; other site 935588002020 B3/4 domain; Region: B3_4; pfam03483 935588002021 tRNA synthetase B5 domain; Region: B5; smart00874 935588002022 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 935588002023 dimer interface [polypeptide binding]; other site 935588002024 motif 1; other site 935588002025 motif 3; other site 935588002026 motif 2; other site 935588002027 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 935588002028 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 935588002029 IHF - DNA interface [nucleotide binding]; other site 935588002030 IHF dimer interface [polypeptide binding]; other site 935588002031 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 935588002032 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 935588002033 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 935588002034 inhibitor-cofactor binding pocket; inhibition site 935588002035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588002036 catalytic residue [active] 935588002037 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 935588002038 AAA domain; Region: AAA_26; pfam13500 935588002039 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 935588002040 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 935588002041 UbiA prenyltransferase family; Region: UbiA; pfam01040 935588002042 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 935588002043 active site 935588002044 phosphorylation site [posttranslational modification] 935588002045 HPr kinase/phosphorylase; Provisional; Region: PRK05428 935588002046 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 935588002047 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 935588002048 Hpr binding site; other site 935588002049 active site 935588002050 homohexamer subunit interaction site [polypeptide binding]; other site 935588002051 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 935588002052 AAA domain; Region: AAA_33; pfam13671 935588002053 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 935588002054 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 935588002055 GTP/Mg2+ binding site [chemical binding]; other site 935588002056 G4 box; other site 935588002057 G5 box; other site 935588002058 G1 box; other site 935588002059 Switch I region; other site 935588002060 G2 box; other site 935588002061 G3 box; other site 935588002062 Switch II region; other site 935588002063 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 935588002064 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 935588002065 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 935588002066 Walker A/P-loop; other site 935588002067 ATP binding site [chemical binding]; other site 935588002068 Q-loop/lid; other site 935588002069 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 935588002070 ABC transporter signature motif; other site 935588002071 Walker B; other site 935588002072 D-loop; other site 935588002073 H-loop/switch region; other site 935588002074 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 935588002075 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 935588002076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 935588002077 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 935588002078 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 935588002079 S-adenosylmethionine binding site [chemical binding]; other site 935588002080 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 935588002081 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 935588002082 catalytic center binding site [active] 935588002083 ATP binding site [chemical binding]; other site 935588002084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 935588002085 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 935588002086 bacterial Hfq-like; Region: Hfq; cd01716 935588002087 hexamer interface [polypeptide binding]; other site 935588002088 Sm1 motif; other site 935588002089 RNA binding site [nucleotide binding]; other site 935588002090 Sm2 motif; other site 935588002091 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 935588002092 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 935588002093 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 935588002094 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 935588002095 catalytic triad [active] 935588002096 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 935588002097 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 935588002098 active site 935588002099 Int/Topo IB signature motif; other site 935588002100 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 935588002101 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 935588002102 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 935588002103 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 935588002104 NADP binding site [chemical binding]; other site 935588002105 active site 935588002106 putative substrate binding site [chemical binding]; other site 935588002107 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 935588002108 ATP binding site [chemical binding]; other site 935588002109 active site 935588002110 substrate binding site [chemical binding]; other site 935588002111 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 935588002112 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 935588002113 RNase E interface [polypeptide binding]; other site 935588002114 trimer interface [polypeptide binding]; other site 935588002115 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 935588002116 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 935588002117 RNase E interface [polypeptide binding]; other site 935588002118 trimer interface [polypeptide binding]; other site 935588002119 active site 935588002120 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 935588002121 putative nucleic acid binding region [nucleotide binding]; other site 935588002122 G-X-X-G motif; other site 935588002123 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 935588002124 RNA binding site [nucleotide binding]; other site 935588002125 domain interface; other site 935588002126 Uncharacterized conserved protein [Function unknown]; Region: COG2836 935588002127 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 935588002128 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 935588002129 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 935588002130 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 935588002131 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 935588002132 dimer interface [polypeptide binding]; other site 935588002133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588002134 catalytic residue [active] 935588002135 EamA-like transporter family; Region: EamA; pfam00892 935588002136 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 935588002137 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 935588002138 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 935588002139 Catalytic site [active] 935588002140 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 935588002141 GTP-binding protein LepA; Provisional; Region: PRK05433 935588002142 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 935588002143 G1 box; other site 935588002144 putative GEF interaction site [polypeptide binding]; other site 935588002145 GTP/Mg2+ binding site [chemical binding]; other site 935588002146 Switch I region; other site 935588002147 G2 box; other site 935588002148 G3 box; other site 935588002149 Switch II region; other site 935588002150 G4 box; other site 935588002151 G5 box; other site 935588002152 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 935588002153 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 935588002154 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 935588002155 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 935588002156 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 935588002157 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 935588002158 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 935588002159 Walker A motif; other site 935588002160 ATP binding site [chemical binding]; other site 935588002161 Walker B motif; other site 935588002162 DNA polymerase III subunit delta'; Validated; Region: PRK08699 935588002163 DNA polymerase III subunit delta'; Validated; Region: PRK08485 935588002164 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 935588002165 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 935588002166 active site 935588002167 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 935588002168 Domain of unknown function (DUF333); Region: DUF333; pfam03891 935588002169 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 935588002170 putative GSH binding site [chemical binding]; other site 935588002171 catalytic residues [active] 935588002172 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935588002173 active site 935588002174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 935588002175 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 935588002176 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 935588002177 active site 935588002178 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 935588002179 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 935588002180 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 935588002181 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 935588002182 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 935588002183 substrate binding site [chemical binding]; other site 935588002184 active site 935588002185 DNA repair protein RadA; Provisional; Region: PRK11823 935588002186 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 935588002187 Walker A motif/ATP binding site; other site 935588002188 ATP binding site [chemical binding]; other site 935588002189 Walker B motif; other site 935588002190 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 935588002191 Uncharacterized conserved protein [Function unknown]; Region: COG3439 935588002192 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 935588002193 active site residue [active] 935588002194 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 935588002195 Part of AAA domain; Region: AAA_19; pfam13245 935588002196 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 935588002197 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 935588002198 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935588002199 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 935588002200 substrate binding pocket [chemical binding]; other site 935588002201 membrane-bound complex binding site; other site 935588002202 hinge residues; other site 935588002203 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 935588002204 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 935588002205 dimer interface [polypeptide binding]; other site 935588002206 conserved gate region; other site 935588002207 putative PBP binding loops; other site 935588002208 ABC-ATPase subunit interface; other site 935588002209 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935588002210 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935588002211 Walker A/P-loop; other site 935588002212 ATP binding site [chemical binding]; other site 935588002213 Q-loop/lid; other site 935588002214 ABC transporter signature motif; other site 935588002215 Walker B; other site 935588002216 D-loop; other site 935588002217 H-loop/switch region; other site 935588002218 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 935588002219 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 935588002220 active site 935588002221 substrate binding site [chemical binding]; other site 935588002222 metal binding site [ion binding]; metal-binding site 935588002223 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 935588002224 active site 935588002225 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 935588002226 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 935588002227 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 935588002228 putative active site [active] 935588002229 catalytic residue [active] 935588002230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 935588002231 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 935588002232 putative coenzyme Q binding site [chemical binding]; other site 935588002233 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 935588002234 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 935588002235 Walker A motif; other site 935588002236 ATP binding site [chemical binding]; other site 935588002237 Walker B motif; other site 935588002238 arginine finger; other site 935588002239 Peptidase family M41; Region: Peptidase_M41; pfam01434 935588002240 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 935588002241 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 935588002242 S-adenosylmethionine binding site [chemical binding]; other site 935588002243 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 935588002244 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 935588002245 dimer interface [polypeptide binding]; other site 935588002246 active site 935588002247 aspartate-rich active site metal binding site; other site 935588002248 allosteric magnesium binding site [ion binding]; other site 935588002249 Schiff base residues; other site 935588002250 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 935588002251 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 935588002252 homodimer interface [polypeptide binding]; other site 935588002253 substrate-cofactor binding pocket; other site 935588002254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588002255 catalytic residue [active] 935588002256 putative GTP cyclohydrolase; Provisional; Region: PRK13674 935588002257 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 935588002258 dimer interface [polypeptide binding]; other site 935588002259 FMN binding site [chemical binding]; other site 935588002260 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 935588002261 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 935588002262 RNA binding surface [nucleotide binding]; other site 935588002263 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 935588002264 active site 935588002265 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 935588002266 ATP-NAD kinase; Region: NAD_kinase; pfam01513 935588002267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 935588002268 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 935588002269 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 935588002270 putative NAD(P) binding site [chemical binding]; other site 935588002271 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935588002272 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935588002273 Bacterial transcriptional repressor; Region: TetR; pfam13972 935588002274 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 935588002275 FAD binding domain; Region: FAD_binding_4; pfam01565 935588002276 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 935588002277 multidrug efflux protein; Reviewed; Region: PRK01766 935588002278 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 935588002279 cation binding site [ion binding]; other site 935588002280 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 935588002281 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 935588002282 dimer interface [polypeptide binding]; other site 935588002283 motif 1; other site 935588002284 active site 935588002285 motif 2; other site 935588002286 motif 3; other site 935588002287 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 935588002288 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 935588002289 GDP-binding site [chemical binding]; other site 935588002290 ACT binding site; other site 935588002291 IMP binding site; other site 935588002292 heat shock protein HtpX; Provisional; Region: PRK05457 935588002293 adenylate kinase; Reviewed; Region: adk; PRK00279 935588002294 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 935588002295 AMP-binding site [chemical binding]; other site 935588002296 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 935588002297 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 935588002298 active site 935588002299 dimer interface [polypeptide binding]; other site 935588002300 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 935588002301 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 935588002302 putative ribose interaction site [chemical binding]; other site 935588002303 putative ADP binding site [chemical binding]; other site 935588002304 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 935588002305 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 935588002306 cofactor binding site; other site 935588002307 DNA binding site [nucleotide binding] 935588002308 substrate interaction site [chemical binding]; other site 935588002309 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 935588002310 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 935588002311 HNH endonuclease; Region: HNH_2; pfam13391 935588002312 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 935588002313 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 935588002314 NADP binding site [chemical binding]; other site 935588002315 homopentamer interface [polypeptide binding]; other site 935588002316 substrate binding site [chemical binding]; other site 935588002317 active site 935588002318 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 935588002319 HsdM N-terminal domain; Region: HsdM_N; pfam12161 935588002320 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 935588002321 S-adenosylmethionine binding site [chemical binding]; other site 935588002322 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 935588002323 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 935588002324 Clp amino terminal domain; Region: Clp_N; pfam02861 935588002325 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 935588002326 Walker A motif; other site 935588002327 ATP binding site [chemical binding]; other site 935588002328 Walker B motif; other site 935588002329 arginine finger; other site 935588002330 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 935588002331 Walker A motif; other site 935588002332 ATP binding site [chemical binding]; other site 935588002333 Walker B motif; other site 935588002334 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 935588002335 Uncharacterized conserved protein [Function unknown]; Region: COG2127 935588002336 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 935588002337 DNA-binding site [nucleotide binding]; DNA binding site 935588002338 RNA-binding motif; other site 935588002339 peptidase PmbA; Provisional; Region: PRK11040 935588002340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 935588002341 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 935588002342 DHH family; Region: DHH; pfam01368 935588002343 DHHA1 domain; Region: DHHA1; pfam02272 935588002344 poly(A) polymerase; Region: pcnB; TIGR01942 935588002345 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 935588002346 active site 935588002347 NTP binding site [chemical binding]; other site 935588002348 metal binding triad [ion binding]; metal-binding site 935588002349 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 935588002350 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 935588002351 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 935588002352 PhoH-like protein; Region: PhoH; pfam02562 935588002353 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 935588002354 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 935588002355 trimer interface [polypeptide binding]; other site 935588002356 active site 935588002357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 935588002358 MORN repeat; Region: MORN; cl14787 935588002359 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 935588002360 GTP-binding protein Der; Reviewed; Region: PRK00093 935588002361 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 935588002362 G1 box; other site 935588002363 GTP/Mg2+ binding site [chemical binding]; other site 935588002364 Switch I region; other site 935588002365 G2 box; other site 935588002366 Switch II region; other site 935588002367 G3 box; other site 935588002368 G4 box; other site 935588002369 G5 box; other site 935588002370 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 935588002371 G1 box; other site 935588002372 GTP/Mg2+ binding site [chemical binding]; other site 935588002373 Switch I region; other site 935588002374 G2 box; other site 935588002375 G3 box; other site 935588002376 Switch II region; other site 935588002377 G4 box; other site 935588002378 G5 box; other site 935588002379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 935588002380 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 935588002381 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 935588002382 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 935588002383 dimer interface [polypeptide binding]; other site 935588002384 motif 1; other site 935588002385 active site 935588002386 motif 2; other site 935588002387 motif 3; other site 935588002388 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 935588002389 anticodon binding site; other site 935588002390 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 935588002391 putative active site [active] 935588002392 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935588002393 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 935588002394 probable active site [active] 935588002395 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 935588002396 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 935588002397 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 935588002398 S-adenosylmethionine binding site [chemical binding]; other site 935588002399 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 935588002400 oligomerization interface [polypeptide binding]; other site 935588002401 active site 935588002402 metal binding site [ion binding]; metal-binding site 935588002403 pantoate--beta-alanine ligase; Region: panC; TIGR00018 935588002404 Pantoate-beta-alanine ligase; Region: PanC; cd00560 935588002405 active site 935588002406 ATP-binding site [chemical binding]; other site 935588002407 pantoate-binding site; other site 935588002408 HXXH motif; other site 935588002409 TPR repeat; Region: TPR_11; pfam13414 935588002410 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 935588002411 binding surface 935588002412 TPR motif; other site 935588002413 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 935588002414 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 935588002415 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 935588002416 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 935588002417 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 935588002418 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 935588002419 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 935588002420 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935588002421 active site 935588002422 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 935588002423 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 935588002424 5S rRNA interface [nucleotide binding]; other site 935588002425 CTC domain interface [polypeptide binding]; other site 935588002426 L16 interface [polypeptide binding]; other site 935588002427 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 935588002428 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 935588002429 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 935588002430 threonine dehydratase; Reviewed; Region: PRK09224 935588002431 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 935588002432 tetramer interface [polypeptide binding]; other site 935588002433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588002434 catalytic residue [active] 935588002435 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 935588002436 putative Ile/Val binding site [chemical binding]; other site 935588002437 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 935588002438 putative Ile/Val binding site [chemical binding]; other site 935588002439 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 935588002440 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 935588002441 Walker A/P-loop; other site 935588002442 ATP binding site [chemical binding]; other site 935588002443 Q-loop/lid; other site 935588002444 ABC transporter signature motif; other site 935588002445 Walker B; other site 935588002446 D-loop; other site 935588002447 H-loop/switch region; other site 935588002448 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 935588002449 dimer interface [polypeptide binding]; other site 935588002450 conserved gate region; other site 935588002451 putative PBP binding loops; other site 935588002452 ABC-ATPase subunit interface; other site 935588002453 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 935588002454 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 935588002455 dimer interface [polypeptide binding]; other site 935588002456 conserved gate region; other site 935588002457 putative PBP binding loops; other site 935588002458 ABC-ATPase subunit interface; other site 935588002459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 935588002460 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 935588002461 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 935588002462 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 935588002463 replicative DNA helicase; Region: DnaB; TIGR00665 935588002464 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 935588002465 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 935588002466 Walker A motif; other site 935588002467 ATP binding site [chemical binding]; other site 935588002468 Walker B motif; other site 935588002469 DNA binding loops [nucleotide binding] 935588002470 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 935588002471 Type II transport protein GspH; Region: GspH; pfam12019 935588002472 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 935588002473 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 935588002474 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 935588002475 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 935588002476 PilX N-terminal; Region: PilX_N; pfam14341 935588002477 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935588002478 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 935588002479 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 935588002480 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 935588002481 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 935588002482 trimer interface [polypeptide binding]; other site 935588002483 active site 935588002484 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 935588002485 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 935588002486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588002487 homodimer interface [polypeptide binding]; other site 935588002488 catalytic residue [active] 935588002489 hypothetical protein; Validated; Region: PRK02101 935588002490 integrase; Provisional; Region: PRK09692 935588002491 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 935588002492 active site 935588002493 Int/Topo IB signature motif; other site 935588002494 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 935588002495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 935588002496 Peptidase M15; Region: Peptidase_M15_3; cl01194 935588002497 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 935588002498 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 935588002499 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional; Region: PRK14844 935588002500 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 935588002501 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 935588002502 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 935588002503 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 935588002504 Cytochrome c556 [Energy production and conversion]; Region: COG3909 935588002505 malonic semialdehyde reductase; Provisional; Region: PRK10538 935588002506 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 935588002507 putative NAD(P) binding site [chemical binding]; other site 935588002508 homotetramer interface [polypeptide binding]; other site 935588002509 homodimer interface [polypeptide binding]; other site 935588002510 active site 935588002511 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 935588002512 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 935588002513 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 935588002514 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 935588002515 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 935588002516 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 935588002517 dimer interface [polypeptide binding]; other site 935588002518 active site 935588002519 catalytic residue [active] 935588002520 xanthine permease; Region: pbuX; TIGR03173 935588002521 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 935588002522 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 935588002523 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935588002524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 935588002525 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 935588002526 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 935588002527 nucleoside/Zn binding site; other site 935588002528 dimer interface [polypeptide binding]; other site 935588002529 catalytic motif [active] 935588002530 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 935588002531 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 935588002532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 935588002533 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 935588002534 elongation factor P; Validated; Region: PRK00529 935588002535 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 935588002536 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 935588002537 RNA binding site [nucleotide binding]; other site 935588002538 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 935588002539 RNA binding site [nucleotide binding]; other site 935588002540 Methyltransferase domain; Region: Methyltransf_23; pfam13489 935588002541 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 935588002542 S-adenosylmethionine binding site [chemical binding]; other site 935588002543 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 935588002544 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 935588002545 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 935588002546 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 935588002547 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 935588002548 FAD binding site [chemical binding]; other site 935588002549 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 935588002550 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 935588002551 THF binding site; other site 935588002552 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 935588002553 substrate binding site [chemical binding]; other site 935588002554 THF binding site; other site 935588002555 zinc-binding site [ion binding]; other site 935588002556 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 935588002557 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 935588002558 catalytic triad [active] 935588002559 dimer interface [polypeptide binding]; other site 935588002560 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 935588002561 GSH binding site [chemical binding]; other site 935588002562 catalytic residues [active] 935588002563 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 935588002564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935588002565 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 935588002566 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 935588002567 Iron-sulfur protein interface; other site 935588002568 proximal quinone binding site [chemical binding]; other site 935588002569 SdhD (CybS) interface [polypeptide binding]; other site 935588002570 proximal heme binding site [chemical binding]; other site 935588002571 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 935588002572 SdhC subunit interface [polypeptide binding]; other site 935588002573 proximal heme binding site [chemical binding]; other site 935588002574 cardiolipin binding site; other site 935588002575 Iron-sulfur protein interface; other site 935588002576 proximal quinone binding site [chemical binding]; other site 935588002577 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 935588002578 L-aspartate oxidase; Provisional; Region: PRK06175 935588002579 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 935588002580 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 935588002581 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 935588002582 Uncharacterized conserved protein [Function unknown]; Region: COG2938 935588002583 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 935588002584 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 935588002585 dimer interface [polypeptide binding]; other site 935588002586 active site 935588002587 citrylCoA binding site [chemical binding]; other site 935588002588 NADH binding [chemical binding]; other site 935588002589 cationic pore residues; other site 935588002590 oxalacetate/citrate binding site [chemical binding]; other site 935588002591 coenzyme A binding site [chemical binding]; other site 935588002592 catalytic triad [active] 935588002593 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 935588002594 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 935588002595 TPP-binding site [chemical binding]; other site 935588002596 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 935588002597 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 935588002598 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 935588002599 E3 interaction surface; other site 935588002600 lipoyl attachment site [posttranslational modification]; other site 935588002601 e3 binding domain; Region: E3_binding; pfam02817 935588002602 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 935588002603 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 935588002604 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 935588002605 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935588002606 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 935588002607 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 935588002608 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 935588002609 CoA-ligase; Region: Ligase_CoA; pfam00549 935588002610 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 935588002611 CoA binding domain; Region: CoA_binding; smart00881 935588002612 CoA-ligase; Region: Ligase_CoA; pfam00549 935588002613 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 935588002614 ATP binding site [chemical binding]; other site 935588002615 Mg2+ binding site [ion binding]; other site 935588002616 G-X-G motif; other site 935588002617 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 935588002618 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 935588002619 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 935588002620 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 935588002621 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 935588002622 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 935588002623 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 935588002624 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 935588002625 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 935588002626 glutamine binding [chemical binding]; other site 935588002627 catalytic triad [active] 935588002628 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 935588002629 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 935588002630 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 935588002631 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588002632 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 935588002633 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 935588002634 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 935588002635 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 935588002636 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 935588002637 MAPEG family; Region: MAPEG; cl09190 935588002638 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 935588002639 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 935588002640 ligand binding site [chemical binding]; other site 935588002641 homodimer interface [polypeptide binding]; other site 935588002642 NAD(P) binding site [chemical binding]; other site 935588002643 trimer interface B [polypeptide binding]; other site 935588002644 trimer interface A [polypeptide binding]; other site 935588002645 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 935588002646 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 935588002647 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 935588002648 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 935588002649 motif II; other site 935588002650 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 935588002651 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 935588002652 putative ion selectivity filter; other site 935588002653 putative pore gating glutamate residue; other site 935588002654 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 935588002655 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 935588002656 purine monophosphate binding site [chemical binding]; other site 935588002657 dimer interface [polypeptide binding]; other site 935588002658 putative catalytic residues [active] 935588002659 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 935588002660 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 935588002661 Mu-like prophage protein gp16 [Function unknown]; Region: COG4382 935588002662 Mor transcription activator family; Region: Mor; cl02360 935588002663 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 935588002664 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 935588002665 active site 935588002666 metal binding site [ion binding]; metal-binding site 935588002667 KRI1-like family; Region: Kri1; pfam05178 935588002668 Uncharacterized conserved protein [Function unknown]; Region: COG3422 935588002669 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 935588002670 Transposase domain (DUF772); Region: DUF772; pfam05598 935588002671 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588002672 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588002673 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 935588002674 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 935588002675 YadA-like C-terminal region; Region: YadA; pfam03895 935588002676 Rubredoxin [Energy production and conversion]; Region: COG1773 935588002677 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 935588002678 iron binding site [ion binding]; other site 935588002679 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 935588002680 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 935588002681 active site 935588002682 Uncharacterized conserved protein [Function unknown]; Region: COG2128 935588002683 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 935588002684 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 935588002685 D-lactate dehydrogenase; Provisional; Region: PRK11183 935588002686 FAD binding domain; Region: FAD_binding_4; pfam01565 935588002687 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 935588002688 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 935588002689 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 935588002690 FAD binding domain; Region: FAD_binding_4; pfam01565 935588002691 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 935588002692 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 935588002693 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 935588002694 Cysteine-rich domain; Region: CCG; pfam02754 935588002695 Cysteine-rich domain; Region: CCG; pfam02754 935588002696 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 935588002697 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 935588002698 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 935588002699 FMN binding site [chemical binding]; other site 935588002700 active site 935588002701 catalytic residues [active] 935588002702 substrate binding site [chemical binding]; other site 935588002703 Transposase domain (DUF772); Region: DUF772; pfam05598 935588002704 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588002705 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588002706 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 935588002707 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935588002708 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 935588002709 non-specific DNA binding site [nucleotide binding]; other site 935588002710 salt bridge; other site 935588002711 sequence-specific DNA binding site [nucleotide binding]; other site 935588002712 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 935588002713 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 935588002714 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 935588002715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 935588002716 HTH-like domain; Region: HTH_21; pfam13276 935588002717 Integrase core domain; Region: rve; pfam00665 935588002718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 935588002719 Smr domain; Region: Smr; pfam01713 935588002720 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 935588002721 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 935588002722 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935588002723 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935588002724 Coenzyme A binding pocket [chemical binding]; other site 935588002725 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 935588002726 ATP-grasp domain; Region: ATP-grasp; pfam02222 935588002727 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 935588002728 anthranilate synthase component I; Provisional; Region: PRK13565 935588002729 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 935588002730 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 935588002731 ABC transporter ATPase component; Reviewed; Region: PRK11147 935588002732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935588002733 Walker A/P-loop; other site 935588002734 ATP binding site [chemical binding]; other site 935588002735 Q-loop/lid; other site 935588002736 ABC transporter signature motif; other site 935588002737 Walker B; other site 935588002738 D-loop; other site 935588002739 H-loop/switch region; other site 935588002740 ABC transporter; Region: ABC_tran_2; pfam12848 935588002741 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935588002742 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 935588002743 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935588002744 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 935588002745 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 935588002746 dimer interface [polypeptide binding]; other site 935588002747 active site 935588002748 glycine-pyridoxal phosphate binding site [chemical binding]; other site 935588002749 folate binding site [chemical binding]; other site 935588002750 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 935588002751 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 935588002752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 935588002753 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 935588002754 AMP binding site [chemical binding]; other site 935588002755 metal binding site [ion binding]; metal-binding site 935588002756 active site 935588002757 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 935588002758 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 935588002759 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 935588002760 active site 935588002761 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 935588002762 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 935588002763 dimer interface [polypeptide binding]; other site 935588002764 ADP-ribose binding site [chemical binding]; other site 935588002765 active site 935588002766 nudix motif; other site 935588002767 metal binding site [ion binding]; metal-binding site 935588002768 camphor resistance protein CrcB; Provisional; Region: PRK14230 935588002769 Predicted membrane protein [Function unknown]; Region: COG3235 935588002770 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 935588002771 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 935588002772 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 935588002773 putative catalytic cysteine [active] 935588002774 glutamate 5-kinase; Region: proB; TIGR01027 935588002775 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 935588002776 nucleotide binding site [chemical binding]; other site 935588002777 homotetrameric interface [polypeptide binding]; other site 935588002778 putative phosphate binding site [ion binding]; other site 935588002779 putative allosteric binding site; other site 935588002780 PUA domain; Region: PUA; pfam01472 935588002781 2-isopropylmalate synthase; Validated; Region: PRK00915 935588002782 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 935588002783 active site 935588002784 catalytic residues [active] 935588002785 metal binding site [ion binding]; metal-binding site 935588002786 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 935588002787 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 935588002788 yecA family protein; Region: ygfB_yecA; TIGR02292 935588002789 SEC-C motif; Region: SEC-C; pfam02810 935588002790 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 935588002791 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 935588002792 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 935588002793 putative active site [active] 935588002794 Zn binding site [ion binding]; other site 935588002795 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 935588002796 feedback inhibition sensing region; other site 935588002797 homohexameric interface [polypeptide binding]; other site 935588002798 nucleotide binding site [chemical binding]; other site 935588002799 N-acetyl-L-glutamate binding site [chemical binding]; other site 935588002800 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 935588002801 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 935588002802 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 935588002803 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 935588002804 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 935588002805 ABC transporter; Region: ABC_tran; pfam00005 935588002806 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588002807 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588002808 Homeodomain-like domain; Region: HTH_32; pfam13565 935588002809 Integrase core domain; Region: rve; pfam00665 935588002810 Predicted transcriptional regulator [Transcription]; Region: COG2932 935588002811 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 935588002812 Catalytic site [active] 935588002813 ORF6C domain; Region: ORF6C; pfam10552 935588002814 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 935588002815 Integrase core domain; Region: rve; pfam00665 935588002816 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 935588002817 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 935588002818 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 935588002819 DNA polymerase IV; Provisional; Region: PRK02794 935588002820 Eukaryotic Mediator 12 subunit domain; Region: Med12-LCEWAV; pfam12145 935588002821 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 935588002822 Putative exonuclease, RdgC; Region: RdgC; cl01122 935588002823 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 935588002824 Mor transcription activator family; Region: Mor; cl02360 935588002825 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 935588002826 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 935588002827 active site 935588002828 metal binding site [ion binding]; metal-binding site 935588002829 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 935588002830 phage uncharacterized protein (putative large terminase), C-terminal domain; Region: psiM2_ORF9; TIGR01630 935588002831 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 935588002832 Protein of unknown function (DUF935); Region: DUF935; pfam06074 935588002833 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 935588002834 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 935588002835 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 935588002836 Mu-like prophage I protein [General function prediction only]; Region: COG4388 935588002837 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 935588002838 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 935588002839 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 935588002840 Mu-like prophage protein gp45 [Function unknown]; Region: COG4384 935588002841 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 935588002842 Mu-like prophage protein gp46 [Function unknown]; Region: COG4381 935588002843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 935588002844 Phage Tail Collar Domain; Region: Collar; pfam07484 935588002845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 935588002846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 935588002847 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 935588002848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 935588002849 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 935588002850 short chain dehydrogenase; Provisional; Region: PRK08703 935588002851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935588002852 NAD(P) binding site [chemical binding]; other site 935588002853 active site 935588002854 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 935588002855 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 935588002856 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 935588002857 active site lid residues [active] 935588002858 substrate binding pocket [chemical binding]; other site 935588002859 catalytic residues [active] 935588002860 substrate-Mg2+ binding site; other site 935588002861 aspartate-rich region 1; other site 935588002862 aspartate-rich region 2; other site 935588002863 chaperone protein HscA; Provisional; Region: hscA; PRK05183 935588002864 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 935588002865 nucleotide binding site [chemical binding]; other site 935588002866 putative NEF/HSP70 interaction site [polypeptide binding]; other site 935588002867 SBD interface [polypeptide binding]; other site 935588002868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 935588002869 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 935588002870 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 935588002871 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 935588002872 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 935588002873 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 935588002874 catalytic loop [active] 935588002875 iron binding site [ion binding]; other site 935588002876 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 935588002877 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 935588002878 RNA binding surface [nucleotide binding]; other site 935588002879 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 935588002880 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 935588002881 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 935588002882 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 935588002883 Ligand Binding Site [chemical binding]; other site 935588002884 TilS substrate binding domain; Region: TilS; pfam09179 935588002885 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 935588002886 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 935588002887 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935588002888 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 935588002889 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 935588002890 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935588002891 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935588002892 biotin synthase; Region: bioB; TIGR00433 935588002893 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 935588002894 FeS/SAM binding site; other site 935588002895 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 935588002896 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 935588002897 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 935588002898 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 935588002899 sulfite reductase subunit beta; Provisional; Region: PRK13504 935588002900 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935588002901 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935588002902 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 935588002903 Flavodoxin; Region: Flavodoxin_1; pfam00258 935588002904 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 935588002905 FAD binding pocket [chemical binding]; other site 935588002906 FAD binding motif [chemical binding]; other site 935588002907 catalytic residues [active] 935588002908 NAD binding pocket [chemical binding]; other site 935588002909 phosphate binding motif [ion binding]; other site 935588002910 beta-alpha-beta structure motif; other site 935588002911 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 935588002912 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 935588002913 CysD dimerization site [polypeptide binding]; other site 935588002914 G1 box; other site 935588002915 putative GEF interaction site [polypeptide binding]; other site 935588002916 GTP/Mg2+ binding site [chemical binding]; other site 935588002917 Switch I region; other site 935588002918 G2 box; other site 935588002919 G3 box; other site 935588002920 Switch II region; other site 935588002921 G4 box; other site 935588002922 G5 box; other site 935588002923 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 935588002924 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 935588002925 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 935588002926 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 935588002927 Active Sites [active] 935588002928 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 935588002929 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 935588002930 Active Sites [active] 935588002931 siroheme synthase; Provisional; Region: cysG; PRK10637 935588002932 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 935588002933 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 935588002934 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 935588002935 active site 935588002936 SAM binding site [chemical binding]; other site 935588002937 homodimer interface [polypeptide binding]; other site 935588002938 Cytochrome b [Energy production and conversion]; Region: COG3658 935588002939 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 935588002940 putative substrate binding site [chemical binding]; other site 935588002941 putative ATP binding site [chemical binding]; other site 935588002942 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 935588002943 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 935588002944 G1 box; other site 935588002945 putative GEF interaction site [polypeptide binding]; other site 935588002946 GTP/Mg2+ binding site [chemical binding]; other site 935588002947 Switch I region; other site 935588002948 G2 box; other site 935588002949 G3 box; other site 935588002950 Switch II region; other site 935588002951 G4 box; other site 935588002952 G5 box; other site 935588002953 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 935588002954 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 935588002955 ribonuclease R; Region: RNase_R; TIGR02063 935588002956 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 935588002957 RNB domain; Region: RNB; pfam00773 935588002958 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 935588002959 RNA binding site [nucleotide binding]; other site 935588002960 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 935588002961 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 935588002962 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 935588002963 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 935588002964 active site 935588002965 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 935588002966 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935588002967 metal binding triad; other site 935588002968 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 935588002969 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935588002970 Zn2+ binding site [ion binding]; other site 935588002971 Mg2+ binding site [ion binding]; other site 935588002972 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 935588002973 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 935588002974 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935588002975 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 935588002976 non-specific DNA binding site [nucleotide binding]; other site 935588002977 salt bridge; other site 935588002978 sequence-specific DNA binding site [nucleotide binding]; other site 935588002979 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 935588002980 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 935588002981 heme binding site [chemical binding]; other site 935588002982 ferroxidase pore; other site 935588002983 ferroxidase diiron center [ion binding]; other site 935588002984 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 935588002985 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 935588002986 heme binding site [chemical binding]; other site 935588002987 ferroxidase pore; other site 935588002988 ferroxidase diiron center [ion binding]; other site 935588002989 lipoyl synthase; Provisional; Region: PRK05481 935588002990 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 935588002991 FeS/SAM binding site; other site 935588002992 lipoate-protein ligase B; Provisional; Region: PRK14342 935588002993 Uncharacterized conserved protein [Function unknown]; Region: COG2921 935588002994 Domain of unknown function DUF20; Region: UPF0118; pfam01594 935588002995 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 935588002996 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 935588002997 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 935588002998 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 935588002999 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 935588003000 ligand binding site [chemical binding]; other site 935588003001 active site 935588003002 UGI interface [polypeptide binding]; other site 935588003003 catalytic site [active] 935588003004 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 935588003005 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935588003006 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935588003007 ABC transporter; Region: ABC_tran_2; pfam12848 935588003008 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935588003009 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 935588003010 homoserine dehydrogenase; Provisional; Region: PRK06349 935588003011 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 935588003012 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 935588003013 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 935588003014 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 935588003015 IHF dimer interface [polypeptide binding]; other site 935588003016 IHF - DNA interface [nucleotide binding]; other site 935588003017 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 935588003018 Found in ATP-dependent protease La (LON); Region: LON; smart00464 935588003019 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 935588003020 Walker A motif; other site 935588003021 ATP binding site [chemical binding]; other site 935588003022 Walker B motif; other site 935588003023 arginine finger; other site 935588003024 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 935588003025 Methyltransferase domain; Region: Methyltransf_23; pfam13489 935588003026 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 935588003027 S-adenosylmethionine binding site [chemical binding]; other site 935588003028 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 935588003029 AAA domain; Region: AAA_30; pfam13604 935588003030 Family description; Region: UvrD_C_2; pfam13538 935588003031 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 935588003032 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935588003033 Walker A/P-loop; other site 935588003034 ATP binding site [chemical binding]; other site 935588003035 Q-loop/lid; other site 935588003036 ABC transporter signature motif; other site 935588003037 Walker B; other site 935588003038 D-loop; other site 935588003039 H-loop/switch region; other site 935588003040 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 935588003041 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935588003042 FtsX-like permease family; Region: FtsX; pfam02687 935588003043 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 935588003044 RecR protein; Region: RecR; pfam02132 935588003045 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 935588003046 putative active site [active] 935588003047 putative metal-binding site [ion binding]; other site 935588003048 tetramer interface [polypeptide binding]; other site 935588003049 SurA N-terminal domain; Region: SurA_N_3; cl07813 935588003050 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 935588003051 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 935588003052 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 935588003053 ArsC family; Region: ArsC; pfam03960 935588003054 putative catalytic residues [active] 935588003055 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 935588003056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935588003057 Walker A/P-loop; other site 935588003058 ATP binding site [chemical binding]; other site 935588003059 ABC transporter signature motif; other site 935588003060 Walker B; other site 935588003061 D-loop; other site 935588003062 H-loop/switch region; other site 935588003063 ABC transporter; Region: ABC_tran_2; pfam12848 935588003064 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935588003065 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 935588003066 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 935588003067 active site 935588003068 NTP binding site [chemical binding]; other site 935588003069 metal binding triad [ion binding]; metal-binding site 935588003070 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 935588003071 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935588003072 Zn2+ binding site [ion binding]; other site 935588003073 Mg2+ binding site [ion binding]; other site 935588003074 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 935588003075 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 935588003076 Walker A motif; other site 935588003077 ATP binding site [chemical binding]; other site 935588003078 Walker B motif; other site 935588003079 arginine finger; other site 935588003080 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 935588003081 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 935588003082 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 935588003083 substrate binding site [chemical binding]; other site 935588003084 hexamer interface [polypeptide binding]; other site 935588003085 metal binding site [ion binding]; metal-binding site 935588003086 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 935588003087 dimer interface [polypeptide binding]; other site 935588003088 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 935588003089 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 935588003090 Walker A motif; other site 935588003091 ATP binding site [chemical binding]; other site 935588003092 Walker B motif; other site 935588003093 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 935588003094 Lumazine binding domain; Region: Lum_binding; pfam00677 935588003095 Lumazine binding domain; Region: Lum_binding; pfam00677 935588003096 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 935588003097 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 935588003098 GTP binding site; other site 935588003099 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 935588003100 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 935588003101 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 935588003102 dimerization interface [polypeptide binding]; other site 935588003103 GAF domain; Region: GAF_3; pfam13492 935588003104 Histidine kinase; Region: HisKA_3; pfam07730 935588003105 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 935588003106 ATP binding site [chemical binding]; other site 935588003107 Mg2+ binding site [ion binding]; other site 935588003108 G-X-G motif; other site 935588003109 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935588003110 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 935588003111 active site 935588003112 phosphorylation site [posttranslational modification] 935588003113 intermolecular recognition site; other site 935588003114 dimerization interface [polypeptide binding]; other site 935588003115 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 935588003116 DNA binding residues [nucleotide binding] 935588003117 dimerization interface [polypeptide binding]; other site 935588003118 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 935588003119 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 935588003120 dimerization interface [polypeptide binding]; other site 935588003121 putative ATP binding site [chemical binding]; other site 935588003122 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 935588003123 dimerization interface [polypeptide binding]; other site 935588003124 active site 935588003125 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 935588003126 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 935588003127 active site 935588003128 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 935588003129 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 935588003130 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 935588003131 dimerization interface [polypeptide binding]; other site 935588003132 recombination factor protein RarA; Reviewed; Region: PRK13342 935588003133 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 935588003134 Walker A motif; other site 935588003135 ATP binding site [chemical binding]; other site 935588003136 Walker B motif; other site 935588003137 arginine finger; other site 935588003138 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 935588003139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935588003140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935588003141 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 935588003142 dimerization interface [polypeptide binding]; other site 935588003143 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 935588003144 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 935588003145 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 935588003146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588003147 catalytic residue [active] 935588003148 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 935588003149 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 935588003150 FAD binding pocket [chemical binding]; other site 935588003151 FAD binding motif [chemical binding]; other site 935588003152 phosphate binding motif [ion binding]; other site 935588003153 beta-alpha-beta structure motif; other site 935588003154 NAD binding pocket [chemical binding]; other site 935588003155 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 935588003156 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 935588003157 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 935588003158 metal-binding site [ion binding] 935588003159 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935588003160 Soluble P-type ATPase [General function prediction only]; Region: COG4087 935588003161 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 935588003162 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 935588003163 HflX GTPase family; Region: HflX; cd01878 935588003164 G1 box; other site 935588003165 GTP/Mg2+ binding site [chemical binding]; other site 935588003166 Switch I region; other site 935588003167 G2 box; other site 935588003168 G3 box; other site 935588003169 Switch II region; other site 935588003170 G4 box; other site 935588003171 G5 box; other site 935588003172 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 935588003173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 935588003174 hypothetical protein; Reviewed; Region: PRK00024 935588003175 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 935588003176 MPN+ (JAMM) motif; other site 935588003177 Zinc-binding site [ion binding]; other site 935588003178 Glutamate-cysteine ligase; Region: GshA; pfam08886 935588003179 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 935588003180 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 935588003181 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 935588003182 substrate binding site [chemical binding]; other site 935588003183 ligand binding site [chemical binding]; other site 935588003184 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 935588003185 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 935588003186 substrate binding site [chemical binding]; other site 935588003187 Domain of unknown function (DUF386); Region: DUF386; cl01047 935588003188 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 935588003189 tartrate dehydrogenase; Region: TTC; TIGR02089 935588003190 Uncharacterized conserved protein [Function unknown]; Region: COG2353 935588003191 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 935588003192 Aspartase; Region: Aspartase; cd01357 935588003193 active sites [active] 935588003194 tetramer interface [polypeptide binding]; other site 935588003195 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 935588003196 putative deacylase active site [active] 935588003197 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 935588003198 homotrimer interaction site [polypeptide binding]; other site 935588003199 putative active site [active] 935588003200 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 935588003201 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 935588003202 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 935588003203 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 935588003204 Ligand Binding Site [chemical binding]; other site 935588003205 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 935588003206 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 935588003207 substrate binding site [chemical binding]; other site 935588003208 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 935588003209 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 935588003210 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 935588003211 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 935588003212 metal binding site 2 [ion binding]; metal-binding site 935588003213 putative DNA binding helix; other site 935588003214 metal binding site 1 [ion binding]; metal-binding site 935588003215 dimer interface [polypeptide binding]; other site 935588003216 structural Zn2+ binding site [ion binding]; other site 935588003217 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 935588003218 Low molecular weight phosphatase family; Region: LMWPc; cd00115 935588003219 active site 935588003220 glycerate kinase; Region: TIGR00045 935588003221 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 935588003222 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 935588003223 S-adenosylmethionine binding site [chemical binding]; other site 935588003224 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 935588003225 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 935588003226 metal-binding site [ion binding] 935588003227 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 935588003228 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 935588003229 active site 935588003230 catalytic triad [active] 935588003231 oxyanion hole [active] 935588003232 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 935588003233 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 935588003234 active site 935588003235 oxyanion hole [active] 935588003236 catalytic triad [active] 935588003237 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 935588003238 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 935588003239 acyl-activating enzyme (AAE) consensus motif; other site 935588003240 putative AMP binding site [chemical binding]; other site 935588003241 putative active site [active] 935588003242 putative CoA binding site [chemical binding]; other site 935588003243 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 935588003244 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 935588003245 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588003246 Transglycosylase SLT domain; Region: SLT_2; pfam13406 935588003247 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 935588003248 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935588003249 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 935588003250 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 935588003251 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 935588003252 active site 935588003253 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 935588003254 DEAD-like helicases superfamily; Region: DEXDc; smart00487 935588003255 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 935588003256 ATP binding site [chemical binding]; other site 935588003257 putative Mg++ binding site [ion binding]; other site 935588003258 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 935588003259 nucleotide binding region [chemical binding]; other site 935588003260 ATP-binding site [chemical binding]; other site 935588003261 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 935588003262 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 935588003263 tetramerization interface [polypeptide binding]; other site 935588003264 active site 935588003265 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 935588003266 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 935588003267 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 935588003268 enolase; Provisional; Region: eno; PRK00077 935588003269 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 935588003270 dimer interface [polypeptide binding]; other site 935588003271 metal binding site [ion binding]; metal-binding site 935588003272 substrate binding pocket [chemical binding]; other site 935588003273 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 935588003274 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 935588003275 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 935588003276 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 935588003277 catalytic loop [active] 935588003278 iron binding site [ion binding]; other site 935588003279 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 935588003280 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 935588003281 dimer interface [polypeptide binding]; other site 935588003282 putative radical transfer pathway; other site 935588003283 diiron center [ion binding]; other site 935588003284 tyrosyl radical; other site 935588003285 Abi-like protein; Region: Abi_2; cl01988 935588003286 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 935588003287 ATP cone domain; Region: ATP-cone; pfam03477 935588003288 Class I ribonucleotide reductase; Region: RNR_I; cd01679 935588003289 active site 935588003290 dimer interface [polypeptide binding]; other site 935588003291 catalytic residues [active] 935588003292 effector binding site; other site 935588003293 R2 peptide binding site; other site 935588003294 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 935588003295 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 935588003296 putative acyl-acceptor binding pocket; other site 935588003297 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 935588003298 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 935588003299 DNA binding site [nucleotide binding] 935588003300 catalytic residue [active] 935588003301 H2TH interface [polypeptide binding]; other site 935588003302 putative catalytic residues [active] 935588003303 turnover-facilitating residue; other site 935588003304 intercalation triad [nucleotide binding]; other site 935588003305 8OG recognition residue [nucleotide binding]; other site 935588003306 putative reading head residues; other site 935588003307 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 935588003308 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 935588003309 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 935588003310 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 935588003311 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 935588003312 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935588003313 catalytic residue [active] 935588003314 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935588003315 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 935588003316 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935588003317 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 935588003318 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 935588003319 RNA binding surface [nucleotide binding]; other site 935588003320 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 935588003321 active site 935588003322 uracil binding [chemical binding]; other site 935588003323 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 935588003324 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 935588003325 CMP-binding site; other site 935588003326 The sites determining sugar specificity; other site 935588003327 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 935588003328 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 935588003329 RNA binding site [nucleotide binding]; other site 935588003330 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 935588003331 RNA binding site [nucleotide binding]; other site 935588003332 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 935588003333 RNA binding site [nucleotide binding]; other site 935588003334 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 935588003335 RNA binding site [nucleotide binding]; other site 935588003336 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 935588003337 RNA binding site [nucleotide binding]; other site 935588003338 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 935588003339 RNA binding site [nucleotide binding]; other site 935588003340 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 935588003341 IHF dimer interface [polypeptide binding]; other site 935588003342 IHF - DNA interface [nucleotide binding]; other site 935588003343 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 935588003344 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 935588003345 DNA binding residues [nucleotide binding] 935588003346 putative dimer interface [polypeptide binding]; other site 935588003347 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 935588003348 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 935588003349 substrate binding site [chemical binding]; other site 935588003350 catalytic Zn binding site [ion binding]; other site 935588003351 NAD binding site [chemical binding]; other site 935588003352 structural Zn binding site [ion binding]; other site 935588003353 dimer interface [polypeptide binding]; other site 935588003354 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 935588003355 S-formylglutathione hydrolase; Region: PLN02442 935588003356 Predicted ATPase [General function prediction only]; Region: COG1485 935588003357 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 935588003358 active site 935588003359 multimer interface [polypeptide binding]; other site 935588003360 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 935588003361 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 935588003362 FeS/SAM binding site; other site 935588003363 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 935588003364 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 935588003365 binding surface 935588003366 TPR motif; other site 935588003367 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 935588003368 TPR motif; other site 935588003369 binding surface 935588003370 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 935588003371 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 935588003372 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 935588003373 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 935588003374 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 935588003375 oligomer interface [polypeptide binding]; other site 935588003376 active site residues [active] 935588003377 trigger factor; Provisional; Region: tig; PRK01490 935588003378 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935588003379 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 935588003380 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 935588003381 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 935588003382 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 935588003383 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 935588003384 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 935588003385 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 935588003386 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 935588003387 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 935588003388 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 935588003389 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 935588003390 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 935588003391 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 935588003392 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 935588003393 generic binding surface I; other site 935588003394 generic binding surface II; other site 935588003395 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 935588003396 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 935588003397 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935588003398 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935588003399 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 935588003400 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 935588003401 metal-binding site [ion binding] 935588003402 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935588003403 Soluble P-type ATPase [General function prediction only]; Region: COG4087 935588003404 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 935588003405 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 935588003406 GIY-YIG motif/motif A; other site 935588003407 active site 935588003408 catalytic site [active] 935588003409 putative DNA binding site [nucleotide binding]; other site 935588003410 metal binding site [ion binding]; metal-binding site 935588003411 UvrB/uvrC motif; Region: UVR; pfam02151 935588003412 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 935588003413 Helix-hairpin-helix motif; Region: HHH; pfam00633 935588003414 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 935588003415 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 935588003416 Sel1-like repeats; Region: SEL1; smart00671 935588003417 Sel1-like repeats; Region: SEL1; smart00671 935588003418 Sel1-like repeats; Region: SEL1; smart00671 935588003419 Sel1-like repeats; Region: SEL1; smart00671 935588003420 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 935588003421 S-adenosylmethionine binding site [chemical binding]; other site 935588003422 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 935588003423 excinuclease ABC subunit B; Provisional; Region: PRK05298 935588003424 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 935588003425 ATP-binding site [chemical binding]; other site 935588003426 ATP binding site [chemical binding]; other site 935588003427 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 935588003428 nucleotide binding region [chemical binding]; other site 935588003429 ATP-binding site [chemical binding]; other site 935588003430 Ultra-violet resistance protein B; Region: UvrB; pfam12344 935588003431 UvrB/uvrC motif; Region: UVR; pfam02151 935588003432 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 935588003433 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 935588003434 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 935588003435 protein binding site [polypeptide binding]; other site 935588003436 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 935588003437 Catalytic dyad [active] 935588003438 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 935588003439 Peptidase family M23; Region: Peptidase_M23; pfam01551 935588003440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 935588003441 CreA protein; Region: CreA; pfam05981 935588003442 Putative transcriptional regulator [Transcription]; Region: COG1678 935588003443 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 935588003444 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 935588003445 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 935588003446 prolyl-tRNA synthetase; Provisional; Region: PRK09194 935588003447 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 935588003448 dimer interface [polypeptide binding]; other site 935588003449 motif 1; other site 935588003450 active site 935588003451 motif 2; other site 935588003452 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 935588003453 putative deacylase active site [active] 935588003454 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 935588003455 active site 935588003456 motif 3; other site 935588003457 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 935588003458 anticodon binding site; other site 935588003459 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 935588003460 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 935588003461 dimer interface [polypeptide binding]; other site 935588003462 TPP-binding site [chemical binding]; other site 935588003463 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 935588003464 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 935588003465 E3 interaction surface; other site 935588003466 lipoyl attachment site [posttranslational modification]; other site 935588003467 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 935588003468 E3 interaction surface; other site 935588003469 lipoyl attachment site [posttranslational modification]; other site 935588003470 e3 binding domain; Region: E3_binding; pfam02817 935588003471 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 935588003472 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 935588003473 E3 interaction surface; other site 935588003474 lipoyl attachment site [posttranslational modification]; other site 935588003475 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 935588003476 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 935588003477 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935588003478 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 935588003479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 935588003480 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 935588003481 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 935588003482 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 935588003483 active site 935588003484 dimerization interface [polypeptide binding]; other site 935588003485 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 935588003486 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 935588003487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 935588003488 16S rRNA methyltransferase B; Provisional; Region: PRK10901 935588003489 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 935588003490 S-adenosylmethionine binding site [chemical binding]; other site 935588003491 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 935588003492 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 935588003493 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 935588003494 NAD(P) binding site [chemical binding]; other site 935588003495 catalytic residues [active] 935588003496 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 935588003497 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 935588003498 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 935588003499 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 935588003500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 935588003501 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 935588003502 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 935588003503 GatB domain; Region: GatB_Yqey; smart00845 935588003504 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 935588003505 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 935588003506 catalytic loop [active] 935588003507 iron binding site [ion binding]; other site 935588003508 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 935588003509 FAD binding pocket [chemical binding]; other site 935588003510 FAD binding motif [chemical binding]; other site 935588003511 phosphate binding motif [ion binding]; other site 935588003512 beta-alpha-beta structure motif; other site 935588003513 NAD binding pocket [chemical binding]; other site 935588003514 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 935588003515 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 935588003516 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 935588003517 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 935588003518 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 935588003519 RNA binding surface [nucleotide binding]; other site 935588003520 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 935588003521 probable active site [active] 935588003522 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 935588003523 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 935588003524 putative substrate translocation pore; other site 935588003525 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 935588003526 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 935588003527 generic binding surface II; other site 935588003528 generic binding surface I; other site 935588003529 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 935588003530 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 935588003531 homodimer interface [polypeptide binding]; other site 935588003532 NAD binding pocket [chemical binding]; other site 935588003533 ATP binding pocket [chemical binding]; other site 935588003534 Mg binding site [ion binding]; other site 935588003535 active-site loop [active] 935588003536 Hemerythrin-like domain; Region: Hr-like; cd12108 935588003537 Fe binding site [ion binding]; other site 935588003538 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 935588003539 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935588003540 catalytic residues [active] 935588003541 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 935588003542 S-adenosylmethionine binding site [chemical binding]; other site 935588003543 helicase 45; Provisional; Region: PTZ00424 935588003544 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 935588003545 ATP binding site [chemical binding]; other site 935588003546 Mg++ binding site [ion binding]; other site 935588003547 motif III; other site 935588003548 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 935588003549 nucleotide binding region [chemical binding]; other site 935588003550 ATP-binding site [chemical binding]; other site 935588003551 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 935588003552 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 935588003553 inhibitor-cofactor binding pocket; inhibition site 935588003554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588003555 catalytic residue [active] 935588003556 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 935588003557 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 935588003558 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 935588003559 Walker A motif; other site 935588003560 ATP binding site [chemical binding]; other site 935588003561 Walker B motif; other site 935588003562 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 935588003563 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 935588003564 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 935588003565 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 935588003566 RNA binding site [nucleotide binding]; other site 935588003567 active site 935588003568 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 935588003569 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 935588003570 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 935588003571 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 935588003572 phosphate binding site [ion binding]; other site 935588003573 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 935588003574 Rrf2 family protein; Region: rrf2_super; TIGR00738 935588003575 cysteine desulfurase; Provisional; Region: PRK14012 935588003576 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 935588003577 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935588003578 catalytic residue [active] 935588003579 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 935588003580 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 935588003581 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 935588003582 trimerization site [polypeptide binding]; other site 935588003583 active site 935588003584 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 935588003585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 935588003586 co-chaperone HscB; Provisional; Region: hscB; PRK03578 935588003587 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 935588003588 HSP70 interaction site [polypeptide binding]; other site 935588003589 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 935588003590 DNA gyrase subunit A; Validated; Region: PRK05560 935588003591 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 935588003592 CAP-like domain; other site 935588003593 active site 935588003594 primary dimer interface [polypeptide binding]; other site 935588003595 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935588003596 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935588003597 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935588003598 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935588003599 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935588003600 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 935588003601 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 935588003602 active site 935588003603 dimer interface [polypeptide binding]; other site 935588003604 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 935588003605 dimer interface [polypeptide binding]; other site 935588003606 active site 935588003607 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 935588003608 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935588003609 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 935588003610 putative active site [active] 935588003611 glucokinase; Provisional; Region: glk; PRK00292 935588003612 glucokinase, proteobacterial type; Region: glk; TIGR00749 935588003613 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 935588003614 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 935588003615 putative active site [active] 935588003616 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 935588003617 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 935588003618 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 935588003619 phosphogluconate dehydratase; Validated; Region: PRK09054 935588003620 6-phosphogluconate dehydratase; Region: edd; TIGR01196 935588003621 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 935588003622 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 935588003623 active site 935588003624 intersubunit interface [polypeptide binding]; other site 935588003625 catalytic residue [active] 935588003626 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 935588003627 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 935588003628 minor groove reading motif; other site 935588003629 helix-hairpin-helix signature motif; other site 935588003630 substrate binding pocket [chemical binding]; other site 935588003631 active site 935588003632 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 935588003633 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 935588003634 DNA binding and oxoG recognition site [nucleotide binding] 935588003635 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 935588003636 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 935588003637 E-class dimer interface [polypeptide binding]; other site 935588003638 P-class dimer interface [polypeptide binding]; other site 935588003639 active site 935588003640 Cu2+ binding site [ion binding]; other site 935588003641 Zn2+ binding site [ion binding]; other site 935588003642 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935588003643 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588003644 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 935588003645 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 935588003646 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935588003647 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 935588003648 Walker A/P-loop; other site 935588003649 ATP binding site [chemical binding]; other site 935588003650 Q-loop/lid; other site 935588003651 ABC transporter signature motif; other site 935588003652 Walker B; other site 935588003653 D-loop; other site 935588003654 H-loop/switch region; other site 935588003655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588003656 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935588003657 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935588003658 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935588003659 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935588003660 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935588003661 aminopeptidase N; Provisional; Region: pepN; PRK14015 935588003662 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 935588003663 active site 935588003664 Zn binding site [ion binding]; other site 935588003665 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 935588003666 active site 935588003667 catalytic site [active] 935588003668 substrate binding site [chemical binding]; other site 935588003669 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 935588003670 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 935588003671 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935588003672 putative acyl-acceptor binding pocket; other site 935588003673 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 935588003674 active site 935588003675 putative DNA-binding cleft [nucleotide binding]; other site 935588003676 dimer interface [polypeptide binding]; other site 935588003677 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 935588003678 DNA-binding protein Fis; Provisional; Region: PRK01905 935588003679 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 935588003680 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 935588003681 FMN binding site [chemical binding]; other site 935588003682 active site 935588003683 catalytic residues [active] 935588003684 substrate binding site [chemical binding]; other site 935588003685 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 935588003686 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 935588003687 ATP binding site [chemical binding]; other site 935588003688 Mg++ binding site [ion binding]; other site 935588003689 motif III; other site 935588003690 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 935588003691 nucleotide binding region [chemical binding]; other site 935588003692 ATP-binding site [chemical binding]; other site 935588003693 Transposase domain (DUF772); Region: DUF772; pfam05598 935588003694 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588003695 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588003696 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 935588003697 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588003698 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588003699 Homeodomain-like domain; Region: HTH_32; pfam13565 935588003700 Integrase core domain; Region: rve; pfam00665 935588003701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 935588003702 Transposase domain (DUF772); Region: DUF772; pfam05598 935588003703 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588003704 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588003705 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 935588003706 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 935588003707 dimer interface [polypeptide binding]; other site 935588003708 putative anticodon binding site; other site 935588003709 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 935588003710 motif 1; other site 935588003711 active site 935588003712 motif 2; other site 935588003713 motif 3; other site 935588003714 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 935588003715 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 935588003716 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 935588003717 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 935588003718 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 935588003719 active site 935588003720 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 935588003721 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 935588003722 eyelet of channel; other site 935588003723 trimer interface [polypeptide binding]; other site 935588003724 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 935588003725 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 935588003726 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 935588003727 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 935588003728 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 935588003729 hinge; other site 935588003730 active site 935588003731 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935588003732 NlpC/P60 family; Region: NLPC_P60; pfam00877 935588003733 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 935588003734 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 935588003735 putative active site [active] 935588003736 catalytic site [active] 935588003737 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 935588003738 putative active site [active] 935588003739 catalytic site [active] 935588003740 putative transporter; Provisional; Region: PRK10504 935588003741 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 935588003742 putative substrate translocation pore; other site 935588003743 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 935588003744 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 935588003745 Cysteine-rich domain; Region: CCG; pfam02754 935588003746 Cysteine-rich domain; Region: CCG; pfam02754 935588003747 Uncharacterized conserved protein [Function unknown]; Region: COG1556 935588003748 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 935588003749 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 935588003750 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 935588003751 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 935588003752 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 935588003753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 935588003754 Tetratricopeptide repeat; Region: TPR_6; pfam13174 935588003755 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 935588003756 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 935588003757 S-adenosylmethionine binding site [chemical binding]; other site 935588003758 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 935588003759 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 935588003760 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 935588003761 ATP binding site [chemical binding]; other site 935588003762 Mg2+ binding site [ion binding]; other site 935588003763 G-X-G motif; other site 935588003764 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 935588003765 ATP binding site [chemical binding]; other site 935588003766 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 935588003767 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 935588003768 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 935588003769 Walker A motif; other site 935588003770 ATP binding site [chemical binding]; other site 935588003771 Walker B motif; other site 935588003772 arginine finger; other site 935588003773 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 935588003774 hypothetical protein; Validated; Region: PRK00153 935588003775 recombinase A; Provisional; Region: recA; PRK09354 935588003776 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 935588003777 hexamer interface [polypeptide binding]; other site 935588003778 Walker A motif; other site 935588003779 ATP binding site [chemical binding]; other site 935588003780 Walker B motif; other site 935588003781 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 935588003782 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 935588003783 active site 935588003784 catalytic residue [active] 935588003785 dimer interface [polypeptide binding]; other site 935588003786 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 935588003787 Family description; Region: UvrD_C_2; pfam13538 935588003788 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 935588003789 active site 935588003790 DNA polymerase IV; Validated; Region: PRK02406 935588003791 DNA binding site [nucleotide binding] 935588003792 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 935588003793 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 935588003794 FAD binding pocket [chemical binding]; other site 935588003795 FAD binding motif [chemical binding]; other site 935588003796 phosphate binding motif [ion binding]; other site 935588003797 beta-alpha-beta structure motif; other site 935588003798 NAD binding pocket [chemical binding]; other site 935588003799 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 935588003800 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 935588003801 active site 935588003802 catalytic site [active] 935588003803 substrate binding site [chemical binding]; other site 935588003804 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 935588003805 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 935588003806 FMN binding site [chemical binding]; other site 935588003807 substrate binding site [chemical binding]; other site 935588003808 putative catalytic residue [active] 935588003809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 935588003810 FixH; Region: FixH; pfam05751 935588003811 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 935588003812 4Fe-4S binding domain; Region: Fer4_5; pfam12801 935588003813 4Fe-4S binding domain; Region: Fer4_3; pfam12798 935588003814 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 935588003815 transketolase; Reviewed; Region: PRK12753 935588003816 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 935588003817 TPP-binding site [chemical binding]; other site 935588003818 dimer interface [polypeptide binding]; other site 935588003819 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 935588003820 PYR/PP interface [polypeptide binding]; other site 935588003821 dimer interface [polypeptide binding]; other site 935588003822 TPP binding site [chemical binding]; other site 935588003823 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935588003824 fumarate hydratase; Reviewed; Region: fumC; PRK00485 935588003825 Class II fumarases; Region: Fumarase_classII; cd01362 935588003826 active site 935588003827 tetramer interface [polypeptide binding]; other site 935588003828 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935588003829 EamA-like transporter family; Region: EamA; pfam00892 935588003830 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 935588003831 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 935588003832 dimer interface [polypeptide binding]; other site 935588003833 ssDNA binding site [nucleotide binding]; other site 935588003834 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935588003835 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 935588003836 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935588003837 putative substrate translocation pore; other site 935588003838 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 935588003839 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 935588003840 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935588003841 catalytic residue [active] 935588003842 DDE superfamily endonuclease; Region: DDE_4; cl17710 935588003843 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 935588003844 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 935588003845 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 935588003846 Protein of unknown function (DUF560); Region: DUF560; pfam04575 935588003847 Transposase domain (DUF772); Region: DUF772; pfam05598 935588003848 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588003849 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588003850 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 935588003851 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 935588003852 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 935588003853 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 935588003854 active site 935588003855 HIGH motif; other site 935588003856 dimer interface [polypeptide binding]; other site 935588003857 KMSKS motif; other site 935588003858 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 935588003859 Clp amino terminal domain; Region: Clp_N; pfam02861 935588003860 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 935588003861 Walker A motif; other site 935588003862 ATP binding site [chemical binding]; other site 935588003863 Walker B motif; other site 935588003864 arginine finger; other site 935588003865 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 935588003866 Walker A motif; other site 935588003867 ATP binding site [chemical binding]; other site 935588003868 Walker B motif; other site 935588003869 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 935588003870 aminotransferase AlaT; Validated; Region: PRK09265 935588003871 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 935588003872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588003873 homodimer interface [polypeptide binding]; other site 935588003874 catalytic residue [active] 935588003875 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 935588003876 active site 1 [active] 935588003877 dimer interface [polypeptide binding]; other site 935588003878 hexamer interface [polypeptide binding]; other site 935588003879 active site 2 [active] 935588003880 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 935588003881 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 935588003882 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 935588003883 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 935588003884 NAD(P) binding site [chemical binding]; other site 935588003885 phosphoglycolate phosphatase; Provisional; Region: PRK13222 935588003886 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 935588003887 motif II; other site 935588003888 recombination regulator RecX; Reviewed; Region: recX; PRK00117 935588003889 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 935588003890 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935588003891 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935588003892 Peptidase family M23; Region: Peptidase_M23; pfam01551 935588003893 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 935588003894 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 935588003895 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 935588003896 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 935588003897 Transporter associated domain; Region: CorC_HlyC; smart01091 935588003898 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 935588003899 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 935588003900 tetramerization interface [polypeptide binding]; other site 935588003901 NAD(P) binding site [chemical binding]; other site 935588003902 catalytic residues [active] 935588003903 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 935588003904 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cl00341 935588003905 3-fold/trimer interface [polypeptide binding]; other site 935588003906 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 935588003907 carbon starvation protein A; Provisional; Region: PRK15015 935588003908 Carbon starvation protein CstA; Region: CstA; pfam02554 935588003909 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 935588003910 Uncharacterized small protein [Function unknown]; Region: COG2879 935588003911 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 935588003912 pseudouridine synthase; Region: TIGR00093 935588003913 probable active site [active] 935588003914 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 935588003915 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 935588003916 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 935588003917 aspartate kinase; Reviewed; Region: PRK06635 935588003918 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 935588003919 putative nucleotide binding site [chemical binding]; other site 935588003920 putative catalytic residues [active] 935588003921 putative Mg ion binding site [ion binding]; other site 935588003922 putative aspartate binding site [chemical binding]; other site 935588003923 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 935588003924 putative allosteric regulatory site; other site 935588003925 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 935588003926 ribonuclease PH; Reviewed; Region: rph; PRK00173 935588003927 Ribonuclease PH; Region: RNase_PH_bact; cd11362 935588003928 hexamer interface [polypeptide binding]; other site 935588003929 active site 935588003930 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 935588003931 Ligand Binding Site [chemical binding]; other site 935588003932 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 935588003933 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 935588003934 putative ATP binding site [chemical binding]; other site 935588003935 putative substrate interface [chemical binding]; other site 935588003936 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 935588003937 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 935588003938 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 935588003939 active site 935588003940 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 935588003941 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 935588003942 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 935588003943 active site 935588003944 HIGH motif; other site 935588003945 KMSK motif region; other site 935588003946 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 935588003947 tRNA binding surface [nucleotide binding]; other site 935588003948 anticodon binding site; other site 935588003949 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 935588003950 Sulfatase; Region: Sulfatase; cl17466 935588003951 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 935588003952 dimer interface [polypeptide binding]; other site 935588003953 conserved gate region; other site 935588003954 putative PBP binding loops; other site 935588003955 ABC-ATPase subunit interface; other site 935588003956 Staphylococcal nuclease homologues; Region: SNc; smart00318 935588003957 Catalytic site; other site 935588003958 Staphylococcal nuclease homologue; Region: SNase; pfam00565 935588003959 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 935588003960 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935588003961 active site 935588003962 dimer interface [polypeptide binding]; other site 935588003963 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 935588003964 homotrimer interaction site [polypeptide binding]; other site 935588003965 zinc binding site [ion binding]; other site 935588003966 CDP-binding sites; other site 935588003967 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 935588003968 substrate binding site; other site 935588003969 dimer interface; other site 935588003970 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 935588003971 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 935588003972 active site 935588003973 catalytic site [active] 935588003974 substrate binding site [chemical binding]; other site 935588003975 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935588003976 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 935588003977 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 935588003978 propionate/acetate kinase; Provisional; Region: PRK12379 935588003979 Transposase domain (DUF772); Region: DUF772; pfam05598 935588003980 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588003981 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588003982 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 935588003983 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 935588003984 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 935588003985 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 935588003986 DsbD alpha interface [polypeptide binding]; other site 935588003987 catalytic residues [active] 935588003988 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 935588003989 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 935588003990 active site lid residues [active] 935588003991 substrate binding pocket [chemical binding]; other site 935588003992 catalytic residues [active] 935588003993 substrate-Mg2+ binding site; other site 935588003994 aspartate-rich region 1; other site 935588003995 aspartate-rich region 2; other site 935588003996 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 935588003997 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935588003998 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 935588003999 FAD binding domain; Region: FAD_binding_4; pfam01565 935588004000 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 935588004001 SmpB-tmRNA interface; other site 935588004002 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 935588004003 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 935588004004 putative active site [active] 935588004005 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 935588004006 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 935588004007 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 935588004008 DNA binding site [nucleotide binding] 935588004009 active site 935588004010 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 935588004011 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 935588004012 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 935588004013 metal binding site [ion binding]; metal-binding site 935588004014 dimer interface [polypeptide binding]; other site 935588004015 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 935588004016 Hemerythrin-like domain; Region: Hr-like; cd12108 935588004017 Fe binding site [ion binding]; other site 935588004018 Azurin [Energy production and conversion]; Region: COG3241 935588004019 Protein of unknown function (DUF721); Region: DUF721; pfam05258 935588004020 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 935588004021 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 935588004022 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 935588004023 SEC-C motif; Region: SEC-C; pfam02810 935588004024 DNA primase; Validated; Region: dnaG; PRK05667 935588004025 CHC2 zinc finger; Region: zf-CHC2; pfam01807 935588004026 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 935588004027 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 935588004028 active site 935588004029 metal binding site [ion binding]; metal-binding site 935588004030 interdomain interaction site; other site 935588004031 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 935588004032 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 935588004033 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 935588004034 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 935588004035 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 935588004036 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 935588004037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935588004038 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 935588004039 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 935588004040 DNA binding residues [nucleotide binding] 935588004041 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 935588004042 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 935588004043 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 935588004044 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 935588004045 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 935588004046 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 935588004047 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935588004048 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588004049 CTP synthetase; Validated; Region: pyrG; PRK05380 935588004050 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 935588004051 Catalytic site [active] 935588004052 active site 935588004053 UTP binding site [chemical binding]; other site 935588004054 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 935588004055 active site 935588004056 putative oxyanion hole; other site 935588004057 catalytic triad [active] 935588004058 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 935588004059 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 935588004060 acyl-activating enzyme (AAE) consensus motif; other site 935588004061 putative AMP binding site [chemical binding]; other site 935588004062 putative active site [active] 935588004063 putative CoA binding site [chemical binding]; other site 935588004064 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 935588004065 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 935588004066 Ligand Binding Site [chemical binding]; other site 935588004067 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 935588004068 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 935588004069 glutathione synthetase; Provisional; Region: PRK05246 935588004070 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 935588004071 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 935588004072 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 935588004073 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935588004074 active site 935588004075 HIGH motif; other site 935588004076 nucleotide binding site [chemical binding]; other site 935588004077 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 935588004078 KMSKS motif; other site 935588004079 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 935588004080 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935588004081 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 935588004082 putative DNA binding site [nucleotide binding]; other site 935588004083 putative Zn2+ binding site [ion binding]; other site 935588004084 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935588004085 Predicted membrane protein [Function unknown]; Region: COG2431 935588004086 Transcriptional regulators [Transcription]; Region: GntR; COG1802 935588004087 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935588004088 DNA-binding site [nucleotide binding]; DNA binding site 935588004089 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 935588004090 OsmC-like protein; Region: OsmC; cl00767 935588004091 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 935588004092 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 935588004093 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 935588004094 active site 935588004095 substrate binding site [chemical binding]; other site 935588004096 cosubstrate binding site; other site 935588004097 catalytic site [active] 935588004098 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 935588004099 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 935588004100 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935588004101 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 935588004102 multifunctional aminopeptidase A; Provisional; Region: PRK00913 935588004103 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 935588004104 interface (dimer of trimers) [polypeptide binding]; other site 935588004105 Substrate-binding/catalytic site; other site 935588004106 Zn-binding sites [ion binding]; other site 935588004107 Predicted permeases [General function prediction only]; Region: COG0795 935588004108 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 935588004109 Predicted permeases [General function prediction only]; Region: COG0795 935588004110 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 935588004111 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 935588004112 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 935588004113 substrate binding site [chemical binding]; other site 935588004114 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 935588004115 substrate binding site [chemical binding]; other site 935588004116 ligand binding site [chemical binding]; other site 935588004117 ornithine carbamoyltransferase; Validated; Region: PRK02102 935588004118 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 935588004119 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 935588004120 ketol-acid reductoisomerase; Provisional; Region: PRK05479 935588004121 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 935588004122 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 935588004123 Uncharacterized conserved protein [Function unknown]; Region: COG1359 935588004124 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 935588004125 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 935588004126 putative valine binding site [chemical binding]; other site 935588004127 dimer interface [polypeptide binding]; other site 935588004128 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 935588004129 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 935588004130 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 935588004131 PYR/PP interface [polypeptide binding]; other site 935588004132 dimer interface [polypeptide binding]; other site 935588004133 TPP binding site [chemical binding]; other site 935588004134 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935588004135 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 935588004136 TPP-binding site [chemical binding]; other site 935588004137 dimer interface [polypeptide binding]; other site 935588004138 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 935588004139 Toprim domain; Region: Toprim_3; pfam13362 935588004140 Predicted transcriptional regulator [Transcription]; Region: COG2944 935588004141 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 935588004142 non-specific DNA binding site [nucleotide binding]; other site 935588004143 salt bridge; other site 935588004144 sequence-specific DNA binding site [nucleotide binding]; other site 935588004145 Helix-turn-helix domain; Region: HTH_39; pfam14090 935588004146 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 935588004147 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 935588004148 oligomeric interface; other site 935588004149 putative active site [active] 935588004150 homodimer interface [polypeptide binding]; other site 935588004151 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 935588004152 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 935588004153 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 935588004154 active site 935588004155 Int/Topo IB signature motif; other site 935588004156 Transposase domain (DUF772); Region: DUF772; pfam05598 935588004157 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588004158 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588004159 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 935588004160 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935588004161 Cu(I) binding site [ion binding]; other site 935588004162 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 935588004163 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 935588004164 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 935588004165 GIY-YIG motif/motif A; other site 935588004166 putative active site [active] 935588004167 putative metal binding site [ion binding]; other site 935588004168 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 935588004169 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 935588004170 NAD binding site [chemical binding]; other site 935588004171 dimerization interface [polypeptide binding]; other site 935588004172 product binding site; other site 935588004173 substrate binding site [chemical binding]; other site 935588004174 zinc binding site [ion binding]; other site 935588004175 catalytic residues [active] 935588004176 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 935588004177 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 935588004178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588004179 homodimer interface [polypeptide binding]; other site 935588004180 catalytic residue [active] 935588004181 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 935588004182 putative active site pocket [active] 935588004183 4-fold oligomerization interface [polypeptide binding]; other site 935588004184 metal binding residues [ion binding]; metal-binding site 935588004185 3-fold/trimer interface [polypeptide binding]; other site 935588004186 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 935588004187 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 935588004188 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935588004189 MarR family; Region: MarR_2; pfam12802 935588004190 Transcriptional regulator PadR-like family; Region: PadR; cl17335 935588004191 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 935588004192 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 935588004193 putative inner membrane peptidase; Provisional; Region: PRK11778 935588004194 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 935588004195 tandem repeat interface [polypeptide binding]; other site 935588004196 oligomer interface [polypeptide binding]; other site 935588004197 active site residues [active] 935588004198 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 935588004199 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 935588004200 Cupin; Region: Cupin_6; pfam12852 935588004201 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935588004202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935588004203 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 935588004204 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935588004205 EamA-like transporter family; Region: EamA; pfam00892 935588004206 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 935588004207 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 935588004208 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 935588004209 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 935588004210 motif 1; other site 935588004211 active site 935588004212 motif 2; other site 935588004213 motif 3; other site 935588004214 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 935588004215 DHHA1 domain; Region: DHHA1; pfam02272 935588004216 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935588004217 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 935588004218 cofactor binding site; other site 935588004219 DNA binding site [nucleotide binding] 935588004220 substrate interaction site [chemical binding]; other site 935588004221 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 935588004222 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 935588004223 gating phenylalanine in ion channel; other site 935588004224 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 935588004225 catalytic core [active] 935588004226 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 935588004227 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 935588004228 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 935588004229 CAP-like domain; other site 935588004230 active site 935588004231 primary dimer interface [polypeptide binding]; other site 935588004232 Predicted permeases [General function prediction only]; Region: COG0730 935588004233 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 935588004234 dimer interface [polypeptide binding]; other site 935588004235 phosphorylation site [posttranslational modification] 935588004236 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 935588004237 Mg2+ binding site [ion binding]; other site 935588004238 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 935588004239 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 935588004240 active site 935588004241 phosphorylation site [posttranslational modification] 935588004242 intermolecular recognition site; other site 935588004243 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 935588004244 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 935588004245 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 935588004246 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 935588004247 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 935588004248 homodimer interface [polypeptide binding]; other site 935588004249 substrate-cofactor binding pocket; other site 935588004250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588004251 catalytic residue [active] 935588004252 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 935588004253 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935588004254 substrate binding pocket [chemical binding]; other site 935588004255 membrane-bound complex binding site; other site 935588004256 hinge residues; other site 935588004257 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 935588004258 Fumarase C-terminus; Region: Fumerase_C; pfam05683 935588004259 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 935588004260 TrkA-N domain; Region: TrkA_N; pfam02254 935588004261 TrkA-C domain; Region: TrkA_C; pfam02080 935588004262 TrkA-N domain; Region: TrkA_N; pfam02254 935588004263 TrkA-C domain; Region: TrkA_C; pfam02080 935588004264 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588004265 Winged helix-turn helix; Region: HTH_29; pfam13551 935588004266 Homeodomain-like domain; Region: HTH_32; pfam13565 935588004267 Integrase core domain; Region: rve; pfam00665 935588004268 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 935588004269 dimer interface [polypeptide binding]; other site 935588004270 substrate binding site [chemical binding]; other site 935588004271 ATP binding site [chemical binding]; other site 935588004272 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 935588004273 tellurite resistance protein TehB; Provisional; Region: PRK12335 935588004274 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 935588004275 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 935588004276 RNA/DNA hybrid binding site [nucleotide binding]; other site 935588004277 active site 935588004278 HIT domain; Region: HIT; pfam01230 935588004279 nucleotide binding site/active site [active] 935588004280 HIT family signature motif; other site 935588004281 catalytic residue [active] 935588004282 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 935588004283 dimer interface [polypeptide binding]; other site 935588004284 catalytic triad [active] 935588004285 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 935588004286 catalytic residues [active] 935588004287 dimer interface [polypeptide binding]; other site 935588004288 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 935588004289 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 935588004290 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 935588004291 Multicopper oxidase; Region: Cu-oxidase; pfam00394 935588004292 Uncharacterized conserved protein [Function unknown]; Region: COG1262 935588004293 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 935588004294 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 935588004295 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 935588004296 putative FMN binding site [chemical binding]; other site 935588004297 putative metal dependent hydrolase; Provisional; Region: PRK11598 935588004298 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 935588004299 Sulfatase; Region: Sulfatase; pfam00884 935588004300 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 935588004301 homodimer interface [polypeptide binding]; other site 935588004302 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 935588004303 substrate-cofactor binding pocket; other site 935588004304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588004305 catalytic residue [active] 935588004306 ribosome maturation protein RimP; Reviewed; Region: PRK00092 935588004307 Sm and related proteins; Region: Sm_like; cl00259 935588004308 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 935588004309 putative oligomer interface [polypeptide binding]; other site 935588004310 putative RNA binding site [nucleotide binding]; other site 935588004311 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 935588004312 NusA N-terminal domain; Region: NusA_N; pfam08529 935588004313 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 935588004314 RNA binding site [nucleotide binding]; other site 935588004315 homodimer interface [polypeptide binding]; other site 935588004316 NusA-like KH domain; Region: KH_5; pfam13184 935588004317 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 935588004318 G-X-X-G motif; other site 935588004319 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 935588004320 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 935588004321 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 935588004322 translation initiation factor IF-2; Region: IF-2; TIGR00487 935588004323 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 935588004324 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 935588004325 G1 box; other site 935588004326 putative GEF interaction site [polypeptide binding]; other site 935588004327 GTP/Mg2+ binding site [chemical binding]; other site 935588004328 Switch I region; other site 935588004329 G2 box; other site 935588004330 G3 box; other site 935588004331 Switch II region; other site 935588004332 G4 box; other site 935588004333 G5 box; other site 935588004334 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 935588004335 Translation-initiation factor 2; Region: IF-2; pfam11987 935588004336 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 935588004337 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 935588004338 G1 box; other site 935588004339 GTP/Mg2+ binding site [chemical binding]; other site 935588004340 G2 box; other site 935588004341 Switch I region; other site 935588004342 G3 box; other site 935588004343 Switch II region; other site 935588004344 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 935588004345 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 935588004346 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 935588004347 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 935588004348 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 935588004349 amino acid carrier protein; Region: agcS; TIGR00835 935588004350 hypothetical protein; Validated; Region: PRK00110 935588004351 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 935588004352 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 935588004353 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 935588004354 putative DNA binding site [nucleotide binding]; other site 935588004355 putative Zn2+ binding site [ion binding]; other site 935588004356 AsnC family; Region: AsnC_trans_reg; pfam01037 935588004357 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 935588004358 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 935588004359 active site 935588004360 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935588004361 substrate binding site [chemical binding]; other site 935588004362 catalytic residues [active] 935588004363 dimer interface [polypeptide binding]; other site 935588004364 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 935588004365 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 935588004366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 935588004367 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 935588004368 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 935588004369 S-adenosylmethionine binding site [chemical binding]; other site 935588004370 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 935588004371 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 935588004372 Transposase domain (DUF772); Region: DUF772; pfam05598 935588004373 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588004374 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588004375 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 935588004376 Flavoprotein; Region: Flavoprotein; pfam02441 935588004377 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 935588004378 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 935588004379 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935588004380 Zn2+ binding site [ion binding]; other site 935588004381 Mg2+ binding site [ion binding]; other site 935588004382 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 935588004383 synthetase active site [active] 935588004384 NTP binding site [chemical binding]; other site 935588004385 metal binding site [ion binding]; metal-binding site 935588004386 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 935588004387 ACT domain; Region: ACT_4; pfam13291 935588004388 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 935588004389 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 935588004390 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 935588004391 catalytic site [active] 935588004392 G-X2-G-X-G-K; other site 935588004393 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935588004394 active site 935588004395 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 935588004396 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 935588004397 active site 935588004398 motif I; other site 935588004399 motif II; other site 935588004400 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 935588004401 putative protease; Provisional; Region: PRK15452 935588004402 Peptidase family U32; Region: Peptidase_U32; pfam01136 935588004403 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 935588004404 putative active site [active] 935588004405 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 935588004406 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 935588004407 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 935588004408 N-terminal plug; other site 935588004409 ligand-binding site [chemical binding]; other site 935588004410 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 935588004411 heme binding pocket [chemical binding]; other site 935588004412 heme ligand [chemical binding]; other site 935588004413 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 935588004414 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 935588004415 Paraquat-inducible protein A; Region: PqiA; pfam04403 935588004416 Paraquat-inducible protein A; Region: PqiA; pfam04403 935588004417 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 935588004418 mce related protein; Region: MCE; pfam02470 935588004419 mce related protein; Region: MCE; pfam02470 935588004420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 935588004421 Protein of unknown function (DUF330); Region: DUF330; pfam03886 935588004422 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 935588004423 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 935588004424 active site 935588004425 catalytic triad [active] 935588004426 oxyanion hole [active] 935588004427 switch loop; other site 935588004428 glycine dehydrogenase; Provisional; Region: PRK05367 935588004429 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 935588004430 tetramer interface [polypeptide binding]; other site 935588004431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588004432 catalytic residue [active] 935588004433 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 935588004434 tetramer interface [polypeptide binding]; other site 935588004435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588004436 catalytic residue [active] 935588004437 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 935588004438 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 935588004439 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 935588004440 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 935588004441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588004442 homodimer interface [polypeptide binding]; other site 935588004443 catalytic residue [active] 935588004444 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 935588004445 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 935588004446 S-adenosylmethionine binding site [chemical binding]; other site 935588004447 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 935588004448 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 935588004449 Tetramer interface [polypeptide binding]; other site 935588004450 active site 935588004451 FMN-binding site [chemical binding]; other site 935588004452 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 935588004453 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 935588004454 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 935588004455 ATP binding site [chemical binding]; other site 935588004456 Mg2+ binding site [ion binding]; other site 935588004457 G-X-G motif; other site 935588004458 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 935588004459 anchoring element; other site 935588004460 dimer interface [polypeptide binding]; other site 935588004461 ATP binding site [chemical binding]; other site 935588004462 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 935588004463 active site 935588004464 metal binding site [ion binding]; metal-binding site 935588004465 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 935588004466 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 935588004467 putative active site [active] 935588004468 Ap4A binding site [chemical binding]; other site 935588004469 nudix motif; other site 935588004470 putative metal binding site [ion binding]; other site 935588004471 seryl-tRNA synthetase; Provisional; Region: PRK05431 935588004472 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 935588004473 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 935588004474 dimer interface [polypeptide binding]; other site 935588004475 active site 935588004476 motif 1; other site 935588004477 motif 2; other site 935588004478 motif 3; other site 935588004479 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 935588004480 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 935588004481 putative ligand binding site [chemical binding]; other site 935588004482 putative NAD binding site [chemical binding]; other site 935588004483 catalytic site [active] 935588004484 peptide chain release factor 1; Validated; Region: prfA; PRK00591 935588004485 This domain is found in peptide chain release factors; Region: PCRF; smart00937 935588004486 RF-1 domain; Region: RF-1; pfam00472 935588004487 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 935588004488 active site 935588004489 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 935588004490 active site 935588004491 homodimer interface [polypeptide binding]; other site 935588004492 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935588004493 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 935588004494 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 935588004495 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 935588004496 active site 935588004497 substrate binding site [chemical binding]; other site 935588004498 metal binding site [ion binding]; metal-binding site 935588004499 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 935588004500 dihydropteroate synthase; Region: DHPS; TIGR01496 935588004501 substrate binding pocket [chemical binding]; other site 935588004502 dimer interface [polypeptide binding]; other site 935588004503 inhibitor binding site; inhibition site 935588004504 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 935588004505 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 935588004506 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 935588004507 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 935588004508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 935588004509 Predicted membrane protein [Function unknown]; Region: COG4648 935588004510 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 935588004511 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588004512 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 935588004513 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 935588004514 dimer interface [polypeptide binding]; other site 935588004515 active site 935588004516 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 935588004517 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 935588004518 putative metal binding site; other site 935588004519 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935588004520 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 935588004521 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 935588004522 Na2 binding site [ion binding]; other site 935588004523 putative substrate binding site 1 [chemical binding]; other site 935588004524 Na binding site 1 [ion binding]; other site 935588004525 putative substrate binding site 2 [chemical binding]; other site 935588004526 ApbE family; Region: ApbE; pfam02424 935588004527 thymidylate synthase; Reviewed; Region: thyA; PRK01827 935588004528 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 935588004529 dimerization interface [polypeptide binding]; other site 935588004530 active site 935588004531 glutamate dehydrogenase; Provisional; Region: PRK09414 935588004532 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 935588004533 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 935588004534 NAD(P) binding site [chemical binding]; other site 935588004535 Transcriptional regulators [Transcription]; Region: FadR; COG2186 935588004536 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935588004537 DNA-binding site [nucleotide binding]; DNA binding site 935588004538 FCD domain; Region: FCD; pfam07729 935588004539 L-lactate permease; Region: Lactate_perm; cl00701 935588004540 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 935588004541 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 935588004542 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 935588004543 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935588004544 HlyD family secretion protein; Region: HlyD_3; pfam13437 935588004545 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 935588004546 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935588004547 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 935588004548 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 935588004549 AbgT putative transporter family; Region: ABG_transport; pfam03806 935588004550 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 935588004551 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 935588004552 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 935588004553 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 935588004554 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 935588004555 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 935588004556 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 935588004557 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 935588004558 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 935588004559 Low-spin heme binding site [chemical binding]; other site 935588004560 Putative water exit pathway; other site 935588004561 Binuclear center (active site) [active] 935588004562 Putative proton exit pathway; other site 935588004563 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 935588004564 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 935588004565 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 935588004566 protein binding site [polypeptide binding]; other site 935588004567 TIGR01244 family protein; Region: TIGR01244 935588004568 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 935588004569 TolR protein; Region: tolR; TIGR02801 935588004570 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 935588004571 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 935588004572 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 935588004573 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 935588004574 Peptidase family M50; Region: Peptidase_M50; pfam02163 935588004575 active site 935588004576 putative substrate binding region [chemical binding]; other site 935588004577 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 935588004578 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 935588004579 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 935588004580 C-terminal domain interface [polypeptide binding]; other site 935588004581 GSH binding site (G-site) [chemical binding]; other site 935588004582 catalytic residues [active] 935588004583 putative dimer interface [polypeptide binding]; other site 935588004584 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 935588004585 N-terminal domain interface [polypeptide binding]; other site 935588004586 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 935588004587 HD domain; Region: HD_4; pfam13328 935588004588 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 935588004589 synthetase active site [active] 935588004590 NTP binding site [chemical binding]; other site 935588004591 metal binding site [ion binding]; metal-binding site 935588004592 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 935588004593 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 935588004594 Transposase; Region: HTH_Tnp_IS630; pfam01710 935588004595 Helix-turn-helix domain; Region: HTH_28; pfam13518 935588004596 DDE superfamily endonuclease; Region: DDE_3; pfam13358 935588004597 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 935588004598 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 935588004599 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 935588004600 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935588004601 HlyD family secretion protein; Region: HlyD_3; pfam13437 935588004602 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 935588004603 Transposase domain (DUF772); Region: DUF772; pfam05598 935588004604 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588004605 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588004606 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588004607 Integrase core domain; Region: rve; pfam00665 935588004608 Integrase core domain; Region: rve_2; pfam13333 935588004609 Helix-turn-helix domain; Region: HTH_28; pfam13518 935588004610 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588004611 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588004612 Homeodomain-like domain; Region: HTH_32; pfam13565 935588004613 Integrase core domain; Region: rve; pfam00665 935588004614 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 935588004615 Fic family protein [Function unknown]; Region: COG3177 935588004616 Fic/DOC family; Region: Fic; pfam02661 935588004617 oxidoreductase; Region: PLN02991 935588004618 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 935588004619 HipA N-terminal domain; Region: Couple_hipA; pfam13657 935588004620 HipA-like N-terminal domain; Region: HipA_N; pfam07805 935588004621 HipA-like C-terminal domain; Region: HipA_C; pfam07804 935588004622 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 935588004623 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 935588004624 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 935588004625 ACP:hemolysin acyltransferase (hemolysin-activating protein) [Posttranslational modification, protein turnover, chaperones]; Region: HlyC; COG2994 935588004626 haemagglutination activity domain; Region: Haemagg_act; pfam05860 935588004627 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588004628 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588004629 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588004630 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935588004631 Transposase domain (DUF772); Region: DUF772; pfam05598 935588004632 Fic/DOC family; Region: Fic; pfam02661 935588004633 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 935588004634 metal binding triad [ion binding]; metal-binding site 935588004635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 935588004636 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588004637 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935588004638 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588004639 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935588004640 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 935588004641 Transposase domain (DUF772); Region: DUF772; pfam05598 935588004642 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588004643 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588004644 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 935588004645 Predicted flavoprotein [General function prediction only]; Region: COG0431 935588004646 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 935588004647 Transposase domain (DUF772); Region: DUF772; pfam05598 935588004648 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588004649 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588004650 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 935588004651 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 935588004652 Citrate transporter; Region: CitMHS; pfam03600 935588004653 cheY-homologous receiver domain; Region: REC; smart00448 935588004654 ribonuclease G; Provisional; Region: PRK11712 935588004655 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 935588004656 homodimer interface [polypeptide binding]; other site 935588004657 oligonucleotide binding site [chemical binding]; other site 935588004658 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 935588004659 GSH binding site [chemical binding]; other site 935588004660 catalytic residues [active] 935588004661 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 935588004662 SecA binding site; other site 935588004663 Preprotein binding site; other site 935588004664 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 935588004665 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 935588004666 generic binding surface II; other site 935588004667 ssDNA binding site; other site 935588004668 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 935588004669 ATP binding site [chemical binding]; other site 935588004670 putative Mg++ binding site [ion binding]; other site 935588004671 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 935588004672 nucleotide binding region [chemical binding]; other site 935588004673 ATP-binding site [chemical binding]; other site 935588004674 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 935588004675 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 935588004676 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 935588004677 Uncharacterized conserved protein [Function unknown]; Region: COG2850 935588004678 Cupin-like domain; Region: Cupin_8; pfam13621 935588004679 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 935588004680 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 935588004681 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 935588004682 haemagglutination activity domain; Region: Haemagg_act; pfam05860 935588004683 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 935588004684 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935588004685 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935588004686 Transposase domain (DUF772); Region: DUF772; pfam05598 935588004687 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588004688 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588004689 S-adenosylmethionine synthetase; Validated; Region: PRK05250 935588004690 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 935588004691 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 935588004692 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 935588004693 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935588004694 putative acyl-acceptor binding pocket; other site 935588004695 UGMP family protein; Validated; Region: PRK09604 935588004696 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 935588004697 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 935588004698 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 935588004699 ResB-like family; Region: ResB; pfam05140 935588004700 Cytochrome c553 [Energy production and conversion]; Region: COG2863 935588004701 Cytochrome c; Region: Cytochrom_C; cl11414 935588004702 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 935588004703 G1 box; other site 935588004704 GTP/Mg2+ binding site [chemical binding]; other site 935588004705 Switch I region; other site 935588004706 G2 box; other site 935588004707 G3 box; other site 935588004708 Switch II region; other site 935588004709 G4 box; other site 935588004710 G5 box; other site 935588004711 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 935588004712 Transglycosylase; Region: Transgly; pfam00912 935588004713 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935588004714 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 935588004715 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 935588004716 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 935588004717 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 935588004718 Pilus assembly protein, PilP; Region: PilP; pfam04351 935588004719 AMIN domain; Region: AMIN; pfam11741 935588004720 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 935588004721 Secretin and TonB N terminus short domain; Region: STN; pfam07660 935588004722 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 935588004723 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 935588004724 shikimate kinase; Reviewed; Region: aroK; PRK00131 935588004725 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 935588004726 ADP binding site [chemical binding]; other site 935588004727 magnesium binding site [ion binding]; other site 935588004728 putative shikimate binding site; other site 935588004729 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 935588004730 active site 935588004731 dimer interface [polypeptide binding]; other site 935588004732 metal binding site [ion binding]; metal-binding site 935588004733 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 935588004734 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 935588004735 putative dimer interface [polypeptide binding]; other site 935588004736 putative active site [active] 935588004737 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 935588004738 ATP cone domain; Region: ATP-cone; pfam03477 935588004739 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 935588004740 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 935588004741 catalytic motif [active] 935588004742 Zn binding site [ion binding]; other site 935588004743 RibD C-terminal domain; Region: RibD_C; cl17279 935588004744 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 935588004745 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 935588004746 Bacterial sugar transferase; Region: Bac_transf; pfam02397 935588004747 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 935588004748 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935588004749 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 935588004750 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 935588004751 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 935588004752 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 935588004753 inhibitor-cofactor binding pocket; inhibition site 935588004754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588004755 catalytic residue [active] 935588004756 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 935588004757 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 935588004758 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 935588004759 NAD(P) binding site [chemical binding]; other site 935588004760 homodimer interface [polypeptide binding]; other site 935588004761 substrate binding site [chemical binding]; other site 935588004762 active site 935588004763 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]; Region: COG3977 935588004764 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 935588004765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588004766 homodimer interface [polypeptide binding]; other site 935588004767 catalytic residue [active] 935588004768 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 935588004769 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 935588004770 active site 935588004771 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 935588004772 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 935588004773 RNA binding surface [nucleotide binding]; other site 935588004774 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 935588004775 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 935588004776 putative active site [active] 935588004777 putative PHP Thumb interface [polypeptide binding]; other site 935588004778 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 935588004779 generic binding surface II; other site 935588004780 generic binding surface I; other site 935588004781 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 935588004782 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 935588004783 Cupin superfamily protein; Region: Cupin_4; pfam08007 935588004784 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 935588004785 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 935588004786 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 935588004787 N-terminal plug; other site 935588004788 ligand-binding site [chemical binding]; other site 935588004789 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 935588004790 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 935588004791 motif II; other site 935588004792 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 935588004793 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 935588004794 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 935588004795 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 935588004796 lipoprotein signal peptidase; Provisional; Region: PRK14787 935588004797 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 935588004798 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935588004799 active site 935588004800 HIGH motif; other site 935588004801 nucleotide binding site [chemical binding]; other site 935588004802 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 935588004803 active site 935588004804 KMSKS motif; other site 935588004805 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 935588004806 tRNA binding surface [nucleotide binding]; other site 935588004807 anticodon binding site; other site 935588004808 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 935588004809 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 935588004810 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 935588004811 active site 935588004812 Riboflavin kinase; Region: Flavokinase; smart00904 935588004813 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 935588004814 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 935588004815 active site 935588004816 HIGH motif; other site 935588004817 dimer interface [polypeptide binding]; other site 935588004818 KMSKS motif; other site 935588004819 GTP-binding protein YchF; Reviewed; Region: PRK09601 935588004820 YchF GTPase; Region: YchF; cd01900 935588004821 G1 box; other site 935588004822 GTP/Mg2+ binding site [chemical binding]; other site 935588004823 Switch I region; other site 935588004824 G2 box; other site 935588004825 Switch II region; other site 935588004826 G3 box; other site 935588004827 G4 box; other site 935588004828 G5 box; other site 935588004829 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 935588004830 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 935588004831 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 935588004832 Potassium binding sites [ion binding]; other site 935588004833 Cesium cation binding sites [ion binding]; other site 935588004834 Predicted membrane protein [Function unknown]; Region: COG2510 935588004835 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 935588004836 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 935588004837 Substrate binding site; other site 935588004838 metal-binding site 935588004839 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 935588004840 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 935588004841 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935588004842 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 935588004843 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935588004844 antiporter inner membrane protein; Provisional; Region: PRK11670 935588004845 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 935588004846 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 935588004847 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 935588004848 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 935588004849 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 935588004850 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 935588004851 catalytic site [active] 935588004852 subunit interface [polypeptide binding]; other site 935588004853 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 935588004854 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935588004855 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 935588004856 putative active site [active] 935588004857 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 935588004858 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935588004859 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 935588004860 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 935588004861 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935588004862 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935588004863 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 935588004864 IMP binding site; other site 935588004865 dimer interface [polypeptide binding]; other site 935588004866 interdomain contacts; other site 935588004867 partial ornithine binding site; other site 935588004868 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935588004869 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935588004870 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 935588004871 putative effector binding pocket; other site 935588004872 dimerization interface [polypeptide binding]; other site 935588004873 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 935588004874 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 935588004875 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 935588004876 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 935588004877 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 935588004878 carboxyltransferase (CT) interaction site; other site 935588004879 biotinylation site [posttranslational modification]; other site 935588004880 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 935588004881 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935588004882 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 935588004883 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 935588004884 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 935588004885 DNA methylase; Region: N6_N4_Mtase; cl17433 935588004886 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 935588004887 S-adenosylmethionine binding site [chemical binding]; other site 935588004888 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 935588004889 catalytic site [active] 935588004890 putative active site [active] 935588004891 putative substrate binding site [chemical binding]; other site 935588004892 dimer interface [polypeptide binding]; other site 935588004893 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 935588004894 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 935588004895 inhibitor-cofactor binding pocket; inhibition site 935588004896 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588004897 catalytic residue [active] 935588004898 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 935588004899 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 935588004900 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 935588004901 FeS/SAM binding site; other site 935588004902 TRAM domain; Region: TRAM; pfam01938 935588004903 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 935588004904 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 935588004905 TPP-binding site; other site 935588004906 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 935588004907 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 935588004908 PYR/PP interface [polypeptide binding]; other site 935588004909 dimer interface [polypeptide binding]; other site 935588004910 TPP binding site [chemical binding]; other site 935588004911 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935588004912 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 935588004913 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 935588004914 active site 935588004915 Int/Topo IB signature motif; other site 935588004916 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 935588004917 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 935588004918 intersubunit interface [polypeptide binding]; other site 935588004919 active site 935588004920 zinc binding site [ion binding]; other site 935588004921 Na+ binding site [ion binding]; other site 935588004922 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 935588004923 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 935588004924 Glycoprotease family; Region: Peptidase_M22; pfam00814 935588004925 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935588004926 Coenzyme A binding pocket [chemical binding]; other site 935588004927 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 935588004928 active site 935588004929 Fe-S cluster binding site [ion binding]; other site 935588004930 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935588004931 active site 935588004932 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 935588004933 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 935588004934 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 935588004935 putative feedback inhibition sensing region; other site 935588004936 putative nucleotide binding site [chemical binding]; other site 935588004937 putative substrate binding site [chemical binding]; other site 935588004938 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935588004939 Coenzyme A binding pocket [chemical binding]; other site 935588004940 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 935588004941 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 935588004942 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935588004943 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 935588004944 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 935588004945 putative ligand binding residues [chemical binding]; other site 935588004946 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 935588004947 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 935588004948 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 935588004949 N-terminal plug; other site 935588004950 ligand-binding site [chemical binding]; other site 935588004951 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 935588004952 active site residue [active] 935588004953 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 935588004954 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 935588004955 S-adenosylmethionine binding site [chemical binding]; other site 935588004956 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 935588004957 triosephosphate isomerase; Provisional; Region: PRK14567 935588004958 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 935588004959 substrate binding site [chemical binding]; other site 935588004960 dimer interface [polypeptide binding]; other site 935588004961 catalytic triad [active] 935588004962 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 935588004963 Predicted transcriptional regulator [Transcription]; Region: COG2944 935588004964 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 935588004965 non-specific DNA binding site [nucleotide binding]; other site 935588004966 salt bridge; other site 935588004967 sequence-specific DNA binding site [nucleotide binding]; other site 935588004968 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 935588004969 DNA methylase; Region: N6_N4_Mtase; pfam01555 935588004970 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 935588004971 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 935588004972 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 935588004973 HIGH motif; other site 935588004974 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 935588004975 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935588004976 active site 935588004977 KMSKS motif; other site 935588004978 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 935588004979 tRNA binding surface [nucleotide binding]; other site 935588004980 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 935588004981 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 935588004982 polyphosphate kinase; Provisional; Region: PRK05443 935588004983 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 935588004984 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 935588004985 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 935588004986 putative domain interface [polypeptide binding]; other site 935588004987 putative active site [active] 935588004988 catalytic site [active] 935588004989 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 935588004990 putative domain interface [polypeptide binding]; other site 935588004991 putative active site [active] 935588004992 catalytic site [active] 935588004993 DNA polymerase III subunit beta; Validated; Region: PRK05643 935588004994 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 935588004995 putative DNA binding surface [nucleotide binding]; other site 935588004996 dimer interface [polypeptide binding]; other site 935588004997 beta-clamp/clamp loader binding surface; other site 935588004998 beta-clamp/translesion DNA polymerase binding surface; other site 935588004999 DnaA N-terminal domain; Region: DnaA_N; pfam11638 935588005000 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 935588005001 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 935588005002 Walker A motif; other site 935588005003 ATP binding site [chemical binding]; other site 935588005004 Walker B motif; other site 935588005005 arginine finger; other site 935588005006 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 935588005007 DnaA box-binding interface [nucleotide binding]; other site 935588005008 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 935588005009 ribonuclease P; Reviewed; Region: rnpA; PRK04390 935588005010 hypothetical protein; Provisional; Region: PRK14373 935588005011 membrane protein insertase; Provisional; Region: PRK01318 935588005012 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 935588005013 Predicted methyltransferases [General function prediction only]; Region: COG0313 935588005014 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 935588005015 putative SAM binding site [chemical binding]; other site 935588005016 homodimer interface [polypeptide binding]; other site 935588005017 Maf-like protein; Region: Maf; pfam02545 935588005018 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 935588005019 active site 935588005020 dimer interface [polypeptide binding]; other site 935588005021 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 935588005022 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 935588005023 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 935588005024 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935588005025 active site 935588005026 putative phosphate acyltransferase; Provisional; Region: PRK05331 935588005027 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 935588005028 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 935588005029 dimer interface [polypeptide binding]; other site 935588005030 active site 935588005031 CoA binding pocket [chemical binding]; other site 935588005032 Predicted membrane protein [Function unknown]; Region: COG3326 935588005033 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 935588005034 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 935588005035 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 935588005036 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935588005037 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 935588005038 Walker A/P-loop; other site 935588005039 ATP binding site [chemical binding]; other site 935588005040 Q-loop/lid; other site 935588005041 ABC transporter signature motif; other site 935588005042 Walker B; other site 935588005043 D-loop; other site 935588005044 H-loop/switch region; other site 935588005045 GMP synthase; Reviewed; Region: guaA; PRK00074 935588005046 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 935588005047 AMP/PPi binding site [chemical binding]; other site 935588005048 candidate oxyanion hole; other site 935588005049 catalytic triad [active] 935588005050 potential glutamine specificity residues [chemical binding]; other site 935588005051 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 935588005052 ATP Binding subdomain [chemical binding]; other site 935588005053 Ligand Binding sites [chemical binding]; other site 935588005054 Dimerization subdomain; other site 935588005055 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 935588005056 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 935588005057 NAD(P) binding site [chemical binding]; other site 935588005058 homotetramer interface [polypeptide binding]; other site 935588005059 homodimer interface [polypeptide binding]; other site 935588005060 active site 935588005061 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588005062 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 935588005063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 935588005064 Transposase domain (DUF772); Region: DUF772; pfam05598 935588005065 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588005066 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588005067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 935588005068 SEC-C motif; Region: SEC-C; pfam02810 935588005069 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 935588005070 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 935588005071 active site 935588005072 RNA methyltransferase, RsmE family; Region: TIGR00046 935588005073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 935588005074 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 935588005075 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 935588005076 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 935588005077 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 935588005078 active site 935588005079 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 935588005080 DALR anticodon binding domain; Region: DALR_1; pfam05746 935588005081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3171 935588005082 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 935588005083 dimer interface [polypeptide binding]; other site 935588005084 motif 1; other site 935588005085 active site 935588005086 motif 2; other site 935588005087 motif 3; other site 935588005088 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 935588005089 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 935588005090 gamma subunit interface [polypeptide binding]; other site 935588005091 epsilon subunit interface [polypeptide binding]; other site 935588005092 LBP interface [polypeptide binding]; other site 935588005093 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 935588005094 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 935588005095 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 935588005096 alpha subunit interaction interface [polypeptide binding]; other site 935588005097 Walker A motif; other site 935588005098 ATP binding site [chemical binding]; other site 935588005099 Walker B motif; other site 935588005100 inhibitor binding site; inhibition site 935588005101 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 935588005102 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 935588005103 core domain interface [polypeptide binding]; other site 935588005104 delta subunit interface [polypeptide binding]; other site 935588005105 epsilon subunit interface [polypeptide binding]; other site 935588005106 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 935588005107 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 935588005108 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 935588005109 beta subunit interaction interface [polypeptide binding]; other site 935588005110 Walker A motif; other site 935588005111 ATP binding site [chemical binding]; other site 935588005112 Walker B motif; other site 935588005113 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 935588005114 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 935588005115 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 935588005116 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 935588005117 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 935588005118 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 935588005119 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 935588005120 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 935588005121 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 935588005122 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 935588005123 ParB-like nuclease domain; Region: ParBc; pfam02195 935588005124 KorB domain; Region: KorB; pfam08535 935588005125 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 935588005126 Flavoprotein; Region: Flavoprotein; pfam02441 935588005127 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 935588005128 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 935588005129 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 935588005130 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 935588005131 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 935588005132 Walker A/P-loop; other site 935588005133 ATP binding site [chemical binding]; other site 935588005134 Q-loop/lid; other site 935588005135 ABC transporter signature motif; other site 935588005136 Walker B; other site 935588005137 D-loop; other site 935588005138 H-loop/switch region; other site 935588005139 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 935588005140 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 935588005141 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935588005142 catalytic residue [active] 935588005143 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 935588005144 Uncharacterized conserved protein [Function unknown]; Region: COG1610 935588005145 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 935588005146 stringent starvation protein A; Provisional; Region: sspA; PRK09481 935588005147 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 935588005148 C-terminal domain interface [polypeptide binding]; other site 935588005149 putative GSH binding site (G-site) [chemical binding]; other site 935588005150 dimer interface [polypeptide binding]; other site 935588005151 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 935588005152 dimer interface [polypeptide binding]; other site 935588005153 N-terminal domain interface [polypeptide binding]; other site 935588005154 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 935588005155 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 935588005156 Cadmium resistance transporter; Region: Cad; pfam03596 935588005157 ribosomal protein L31; Region: L31; TIGR00105 935588005158 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 935588005159 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935588005160 catalytic residues [active] 935588005161 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 935588005162 active site 935588005163 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 935588005164 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 935588005165 anti sigma factor interaction site; other site 935588005166 regulatory phosphorylation site [posttranslational modification]; other site 935588005167 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 935588005168 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 935588005169 mce related protein; Region: MCE; pfam02470 935588005170 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 935588005171 Permease; Region: Permease; pfam02405 935588005172 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 935588005173 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 935588005174 Walker A/P-loop; other site 935588005175 ATP binding site [chemical binding]; other site 935588005176 Q-loop/lid; other site 935588005177 ABC transporter signature motif; other site 935588005178 Walker B; other site 935588005179 D-loop; other site 935588005180 H-loop/switch region; other site 935588005181 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935588005182 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935588005183 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 935588005184 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 935588005185 NAD binding site [chemical binding]; other site 935588005186 catalytic residues [active] 935588005187 substrate binding site [chemical binding]; other site 935588005188 aminodeoxychorismate synthase; Provisional; Region: PRK07508 935588005189 chorismate binding enzyme; Region: Chorismate_bind; cl10555 935588005190 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 935588005191 homodimer interface [polypeptide binding]; other site 935588005192 substrate-cofactor binding pocket; other site 935588005193 Aminotransferase class IV; Region: Aminotran_4; pfam01063 935588005194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935588005195 catalytic residue [active] 935588005196 Protein of unknown function (DUF560); Region: DUF560; pfam04575 935588005197 Transposase domain (DUF772); Region: DUF772; pfam05598 935588005198 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588005199 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935588005200 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 935588005201 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 935588005202 ring oligomerisation interface [polypeptide binding]; other site 935588005203 ATP/Mg binding site [chemical binding]; other site 935588005204 stacking interactions; other site 935588005205 hinge regions; other site 935588005206 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 935588005207 oligomerisation interface [polypeptide binding]; other site 935588005208 mobile loop; other site 935588005209 roof hairpin; other site 935588005210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588005211 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 935588005212 Na2 binding site [ion binding]; other site 935588005213 putative substrate binding site 1 [chemical binding]; other site 935588005214 Na binding site 1 [ion binding]; other site 935588005215 putative substrate binding site 2 [chemical binding]; other site 935588005216 diaminopimelate decarboxylase; Region: lysA; TIGR01048 935588005217 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 935588005218 active site 935588005219 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935588005220 substrate binding site [chemical binding]; other site 935588005221 catalytic residues [active] 935588005222 dimer interface [polypeptide binding]; other site 935588005223 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 935588005224 putative iron binding site [ion binding]; other site 935588005225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 935588005226 S-ribosylhomocysteinase; Provisional; Region: PRK02260 935588005227 DNA polymerase I; Provisional; Region: PRK05755 935588005228 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 935588005229 active site 935588005230 putative 5' ssDNA interaction site; other site 935588005231 metal binding site 3; metal-binding site 935588005232 metal binding site 1 [ion binding]; metal-binding site 935588005233 metal binding site 2 [ion binding]; metal-binding site 935588005234 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 935588005235 putative DNA binding site [nucleotide binding]; other site 935588005236 putative metal binding site [ion binding]; other site 935588005237 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 935588005238 active site 935588005239 catalytic site [active] 935588005240 substrate binding site [chemical binding]; other site 935588005241 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 935588005242 active site 935588005243 DNA binding site [nucleotide binding] 935588005244 catalytic site [active] 935588005245 Fic/DOC family; Region: Fic; pfam02661 935588005246 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 935588005247 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 935588005248 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 935588005249 Autotransporter beta-domain; Region: Autotransporter; pfam03797 935588005250 Predicted membrane protein [Function unknown]; Region: COG5346 935588005251 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 935588005252 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 935588005253 trmE is a tRNA modification GTPase; Region: trmE; cd04164 935588005254 G1 box; other site 935588005255 GTP/Mg2+ binding site [chemical binding]; other site 935588005256 Switch I region; other site 935588005257 G2 box; other site 935588005258 Switch II region; other site 935588005259 G3 box; other site 935588005260 G4 box; other site 935588005261 G5 box; other site 935588005262 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 935588005263 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 935588005264 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 935588005265 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 935588005266 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 935588005267 putative ligand binding residues [chemical binding]; other site 935588005268 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935588005269 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 935588005270 ABC-ATPase subunit interface; other site 935588005271 dimer interface [polypeptide binding]; other site 935588005272 putative PBP binding regions; other site 935588005273 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 935588005274 ABC-ATPase subunit interface; other site 935588005275 dimer interface [polypeptide binding]; other site 935588005276 putative PBP binding regions; other site 935588005277 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 935588005278 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 935588005279 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935588005280 Walker A/P-loop; other site 935588005281 ATP binding site [chemical binding]; other site 935588005282 Q-loop/lid; other site 935588005283 ABC transporter signature motif; other site 935588005284 Walker B; other site 935588005285 D-loop; other site 935588005286 H-loop/switch region; other site 935588005287 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 935588005288 Nitrogen regulatory protein P-II; Region: P-II; smart00938 935588005289 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 935588005290 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 935588005291 dimerization interface [polypeptide binding]; other site 935588005292 ATP binding site [chemical binding]; other site 935588005293 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 935588005294 dimerization interface [polypeptide binding]; other site 935588005295 ATP binding site [chemical binding]; other site 935588005296 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 935588005297 putative active site [active] 935588005298 catalytic triad [active] 935588005299 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 935588005300 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 935588005301 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 935588005302 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 935588005303 Autotransporter beta-domain; Region: Autotransporter; pfam03797 935588005304 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 935588005305 MgtE intracellular N domain; Region: MgtE_N; smart00924 935588005306 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 935588005307 Divalent cation transporter; Region: MgtE; pfam01769 935588005308 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 935588005309 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 935588005310 dimerization interface [polypeptide binding]; other site 935588005311 domain crossover interface; other site 935588005312 redox-dependent activation switch; other site 935588005313 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935588005314 NlpC/P60 family; Region: NLPC_P60; pfam00877 935588005315 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 935588005316 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 935588005317 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 935588005318 heterotetramer interface [polypeptide binding]; other site 935588005319 active site pocket [active] 935588005320 cleavage site 935588005321 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 935588005322 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 935588005323 putative ion selectivity filter; other site 935588005324 putative pore gating glutamate residue; other site 935588005325 putative H+/Cl- coupling transport residue; other site 935588005326 DEAD-like helicases superfamily; Region: DEXDc; smart00487 935588005327 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 935588005328 ATP binding site [chemical binding]; other site 935588005329 putative Mg++ binding site [ion binding]; other site 935588005330 nucleotide binding region [chemical binding]; other site 935588005331 helicase superfamily c-terminal domain; Region: HELICc; smart00490 935588005332 ATP-binding site [chemical binding]; other site 935588005333 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 935588005334 Sulfatase; Region: Sulfatase; pfam00884 935588005335 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 935588005336 Helicase associated domain (HA2); Region: HA2; pfam04408 935588005337 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 935588005338 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 935588005339 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 935588005340 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 935588005341 additional DNA contacts [nucleotide binding]; other site 935588005342 mismatch recognition site; other site 935588005343 active site 935588005344 zinc binding site [ion binding]; other site 935588005345 DNA intercalation site [nucleotide binding]; other site 935588005346 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 935588005347 Mg2+ binding site [ion binding]; other site 935588005348 G-X-G motif; other site 935588005349 TIGR02391 family protein; Region: hypoth_ymh 935588005350 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935588005351 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 935588005352 cofactor binding site; other site 935588005353 DNA binding site [nucleotide binding] 935588005354 substrate interaction site [chemical binding]; other site 935588005355 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 935588005356 Transposase domain (DUF772); Region: DUF772; pfam05598 935588005357 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935588005358 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 935588005359 comEA protein; Region: comE; TIGR01259 935588005360 Helix-hairpin-helix motif; Region: HHH; pfam00633 935588005361 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935588005362 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935588005363 active site 935588005364 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 935588005365 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 935588005366 active site 935588005367 (T/H)XGH motif; other site 935588005368 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 935588005369 YccA-like proteins; Region: YccA_like; cd10433 935588005370 oxidative damage protection protein; Provisional; Region: PRK05408 935588005371 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 935588005372 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 935588005373 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 935588005374 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 935588005375 active site 935588005376 (T/H)XGH motif; other site 935588005377 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 935588005378 active site clefts [active] 935588005379 zinc binding site [ion binding]; other site 935588005380 dimer interface [polypeptide binding]; other site 935588005381 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 935588005382 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 935588005383 dimer interface [polypeptide binding]; other site 935588005384 conserved gate region; other site 935588005385 ABC-ATPase subunit interface; other site 935588005386 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 935588005387 ABC-ATPase subunit interface; other site 935588005388 putative PBP binding loops; other site 935588005389 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 935588005390 fructuronate transporter; Provisional; Region: PRK10034; cl15264 935588005391 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 935588005392 ATP-binding site [chemical binding]; other site 935588005393 Gluconate-6-phosphate binding site [chemical binding]; other site 935588005394 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 935588005395 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 935588005396 putative active site [active] 935588005397 putative substrate binding site [chemical binding]; other site 935588005398 ATP binding site [chemical binding]; other site 935588005399 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 935588005400 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 935588005401 S-adenosylmethionine binding site [chemical binding]; other site 935588005402 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 935588005403 aromatic amino acid transport protein; Region: araaP; TIGR00837 935588005404 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 935588005405 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 935588005406 active site 935588005407 motif I; other site 935588005408 motif II; other site 935588005409 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 935588005410 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 935588005411 putative acyl-acceptor binding pocket; other site 935588005412 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 935588005413 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 935588005414 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 935588005415 dimerization interface 3.5A [polypeptide binding]; other site 935588005416 active site 935588005417 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 935588005418 PemK-like protein; Region: PemK; pfam02452 935588005419 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 935588005420 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 935588005421 trimer interface [polypeptide binding]; other site 935588005422 eyelet of channel; other site 935588005423 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 935588005424 ThiC-associated domain; Region: ThiC-associated; pfam13667 935588005425 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 935588005426 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 935588005427 nudix motif; other site 935588005428 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 935588005429 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 935588005430 Walker A/P-loop; other site 935588005431 ATP binding site [chemical binding]; other site 935588005432 Q-loop/lid; other site 935588005433 ABC transporter signature motif; other site 935588005434 Walker B; other site 935588005435 D-loop; other site 935588005436 H-loop/switch region; other site 935588005437 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 935588005438 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 935588005439 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 935588005440 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 935588005441 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 935588005442 dimerization domain swap beta strand [polypeptide binding]; other site 935588005443 regulatory protein interface [polypeptide binding]; other site 935588005444 active site 935588005445 regulatory phosphorylation site [posttranslational modification]; other site 935588005446 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 935588005447 active pocket/dimerization site; other site 935588005448 active site 935588005449 phosphorylation site [posttranslational modification] 935588005450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935588005451 active site 935588005452 DNA ligase; Provisional; Region: PRK09125 935588005453 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 935588005454 DNA binding site [nucleotide binding] 935588005455 active site 935588005456 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 935588005457 DNA binding site [nucleotide binding] 935588005458 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 935588005459 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 935588005460 RmuC family; Region: RmuC; pfam02646 935588005461 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 935588005462 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 935588005463 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 935588005464 Qi binding site; other site 935588005465 intrachain domain interface; other site 935588005466 interchain domain interface [polypeptide binding]; other site 935588005467 heme bH binding site [chemical binding]; other site 935588005468 heme bL binding site [chemical binding]; other site 935588005469 Qo binding site; other site 935588005470 interchain domain interface [polypeptide binding]; other site 935588005471 intrachain domain interface; other site 935588005472 Qi binding site; other site 935588005473 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 935588005474 Qo binding site; other site 935588005475 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 935588005476 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 935588005477 [2Fe-2S] cluster binding site [ion binding]; other site 935588005478 Uncharacterized conserved protein [Function unknown]; Region: COG0327 935588005479 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 935588005480 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 935588005481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935588005482 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 935588005483 putative dimerization interface [polypeptide binding]; other site 935588005484 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 935588005485 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 935588005486 23S rRNA interface [nucleotide binding]; other site 935588005487 L3 interface [polypeptide binding]; other site 935588005488 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 935588005489 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 935588005490 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 935588005491 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 935588005492 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 935588005493 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 935588005494 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 935588005495 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 935588005496 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 935588005497 ATP binding site [chemical binding]; other site 935588005498 substrate interface [chemical binding]; other site 935588005499 hypothetical protein; Provisional; Region: PRK04325 935588005500 Predicted permease [General function prediction only]; Region: COG2056 935588005501 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 935588005502 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 935588005503 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 935588005504 S-adenosylmethionine binding site [chemical binding]; other site 935588005505 protease TldD; Provisional; Region: tldD; PRK10735 935588005506 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 935588005507 Na binding site [ion binding]; other site 935588005508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935588005509 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 935588005510 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 935588005511 thiamine phosphate binding site [chemical binding]; other site 935588005512 active site 935588005513 pyrophosphate binding site [ion binding]; other site 935588005514 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 935588005515 thiS-thiF/thiG interaction site; other site 935588005516 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 935588005517 ThiS interaction site; other site 935588005518 putative active site [active] 935588005519 tetramer interface [polypeptide binding]; other site 935588005520 Sporulation related domain; Region: SPOR; pfam05036 935588005521 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 935588005522 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 935588005523 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 935588005524 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 935588005525 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 935588005526 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 935588005527 active site 935588005528 HIGH motif; other site 935588005529 nucleotide binding site [chemical binding]; other site 935588005530 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 935588005531 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 935588005532 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 935588005533 homodimer interface [polypeptide binding]; other site 935588005534 NADP binding site [chemical binding]; other site 935588005535 substrate binding site [chemical binding]; other site 935588005536 RDD family; Region: RDD; pfam06271 935588005537 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 935588005538 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 935588005539 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 935588005540 putative active site [active] 935588005541 putative catalytic site [active] 935588005542 putative DNA binding site [nucleotide binding]; other site 935588005543 putative phosphate binding site [ion binding]; other site 935588005544 metal binding site A [ion binding]; metal-binding site 935588005545 putative AP binding site [nucleotide binding]; other site 935588005546 putative metal binding site B [ion binding]; other site 935588005547 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 935588005548 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 935588005549 active site 935588005550 HIGH motif; other site 935588005551 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 935588005552 KMSKS motif; other site 935588005553 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 935588005554 tRNA binding surface [nucleotide binding]; other site 935588005555 anticodon binding site; other site 935588005556 The Death Domain Superfamily of protein-protein interaction domains; Region: DD_superfamily; cl14633 935588005557 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 935588005558 DNA methylase; Region: N6_N4_Mtase; pfam01555 935588005559 GTPase CgtA; Reviewed; Region: obgE; PRK12299 935588005560 GTP1/OBG; Region: GTP1_OBG; pfam01018 935588005561 Obg GTPase; Region: Obg; cd01898 935588005562 G1 box; other site 935588005563 GTP/Mg2+ binding site [chemical binding]; other site 935588005564 Switch I region; other site 935588005565 G2 box; other site 935588005566 G3 box; other site 935588005567 Switch II region; other site 935588005568 G4 box; other site 935588005569 G5 box; other site 935588005570 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 935588005571 Predicted methyltransferases [General function prediction only]; Region: COG0313 935588005572 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 935588005573 putative SAM binding site [chemical binding]; other site 935588005574 putative homodimer interface [polypeptide binding]; other site 935588005575 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 935588005576 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 935588005577 dimer interface [polypeptide binding]; other site 935588005578 active site 935588005579 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 935588005580 BON domain; Region: BON; pfam04972 935588005581 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 935588005582 active site 935588005583 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 935588005584 non-specific DNA binding site [nucleotide binding]; other site 935588005585 salt bridge; other site 935588005586 sequence-specific DNA binding site [nucleotide binding]; other site 935588005587 malate:quinone oxidoreductase; Validated; Region: PRK05257 935588005588 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 935588005589 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935588005590 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 935588005591 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 935588005592 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 935588005593 rRNA interaction site [nucleotide binding]; other site 935588005594 S8 interaction site; other site 935588005595 putative laminin-1 binding site; other site 935588005596 elongation factor Ts; Provisional; Region: tsf; PRK09377 935588005597 UBA/TS-N domain; Region: UBA; pfam00627 935588005598 Elongation factor TS; Region: EF_TS; pfam00889 935588005599 Elongation factor TS; Region: EF_TS; pfam00889 935588005600 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 935588005601 putative nucleotide binding site [chemical binding]; other site 935588005602 uridine monophosphate binding site [chemical binding]; other site 935588005603 homohexameric interface [polypeptide binding]; other site 935588005604 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935588005605 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 935588005606 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935588005607 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935588005608 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935588005609 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 935588005610 Pyocin large subunit [General function prediction only]; Region: COG5529 935588005611 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935588005612 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 935588005613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935588005614 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 935588005615 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 935588005616 tandem repeat interface [polypeptide binding]; other site 935588005617 oligomer interface [polypeptide binding]; other site 935588005618 active site residues [active] 935588005619 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 935588005620 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 935588005621 putative MPT binding site; other site 935588005622 argininosuccinate synthase; Validated; Region: PRK05370 935588005623 argininosuccinate synthase; Provisional; Region: PRK13820 935588005624 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 935588005625 serine/threonine transporter SstT; Provisional; Region: PRK13628 935588005626 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 935588005627 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 935588005628 Surface antigen; Region: Bac_surface_Ag; pfam01103 935588005629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 935588005630 Family of unknown function (DUF490); Region: DUF490; pfam04357 935588005631 Family of unknown function (DUF490); Region: DUF490; pfam04357 935588005632 Family of unknown function (DUF490); Region: DUF490; pfam04357 935588005633 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 935588005634 POT family; Region: PTR2; cl17359 935588005635 peptide chain release factor 2; Validated; Region: prfB; PRK00578 935588005636 This domain is found in peptide chain release factors; Region: PCRF; smart00937 935588005637 RF-1 domain; Region: RF-1; pfam00472 935588005638 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 935588005639 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 935588005640 active site 935588005641 nucleophile elbow; other site 935588005642 Predicted membrane protein [Function unknown]; Region: COG2259 935588005643 Protein of unknown function (DUF692); Region: DUF692; pfam05114 935588005644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 935588005645 RNA polymerase sigma factor; Provisional; Region: PRK12532 935588005646 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935588005647 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 935588005648 DNA binding residues [nucleotide binding] 935588005649 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935588005650 Helix-turn-helix domain; Region: HTH_38; pfam13936 935588005651 Homeodomain-like domain; Region: HTH_32; pfam13565 935588005652 Integrase core domain; Region: rve; pfam00665 935588005653 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 935588005654 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 935588005655 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 935588005656 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 935588005657 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 935588005658 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 935588005659 Uncharacterized conserved protein [Function unknown]; Region: COG1739 935588005660 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 935588005661 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 935588005662 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 935588005663 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 935588005664 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 935588005665 Ligand binding site [chemical binding]; other site 935588005666 Electron transfer flavoprotein domain; Region: ETF; pfam01012 935588005667 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 935588005668 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 935588005669 putative active site [active] 935588005670 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 935588005671 Isochorismatase family; Region: Isochorismatase; pfam00857 935588005672 catalytic triad [active] 935588005673 metal binding site [ion binding]; metal-binding site 935588005674 conserved cis-peptide bond; other site 935588005675 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 935588005676 homodimer interaction site [polypeptide binding]; other site 935588005677 cofactor binding site; other site 935588005678 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 935588005679 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 935588005680 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 935588005681 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 935588005682 MutS domain I; Region: MutS_I; pfam01624 935588005683 MutS domain II; Region: MutS_II; pfam05188 935588005684 MutS domain III; Region: MutS_III; pfam05192 935588005685 MutS domain V; Region: MutS_V; pfam00488 935588005686 Walker A/P-loop; other site 935588005687 ATP binding site [chemical binding]; other site 935588005688 Q-loop/lid; other site 935588005689 ABC transporter signature motif; other site 935588005690 Walker B; other site 935588005691 D-loop; other site 935588005692 H-loop/switch region; other site