-- dump date 20140619_163642 -- class Genbank::misc_feature -- table misc_feature_note -- id note 122586000001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 122586000002 Coenzyme A binding pocket [chemical binding]; other site 122586000003 DASH complex subunit Spc34; Region: DASH_Spc34; pfam08657 122586000004 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 122586000005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 122586000006 active site 122586000007 HIGH motif; other site 122586000008 KMSKS motif; other site 122586000009 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 122586000010 putative active site [active] 122586000011 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 122586000012 catalytic residues [active] 122586000013 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 122586000014 catalytic residues [active] 122586000015 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 122586000016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 122586000017 Walker A/P-loop; other site 122586000018 ATP binding site [chemical binding]; other site 122586000019 Q-loop/lid; other site 122586000020 ABC transporter signature motif; other site 122586000021 Walker B; other site 122586000022 D-loop; other site 122586000023 H-loop/switch region; other site 122586000024 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 122586000025 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 122586000026 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 122586000027 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 122586000028 substrate binding site [chemical binding]; other site 122586000029 hinge regions; other site 122586000030 ADP binding site [chemical binding]; other site 122586000031 catalytic site [active] 122586000032 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 122586000033 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 122586000034 hinge; other site 122586000035 active site 122586000036 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 122586000037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 122586000038 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 122586000039 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 122586000040 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 122586000041 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 122586000042 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 122586000043 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 122586000044 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 122586000045 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 122586000046 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 122586000047 Pilin (bacterial filament); Region: Pilin; pfam00114 122586000048 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000049 Pilin (bacterial filament); Region: Pilin; pfam00114 122586000050 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000051 Pilin (bacterial filament); Region: Pilin; pfam00114 122586000052 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000053 Pilin (bacterial filament); Region: Pilin; pfam00114 122586000054 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000055 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000056 Pilin (bacterial filament); Region: Pilin; pfam00114 122586000057 Pilin (bacterial filament); Region: Pilin; pfam00114 122586000058 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000059 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000060 Pilin (bacterial filament); Region: Pilin; pfam00114 122586000061 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000062 Pilin (bacterial filament); Region: Pilin; pfam00114 122586000063 Pilin (bacterial filament); Region: Pilin; pfam00114 122586000064 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000065 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586000066 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 122586000067 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 122586000068 Predicted membrane protein [Function unknown]; Region: COG3205 122586000069 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 122586000070 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 122586000071 putative ligand binding site [chemical binding]; other site 122586000072 putative NAD binding site [chemical binding]; other site 122586000073 catalytic site [active] 122586000074 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 122586000075 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 122586000076 active site 122586000077 HIGH motif; other site 122586000078 KMSKS motif; other site 122586000079 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 122586000080 tRNA binding surface [nucleotide binding]; other site 122586000081 anticodon binding site; other site 122586000082 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 122586000083 dimer interface [polypeptide binding]; other site 122586000084 putative tRNA-binding site [nucleotide binding]; other site 122586000085 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 122586000086 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 122586000087 glutaminase active site [active] 122586000088 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 122586000089 dimer interface [polypeptide binding]; other site 122586000090 active site 122586000091 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 122586000092 dimer interface [polypeptide binding]; other site 122586000093 active site 122586000094 Uncharacterized protein involved in plasmid maintenance [General function prediction only]; Region: SMP2; COG5083 122586000095 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 122586000096 MltA specific insert domain; Region: MltA; smart00925 122586000097 3D domain; Region: 3D; pfam06725 122586000098 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 122586000099 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 122586000100 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 122586000101 Imelysin; Region: Peptidase_M75; pfam09375 122586000102 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 122586000103 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 122586000104 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 122586000105 PhnA protein; Region: PhnA; pfam03831 122586000106 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 122586000107 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 122586000108 Substrate binding site; other site 122586000109 Mg++ binding site; other site 122586000110 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 122586000111 active site 122586000112 substrate binding site [chemical binding]; other site 122586000113 CoA binding site [chemical binding]; other site 122586000114 ABC transporter periplasmic binding protein, thiB subfamily; Region: sfuA; TIGR01254 122586000115 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 122586000116 Mechanosensitive ion channel; Region: MS_channel; pfam00924 122586000117 Competence-damaged protein; Region: CinA; pfam02464 122586000118 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 122586000119 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 122586000120 catalytic residues [active] 122586000121 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 122586000122 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 122586000123 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 122586000124 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 122586000125 SRP54-type protein, GTPase domain; Region: SRP54; pfam00448 122586000126 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 122586000127 GIY-YIG motif/motif A; other site 122586000128 putative active site [active] 122586000129 putative metal binding site [ion binding]; other site 122586000130 TIGR01666 family membrane protein; Region: YCCS 122586000131 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 122586000132 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 122586000133 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 122586000134 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 122586000135 Walker A motif; other site 122586000136 ATP binding site [chemical binding]; other site 122586000137 Walker B motif; other site 122586000138 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 122586000139 SPOC domain; Region: SPOC; pfam07744 122586000140 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 122586000141 Walker A motif; other site 122586000142 ATP binding site [chemical binding]; other site 122586000143 Walker B motif; other site 122586000144 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 122586000145 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 122586000146 catalytic residue [active] 122586000147 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 122586000148 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 122586000149 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 122586000150 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 122586000151 chaperone protein DnaJ; Provisional; Region: PRK10767 122586000152 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 122586000153 HSP70 interaction site [polypeptide binding]; other site 122586000154 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 122586000155 substrate binding site [polypeptide binding]; other site 122586000156 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 122586000157 Zn binding sites [ion binding]; other site 122586000158 dimer interface [polypeptide binding]; other site 122586000159 Predicted membrane protein [Function unknown]; Region: COG1297 122586000160 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 122586000161 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 122586000162 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 122586000163 substrate binding site; other site 122586000164 tetramer interface; other site 122586000165 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 122586000166 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 122586000167 NAD binding site [chemical binding]; other site 122586000168 substrate binding site [chemical binding]; other site 122586000169 homodimer interface [polypeptide binding]; other site 122586000170 active site 122586000171 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 122586000172 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 122586000173 NAD binding site [chemical binding]; other site 122586000174 homodimer interface [polypeptide binding]; other site 122586000175 active site 122586000176 substrate binding site [chemical binding]; other site 122586000177 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 122586000178 S-adenosylmethionine binding site [chemical binding]; other site 122586000179 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 122586000180 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 122586000181 NeuB family; Region: NeuB; pfam03102 122586000182 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 122586000183 NeuB binding interface [polypeptide binding]; other site 122586000184 putative substrate binding site [chemical binding]; other site 122586000185 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 122586000186 ligand binding site; other site 122586000187 tetramer interface; other site 122586000188 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 122586000189 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 122586000190 active site 122586000191 homodimer interface [polypeptide binding]; other site 122586000192 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 122586000193 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 122586000194 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 122586000195 Chain length determinant protein; Region: Wzz; cl19730 122586000196 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 122586000197 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 122586000198 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 122586000199 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 122586000200 Walker A/P-loop; other site 122586000201 ATP binding site [chemical binding]; other site 122586000202 Q-loop/lid; other site 122586000203 ABC transporter signature motif; other site 122586000204 Walker B; other site 122586000205 D-loop; other site 122586000206 H-loop/switch region; other site 122586000207 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 122586000208 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 122586000209 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 122586000210 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 122586000211 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 122586000212 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 122586000213 RNA binding site [nucleotide binding]; other site 122586000214 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 122586000215 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 122586000216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 122586000217 active site 122586000218 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 122586000219 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 122586000220 NAD binding site [chemical binding]; other site 122586000221 substrate binding site [chemical binding]; other site 122586000222 homodimer interface [polypeptide binding]; other site 122586000223 active site 122586000224 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 122586000225 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 122586000226 substrate binding site; other site 122586000227 tetramer interface; other site 122586000228 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 122586000229 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 122586000230 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 122586000231 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 122586000232 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 122586000233 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 122586000234 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 122586000235 cyanate hydratase; Validated; Region: PRK02866 122586000236 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 122586000237 pyruvate kinase; Provisional; Region: PRK05826 122586000238 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; cd00288 122586000239 domain interfaces; other site 122586000240 active site 122586000241 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 122586000242 putative active site [active] 122586000243 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 122586000244 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 122586000245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 122586000246 Coenzyme A binding pocket [chemical binding]; other site 122586000247 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 122586000248 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 122586000249 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 122586000250 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 122586000251 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 122586000252 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 122586000253 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 122586000254 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 122586000255 rod shape-determining protein MreC; Region: MreC; cl19252 122586000256 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 122586000257 active site 122586000258 catalytic residues [active] 122586000259 metal binding site [ion binding]; metal-binding site 122586000260 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 122586000261 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 122586000262 putative active site [active] 122586000263 substrate binding site [chemical binding]; other site 122586000264 putative cosubstrate binding site; other site 122586000265 catalytic site [active] 122586000266 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 122586000267 substrate binding site [chemical binding]; other site 122586000268 16S rRNA methyltransferase B; Provisional; Region: PRK10901 122586000269 NusB family; Region: NusB; pfam01029 122586000270 putative RNA binding site [nucleotide binding]; other site 122586000271 Uncharacterized protein conserved in archaea (DUF2240); Region: DUF2240; cl01449 122586000272 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 122586000273 S-adenosylmethionine binding site [chemical binding]; other site 122586000274 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 122586000275 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 122586000276 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 122586000277 dimerization interface [polypeptide binding]; other site 122586000278 PAS domain; Region: PAS; smart00091 122586000279 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 122586000280 dimer interface [polypeptide binding]; other site 122586000281 phosphorylation site [posttranslational modification] 122586000282 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 122586000283 ATP binding site [chemical binding]; other site 122586000284 Mg2+ binding site [ion binding]; other site 122586000285 G-X-G motif; other site 122586000286 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 122586000287 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 122586000288 active site 122586000289 phosphorylation site [posttranslational modification] 122586000290 intermolecular recognition site; other site 122586000291 dimerization interface [polypeptide binding]; other site 122586000292 Sigma-54 interaction domain; Region: Sigma54_activ_2; pfam14532 122586000293 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 122586000294 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 122586000295 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 122586000296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Smg; COG2922 122586000297 DNA topoisomerase I; Validated; Region: PRK06599 122586000298 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 122586000299 active site 122586000300 interdomain interaction site; other site 122586000301 putative metal-binding site [ion binding]; other site 122586000302 nucleotide binding site [chemical binding]; other site 122586000303 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 122586000304 domain I; other site 122586000305 DNA binding groove [nucleotide binding] 122586000306 phosphate binding site [ion binding]; other site 122586000307 domain II; other site 122586000308 domain III; other site 122586000309 nucleotide binding site [chemical binding]; other site 122586000310 catalytic site [active] 122586000311 domain IV; other site 122586000312 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 122586000313 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 122586000314 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 122586000315 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 122586000316 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 122586000317 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 122586000318 non-specific DNA binding site [nucleotide binding]; other site 122586000319 salt bridge; other site 122586000320 sequence-specific DNA binding site [nucleotide binding]; other site 122586000321 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 122586000322 S-adenosylmethionine binding site [chemical binding]; other site 122586000323 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 122586000324 elongation factor Tu; Reviewed; Region: PRK00049 122586000325 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 122586000326 G1 box; other site 122586000327 GEF interaction site [polypeptide binding]; other site 122586000328 GTP/Mg2+ binding site [chemical binding]; other site 122586000329 Switch I region; other site 122586000330 G2 box; other site 122586000331 G3 box; other site 122586000332 Switch II region; other site 122586000333 G4 box; other site 122586000334 G5 box; other site 122586000335 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 122586000336 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 122586000337 Antibiotic Binding Site [chemical binding]; other site 122586000338 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 122586000339 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 122586000340 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 122586000341 putative homodimer interface [polypeptide binding]; other site 122586000342 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 122586000343 heterodimer interface [polypeptide binding]; other site 122586000344 homodimer interface [polypeptide binding]; other site 122586000345 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 122586000346 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 122586000347 23S rRNA interface [nucleotide binding]; other site 122586000348 L7/L12 interface [polypeptide binding]; other site 122586000349 putative thiostrepton binding site; other site 122586000350 L25 interface [polypeptide binding]; other site 122586000351 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 122586000352 mRNA/rRNA interface [nucleotide binding]; other site 122586000353 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 122586000354 23S rRNA interface [nucleotide binding]; other site 122586000355 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 122586000356 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 122586000357 core dimer interface [polypeptide binding]; other site 122586000358 peripheral dimer interface [polypeptide binding]; other site 122586000359 L10 interface [polypeptide binding]; other site 122586000360 L11 interface [polypeptide binding]; other site 122586000361 putative EF-Tu interaction site [polypeptide binding]; other site 122586000362 putative EF-G interaction site [polypeptide binding]; other site 122586000363 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 122586000364 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 122586000365 RPB12 interaction site [polypeptide binding]; other site 122586000366 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 122586000367 RPB1 interaction site [polypeptide binding]; other site 122586000368 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 122586000369 RPB10 interaction site [polypeptide binding]; other site 122586000370 RPB11 interaction site [polypeptide binding]; other site 122586000371 RPB3 interaction site [polypeptide binding]; other site 122586000372 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 122586000373 beta and beta' interface [polypeptide binding]; other site 122586000374 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 122586000375 beta' and sigma factor interface [polypeptide binding]; other site 122586000376 Zn-binding [ion binding]; other site 122586000377 active site region [active] 122586000378 catalytic site [active] 122586000379 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 122586000380 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 122586000381 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 122586000382 DNA binding site [nucleotide binding] 122586000383 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 122586000384 Protein of unknown function (DUF560); Region: DUF560; pfam04575 122586000385 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 122586000386 S17 interaction site [polypeptide binding]; other site 122586000387 S8 interaction site; other site 122586000388 16S rRNA interaction site [nucleotide binding]; other site 122586000389 streptomycin interaction site [chemical binding]; other site 122586000390 23S rRNA interaction site [nucleotide binding]; other site 122586000391 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 122586000392 30S ribosomal protein S7; Validated; Region: PRK05302 122586000393 elongation factor G; Reviewed; Region: PRK00007 122586000394 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 122586000395 G1 box; other site 122586000396 putative GEF interaction site [polypeptide binding]; other site 122586000397 GTP/Mg2+ binding site [chemical binding]; other site 122586000398 Switch I region; other site 122586000399 G2 box; other site 122586000400 G3 box; other site 122586000401 Switch II region; other site 122586000402 G4 box; other site 122586000403 G5 box; other site 122586000404 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 122586000405 Elongation Factor G, domain II; Region: EFG_II; pfam14492 122586000406 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 122586000407 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 122586000408 elongation factor Tu; Reviewed; Region: PRK00049 122586000409 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 122586000410 G1 box; other site 122586000411 GEF interaction site [polypeptide binding]; other site 122586000412 GTP/Mg2+ binding site [chemical binding]; other site 122586000413 Switch I region; other site 122586000414 G2 box; other site 122586000415 G3 box; other site 122586000416 Switch II region; other site 122586000417 G4 box; other site 122586000418 G5 box; other site 122586000419 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 122586000420 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 122586000421 Antibiotic Binding Site [chemical binding]; other site 122586000422 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 122586000423 Transposase domain (DUF772); Region: DUF772; pfam05598 122586000424 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 122586000425 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 122586000426 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 122586000427 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 122586000428 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 122586000429 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 122586000430 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 122586000431 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 122586000432 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 122586000433 putative translocon binding site; other site 122586000434 protein-rRNA interface [nucleotide binding]; other site 122586000435 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 122586000436 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 122586000437 G-X-X-G motif; other site 122586000438 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 122586000439 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 122586000440 23S rRNA interface [nucleotide binding]; other site 122586000441 5S rRNA interface [nucleotide binding]; other site 122586000442 putative antibiotic binding site [chemical binding]; other site 122586000443 L25 interface [polypeptide binding]; other site 122586000444 L27 interface [polypeptide binding]; other site 122586000445 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 122586000446 23S rRNA interface [nucleotide binding]; other site 122586000447 putative translocon interaction site; other site 122586000448 signal recognition particle (SRP54) interaction site; other site 122586000449 L23 interface [polypeptide binding]; other site 122586000450 trigger factor interaction site; other site 122586000451 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 122586000452 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 122586000453 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 122586000454 RNA binding site [nucleotide binding]; other site 122586000455 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 122586000456 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 122586000457 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 122586000458 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 122586000459 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 122586000460 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 122586000461 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 122586000462 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 122586000463 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 122586000464 5S rRNA interface [nucleotide binding]; other site 122586000465 23S rRNA interface [nucleotide binding]; other site 122586000466 L5 interface [polypeptide binding]; other site 122586000467 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 122586000468 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 122586000469 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 122586000470 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 122586000471 23S rRNA binding site [nucleotide binding]; other site 122586000472 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 122586000473 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 122586000474 SecY translocase; Region: SecY; pfam00344 122586000475 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 122586000476 rRNA binding site [nucleotide binding]; other site 122586000477 predicted 30S ribosome binding site; other site 122586000478 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 122586000479 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 122586000480 30S ribosomal protein S11; Validated; Region: PRK05309 122586000481 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 122586000482 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 122586000483 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 122586000484 RNA binding surface [nucleotide binding]; other site 122586000485 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 122586000486 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 122586000487 alphaNTD homodimer interface [polypeptide binding]; other site 122586000488 alphaNTD - beta interaction site [polypeptide binding]; other site 122586000489 alphaNTD - beta' interaction site [polypeptide binding]; other site 122586000490 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 122586000491 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 122586000492 septum formation inhibitor; Reviewed; Region: minC; PRK04516 122586000493 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 122586000494 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 122586000495 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 122586000496 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 122586000497 P-loop; other site 122586000498 ADP binding residues [chemical binding]; other site 122586000499 Switch I; other site 122586000500 Switch II; other site 122586000501 cell division topological specificity factor MinE; Provisional; Region: PRK13989 122586000502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 122586000503 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 122586000504 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 122586000505 dimerization interface [polypeptide binding]; other site 122586000506 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 122586000507 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 122586000508 active site 122586000509 HIGH motif; other site 122586000510 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 122586000511 KMSKS motif; other site 122586000512 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 122586000513 tRNA binding surface [nucleotide binding]; other site 122586000514 anticodon binding site; other site 122586000515 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 122586000516 zinc transporter ZupT; Provisional; Region: PRK04201 122586000517 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 122586000518 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 122586000519 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 122586000520 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 122586000521 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 122586000522 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 122586000523 active site 122586000524 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 122586000525 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 122586000526 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 122586000527 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 122586000528 trimer interface [polypeptide binding]; other site 122586000529 active site 122586000530 UDP-GlcNAc binding site [chemical binding]; other site 122586000531 lipid binding site [chemical binding]; lipid-binding site 122586000532 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 122586000533 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 122586000534 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 122586000535 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 122586000536 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 122586000537 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 122586000538 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 122586000539 Surface antigen; Region: Bac_surface_Ag; pfam01103 122586000540 zinc metallopeptidase RseP; Provisional; Region: PRK10779 122586000541 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 122586000542 active site 122586000543 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 122586000544 protein binding site [polypeptide binding]; other site 122586000545 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 122586000546 protein binding site [polypeptide binding]; other site 122586000547 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 122586000548 putative substrate binding region [chemical binding]; other site 122586000549 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 122586000550 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 122586000551 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 122586000552 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 122586000553 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 122586000554 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 122586000555 active site 122586000556 dimer interface [polypeptide binding]; other site 122586000557 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 122586000558 hinge region; other site 122586000559 Predicted membrane protein [Function unknown]; Region: COG1289 122586000560 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 122586000561 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 122586000562 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 122586000563 S-adenosylmethionine binding site [chemical binding]; other site 122586000564 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 122586000565 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 122586000566 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 122586000567 P-loop; other site 122586000568 Magnesium ion binding site [ion binding]; other site 122586000569 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 122586000570 RNA/DNA hybrid binding site [nucleotide binding]; other site 122586000571 active site 122586000572 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 122586000573 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 122586000574 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 122586000575 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 122586000576 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 122586000577 ribonuclease E; Reviewed; Region: rne; PRK10811 122586000578 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 122586000579 homodimer interface [polypeptide binding]; other site 122586000580 oligonucleotide binding site [chemical binding]; other site 122586000581 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 122586000582 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 122586000583 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 122586000584 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 122586000585 RNA binding surface [nucleotide binding]; other site 122586000586 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 122586000587 active site 122586000588 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 122586000589 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 122586000590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 122586000591 dihydrodipicolinate reductase; Provisional; Region: PRK00048 122586000592 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 122586000593 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 122586000594 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 122586000595 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 122586000596 metal binding site 2 [ion binding]; metal-binding site 122586000597 putative DNA binding helix; other site 122586000598 metal binding site 1 [ion binding]; metal-binding site 122586000599 dimer interface [polypeptide binding]; other site 122586000600 structural Zn2+ binding site [ion binding]; other site 122586000601 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 122586000602 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 122586000603 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 122586000604 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 122586000605 ferredoxin; Provisional; Region: PRK08764 122586000606 Putative Fe-S cluster; Region: FeS; cl17515 122586000607 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; cl19102 122586000608 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 122586000609 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 122586000610 TrkA-N domain; Region: TrkA_N; pfam02254 122586000611 TrkA-C domain; Region: TrkA_C; pfam02080 122586000612 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 122586000613 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 122586000614 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 122586000615 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 122586000616 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 122586000617 ATP binding site [chemical binding]; other site 122586000618 Mg2+ binding site [ion binding]; other site 122586000619 G-X-G motif; other site 122586000620 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 122586000621 anchoring element; other site 122586000622 dimer interface [polypeptide binding]; other site 122586000623 ATP binding site [chemical binding]; other site 122586000624 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 122586000625 active site 122586000626 putative metal-binding site [ion binding]; other site 122586000627 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 122586000628 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 122586000629 Mechanosensitive ion channel; Region: MS_channel; pfam00924 122586000630 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 122586000631 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 122586000632 active site 122586000633 Zn binding site [ion binding]; other site 122586000634 Predicted membrane protein [Function unknown]; Region: COG1971 122586000635 Domain of unknown function DUF; Region: DUF204; pfam02659 122586000636 Domain of unknown function DUF; Region: DUF204; pfam02659 122586000637 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 122586000638 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 122586000639 tetramer interface [polypeptide binding]; other site 122586000640 heme binding pocket [chemical binding]; other site 122586000641 NADPH binding site [chemical binding]; other site 122586000642 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 122586000643 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 122586000644 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 122586000645 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 122586000646 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 122586000647 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 122586000648 putative ADP-binding pocket [chemical binding]; other site 122586000649 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 122586000650 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 122586000651 dimer interface [polypeptide binding]; other site 122586000652 active site 122586000653 acyl carrier protein; Provisional; Region: acpP; PRK00982 122586000654 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 122586000655 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 122586000656 quinone interaction residues [chemical binding]; other site 122586000657 active site 122586000658 catalytic residues [active] 122586000659 FMN binding site [chemical binding]; other site 122586000660 substrate binding site [chemical binding]; other site 122586000661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 122586000662 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 122586000663 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 122586000664 metal binding triad; other site 122586000665 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 122586000666 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 122586000667 metal binding triad; other site 122586000668 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586000669 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586000670 Homeodomain-like domain; Region: HTH_32; pfam13565 122586000671 Integrase core domain; Region: rve; pfam00665 122586000672 Integrase core domain; Region: rve_3; cl15866 122586000673 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 122586000674 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 122586000675 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 122586000676 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 122586000677 putative active site [active] 122586000678 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 122586000679 DNA helicase II; Region: uvrD; TIGR01075 122586000680 Part of AAA domain; Region: AAA_19; pfam13245 122586000681 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 122586000682 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 122586000683 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 122586000684 Immunity protein 47; Region: Imm47; pfam15586 122586000685 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 122586000686 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 122586000687 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 122586000688 S-adenosylmethionine binding site [chemical binding]; other site 122586000689 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 122586000690 NADH dehydrogenase subunit B; Validated; Region: PRK06411 122586000691 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 122586000692 NADH dehydrogenase subunit D; Validated; Region: PRK06075 122586000693 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 122586000694 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 122586000695 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 122586000696 putative dimer interface [polypeptide binding]; other site 122586000697 [2Fe-2S] cluster binding site [ion binding]; other site 122586000698 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 122586000699 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 122586000700 SLBB domain; Region: SLBB; pfam10531 122586000701 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 122586000702 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 122586000703 putative active site [active] 122586000704 GIY-YIG motif/motif A; other site 122586000705 putative metal binding site [ion binding]; other site 122586000706 NADH dehydrogenase subunit G; Validated; Region: PRK09129 122586000707 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 122586000708 catalytic loop [active] 122586000709 iron binding site [ion binding]; other site 122586000710 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 122586000711 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 122586000712 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 122586000713 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 122586000714 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 122586000715 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 122586000716 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 122586000717 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 122586000718 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 122586000719 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 122586000720 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 122586000721 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 122586000722 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 122586000723 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 122586000724 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 122586000725 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 122586000726 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 122586000727 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 122586000728 substrate binding pocket [chemical binding]; other site 122586000729 chain length determination region; other site 122586000730 substrate-Mg2+ binding site; other site 122586000731 catalytic residues [active] 122586000732 aspartate-rich region 1; other site 122586000733 active site lid residues [active] 122586000734 aspartate-rich region 2; other site 122586000735 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 122586000736 GTPase RsgA; Reviewed; Region: PRK00098 122586000737 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 122586000738 RNA binding site [nucleotide binding]; other site 122586000739 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 122586000740 GTPase/Zn-binding domain interface [polypeptide binding]; other site 122586000741 GTP/Mg2+ binding site [chemical binding]; other site 122586000742 G4 box; other site 122586000743 G5 box; other site 122586000744 G1 box; other site 122586000745 Switch I region; other site 122586000746 G2 box; other site 122586000747 G3 box; other site 122586000748 Switch II region; other site 122586000749 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 122586000750 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 122586000751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 122586000752 Walker A/P-loop; other site 122586000753 ATP binding site [chemical binding]; other site 122586000754 Q-loop/lid; other site 122586000755 ABC transporter signature motif; other site 122586000756 Walker B; other site 122586000757 D-loop; other site 122586000758 H-loop/switch region; other site 122586000759 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 122586000760 RuvA N terminal domain; Region: RuvA_N; pfam01330 122586000761 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 122586000762 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 122586000763 Predicted membrane protein [Function unknown]; Region: COG3212 122586000764 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 122586000765 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 122586000766 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 122586000767 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 122586000768 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 122586000769 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 122586000770 active site 122586000771 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 122586000772 Putative lysophospholipase; Region: Hydrolase_4; cl19140 122586000773 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 122586000774 TAP-like protein; Region: Abhydrolase_4; pfam08386 122586000775 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 122586000776 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 122586000777 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 122586000778 ATP binding site [chemical binding]; other site 122586000779 putative Mg++ binding site [ion binding]; other site 122586000780 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 122586000781 nucleotide binding region [chemical binding]; other site 122586000782 ATP-binding site [chemical binding]; other site 122586000783 RQC domain; Region: RQC; pfam09382 122586000784 HRDC domain; Region: HRDC; pfam00570 122586000785 Helicase and RNase D C-terminal; Region: HRDC; smart00341 122586000786 Helicase and RNase D C-terminal; Region: HRDC; smart00341 122586000787 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 122586000788 active site 122586000789 ribulose/triose binding site [chemical binding]; other site 122586000790 phosphate binding site [ion binding]; other site 122586000791 substrate (anthranilate) binding pocket [chemical binding]; other site 122586000792 product (indole) binding pocket [chemical binding]; other site 122586000793 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 122586000794 Putative lysophospholipase; Region: Hydrolase_4; cl19140 122586000795 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 122586000796 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 122586000797 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 122586000798 catalytic residues [active] 122586000799 hinge region; other site 122586000800 alpha helical domain; other site 122586000801 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 122586000802 Phosphotransferase enzyme family; Region: APH; pfam01636 122586000803 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 122586000804 Organic solvent tolerance protein; Region: OstA_C; pfam04453 122586000805 SurA N-terminal domain; Region: SurA_N; pfam09312 122586000806 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 122586000807 Exoribonuclease R [Transcription]; Region: VacB; COG0557 122586000808 RNB domain; Region: RNB; pfam00773 122586000809 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 122586000810 adenylosuccinate lyase; Provisional; Region: PRK09285 122586000811 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 122586000812 tetramer interface [polypeptide binding]; other site 122586000813 active site 122586000814 Protein of unknown function (DUF533); Region: DUF533; pfam04391 122586000815 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 122586000816 putative metal binding site [ion binding]; other site 122586000817 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 122586000818 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 122586000819 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 122586000820 Transcriptional regulator [Transcription]; Region: LysR; COG0583 122586000821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 122586000822 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 122586000823 putative effector binding pocket; other site 122586000824 dimerization interface [polypeptide binding]; other site 122586000825 Predicted membrane protein [Function unknown]; Region: COG2259 122586000826 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 122586000827 dimer interface [polypeptide binding]; other site 122586000828 FMN binding site [chemical binding]; other site 122586000829 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 122586000830 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 122586000831 N-terminal plug; other site 122586000832 ligand-binding site [chemical binding]; other site 122586000833 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 122586000834 catalytic residues [active] 122586000835 hinge region; other site 122586000836 alpha helical domain; other site 122586000837 signal recognition particle protein; Provisional; Region: PRK10867 122586000838 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 122586000839 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 122586000840 P loop; other site 122586000841 GTP binding site [chemical binding]; other site 122586000842 Signal peptide binding domain; Region: SRP_SPB; pfam02978 122586000843 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 122586000844 comEA protein; Region: comE; TIGR01259 122586000845 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 122586000846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 122586000847 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 122586000848 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 122586000849 folate binding site [chemical binding]; other site 122586000850 NADP+ binding site [chemical binding]; other site 122586000851 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 122586000852 putative active site [active] 122586000853 putative metal binding residues [ion binding]; other site 122586000854 signature motif; other site 122586000855 putative dimer interface [polypeptide binding]; other site 122586000856 putative phosphate binding site [ion binding]; other site 122586000857 Predicted membrane protein [Function unknown]; Region: COG1981 122586000858 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 122586000859 Autotransporter beta-domain; Region: Autotransporter; pfam03797 122586000860 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 122586000861 binding surface 122586000862 Tetratricopeptide repeat; Region: TPR_16; pfam13432 122586000863 TPR motif; other site 122586000864 Protein of unknown function (DUF560); Region: DUF560; pfam04575 122586000865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 122586000866 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 122586000867 Peptidase family M23; Region: Peptidase_M23; pfam01551 122586000868 hypothetical protein; Provisional; Region: PRK11212 122586000869 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 122586000870 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 122586000871 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 122586000872 HlyD family secretion protein; Region: HlyD_3; pfam13437 122586000873 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 122586000874 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 122586000875 putative substrate translocation pore; other site 122586000876 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 122586000877 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 122586000878 Squalene epoxidase; Region: SE; cl17314 122586000879 hypothetical protein; Provisional; Region: PRK09126 122586000880 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 122586000881 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 122586000882 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 122586000883 substrate binding pocket [chemical binding]; other site 122586000884 chain length determination region; other site 122586000885 substrate-Mg2+ binding site; other site 122586000886 catalytic residues [active] 122586000887 aspartate-rich region 1; other site 122586000888 active site lid residues [active] 122586000889 aspartate-rich region 2; other site 122586000890 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 122586000891 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 122586000892 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 122586000893 Walker A motif; other site 122586000894 ATP binding site [chemical binding]; other site 122586000895 Walker B motif; other site 122586000896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 122586000897 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 122586000898 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 122586000899 CoA-binding site [chemical binding]; other site 122586000900 ATP-binding [chemical binding]; other site 122586000901 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 122586000902 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 122586000903 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 122586000904 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 122586000905 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 122586000906 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 122586000907 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 122586000908 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 122586000909 active site 122586000910 dimer interface [polypeptide binding]; other site 122586000911 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 122586000912 dimer interface [polypeptide binding]; other site 122586000913 active site 122586000914 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 122586000915 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 122586000916 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 122586000917 trimer interface [polypeptide binding]; other site 122586000918 active site 122586000919 substrate binding site [chemical binding]; other site 122586000920 CoA binding site [chemical binding]; other site 122586000921 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 122586000922 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 122586000923 NAD binding site [chemical binding]; other site 122586000924 homotetramer interface [polypeptide binding]; other site 122586000925 homodimer interface [polypeptide binding]; other site 122586000926 substrate binding site [chemical binding]; other site 122586000927 active site 122586000928 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 122586000929 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 122586000930 homodimer interface [polypeptide binding]; other site 122586000931 substrate-cofactor binding pocket; other site 122586000932 catalytic residue [active] 122586000933 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 122586000934 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 122586000935 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 122586000936 TPR motif; other site 122586000937 binding surface 122586000938 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 122586000939 dimer interface [polypeptide binding]; other site 122586000940 active site 122586000941 metal binding site [ion binding]; metal-binding site 122586000942 glutathione binding site [chemical binding]; other site 122586000943 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 122586000944 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 122586000945 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 122586000946 intracellular septation protein A; Reviewed; Region: PRK00259 122586000947 YCII-related domain; Region: YCII; cl00999 122586000948 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 122586000949 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 122586000950 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 122586000951 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 122586000952 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 122586000953 putative active site [active] 122586000954 dimerization interface [polypeptide binding]; other site 122586000955 putative tRNAtyr binding site [nucleotide binding]; other site 122586000956 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 122586000957 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 122586000958 FMN binding site [chemical binding]; other site 122586000959 active site 122586000960 catalytic residues [active] 122586000961 substrate binding site [chemical binding]; other site 122586000962 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 122586000963 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 122586000964 active site 122586000965 nucleotide binding site [chemical binding]; other site 122586000966 HIGH motif; other site 122586000967 KMSKS motif; other site 122586000968 Immunity protein 47; Region: Imm47; pfam15586 122586000969 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 122586000970 putative active site [active] 122586000971 catalytic residue [active] 122586000972 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 122586000973 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 122586000974 putative active site [active] 122586000975 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 122586000976 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 122586000977 active site 122586000978 motif I; other site 122586000979 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 122586000980 motif II; other site 122586000981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 122586000982 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 122586000983 OstA-like protein; Region: OstA; pfam03968 122586000984 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 122586000985 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 122586000986 Walker A/P-loop; other site 122586000987 ATP binding site [chemical binding]; other site 122586000988 Q-loop/lid; other site 122586000989 ABC transporter signature motif; other site 122586000990 Walker B; other site 122586000991 D-loop; other site 122586000992 H-loop/switch region; other site 122586000993 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 122586000994 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 122586000995 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 122586000996 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 122586000997 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 122586000998 shikimate binding site; other site 122586000999 NAD(P) binding site [chemical binding]; other site 122586001000 glutamine synthetase; Provisional; Region: glnA; PRK09469 122586001001 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 122586001002 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 122586001003 Major Facilitator Superfamily; Region: MFS_1; pfam07690 122586001004 AmpG-like permease; Region: 2A0125; TIGR00901 122586001005 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 122586001006 GIY-YIG motif/motif A; other site 122586001007 putative active site [active] 122586001008 putative metal binding site [ion binding]; other site 122586001009 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 122586001010 Immunity protein 22; Region: Imm22; pfam15592 122586001011 Pretoxin HINT domain; Region: PT-HINT; pfam07591 122586001012 Immunity protein 22; Region: Imm22; pfam15592 122586001013 Immunity protein 22; Region: Imm22; pfam15592 122586001014 Pretoxin HINT domain; Region: PT-HINT; pfam07591 122586001015 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 122586001016 thioester formation/cholesterol transfer; other site 122586001017 protein-splicing catalytic site; other site 122586001018 Putative toxin 46; Region: Toxin_46; pfam15526 122586001019 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 122586001020 Restriction endonuclease fold toxin 3; Region: Tox-REase-3; pfam15647 122586001021 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 122586001022 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 122586001023 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 122586001024 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 122586001025 FeS/SAM binding site; other site 122586001026 HemN C-terminal domain; Region: HemN_C; pfam06969 122586001027 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 122586001028 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 122586001029 ligand binding site [chemical binding]; other site 122586001030 flexible hinge region; other site 122586001031 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 122586001032 putative switch regulator; other site 122586001033 non-specific DNA interactions [nucleotide binding]; other site 122586001034 DNA binding site [nucleotide binding] 122586001035 sequence specific DNA binding site [nucleotide binding]; other site 122586001036 putative cAMP binding site [chemical binding]; other site 122586001037 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 122586001038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 122586001039 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 122586001040 substrate binding site [chemical binding]; other site 122586001041 dimerization interface [polypeptide binding]; other site 122586001042 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 122586001043 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 122586001044 ligand binding site [chemical binding]; other site 122586001045 thiamine-monophosphate kinase; Region: thiL; TIGR01379 122586001046 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 122586001047 ATP binding site [chemical binding]; other site 122586001048 dimerization interface [polypeptide binding]; other site 122586001049 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 122586001050 tetramer interfaces [polypeptide binding]; other site 122586001051 binuclear metal-binding site [ion binding]; other site 122586001052 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 122586001053 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 122586001054 ABC transporter; Region: ABC_tran_2; pfam12848 122586001055 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 122586001056 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 122586001057 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 122586001058 putative substrate translocation pore; other site 122586001059 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 122586001060 active site 122586001061 catalytic residues [active] 122586001062 maltose phosphorylase; Provisional; Region: PRK13807 122586001063 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 122586001064 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 122586001065 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 122586001066 beta-phosphoglucomutase; Region: bPGM; TIGR01990 122586001067 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 122586001068 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 122586001069 motif II; other site 122586001070 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 122586001071 L-aspartate oxidase; Provisional; Region: PRK06175 122586001072 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 122586001073 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 122586001074 quinolinate synthetase; Provisional; Region: PRK09375 122586001075 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 122586001076 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 122586001077 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 122586001078 dimerization interface [polypeptide binding]; other site 122586001079 active site 122586001080 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 122586001081 dimerization interface [polypeptide binding]; other site 122586001082 putative DNA binding site [nucleotide binding]; other site 122586001083 putative Zn2+ binding site [ion binding]; other site 122586001084 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 122586001085 putative catalytic site [active] 122586001086 putative phosphate binding site [ion binding]; other site 122586001087 active site 122586001088 metal binding site A [ion binding]; metal-binding site 122586001089 DNA binding site [nucleotide binding] 122586001090 putative AP binding site [nucleotide binding]; other site 122586001091 putative metal binding site B [ion binding]; other site 122586001092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 122586001093 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 122586001094 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 122586001095 DNA-binding domain of Proline dehydrogenase; Region: Pro_dh-DNA_bdg; pfam14850 122586001096 Proline dehydrogenase; Region: Pro_dh; pfam01619 122586001097 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 122586001098 Glutamate binding site [chemical binding]; other site 122586001099 NAD binding site [chemical binding]; other site 122586001100 catalytic residues [active] 122586001101 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 122586001102 Na binding site [ion binding]; other site 122586001103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 122586001104 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 122586001105 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 122586001106 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 122586001107 Walker A motif; other site 122586001108 ATP binding site [chemical binding]; other site 122586001109 Walker B motif; other site 122586001110 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 122586001111 cell division protein FtsN; Region: ftsN; TIGR02223 122586001112 Sporulation related domain; Region: SPOR; pfam05036 122586001113 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 122586001114 catalytic residues [active] 122586001115 hinge region; other site 122586001116 alpha helical domain; other site 122586001117 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 122586001118 Uncharacterized conserved protein [Function unknown]; Region: COG1565 122586001119 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 122586001120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 122586001121 MraZ protein; Region: MraZ; pfam02381 122586001122 MraZ protein; Region: MraZ; pfam02381 122586001123 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 122586001124 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 122586001125 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 122586001126 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 122586001127 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 122586001128 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 122586001129 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 122586001130 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 122586001131 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 122586001132 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 122586001133 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 122586001134 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 122586001135 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 122586001136 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 122586001137 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 122586001138 Mg++ binding site [ion binding]; other site 122586001139 putative catalytic motif [active] 122586001140 putative substrate binding site [chemical binding]; other site 122586001141 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 122586001142 Sel1-like repeats; Region: SEL1; smart00671 122586001143 Sel1-like repeats; Region: SEL1; smart00671 122586001144 Sel1-like repeats; Region: SEL1; smart00671 122586001145 Sel1-like repeats; Region: SEL1; smart00671 122586001146 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 122586001147 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 122586001148 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 122586001149 cell division protein FtsW; Region: ftsW; TIGR02614 122586001150 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 122586001151 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 122586001152 active site 122586001153 homodimer interface [polypeptide binding]; other site 122586001154 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 122586001155 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 122586001156 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 122586001157 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 122586001158 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 122586001159 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 122586001160 ATP-grasp domain; Region: ATP-grasp_4; cl17255 122586001161 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 122586001162 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 122586001163 Cell division protein FtsQ; Region: FtsQ; pfam03799 122586001164 cell division protein FtsA; Region: ftsA; TIGR01174 122586001165 Cell division protein FtsA; Region: FtsA; smart00842 122586001166 Cell division protein FtsA; Region: FtsA; pfam14450 122586001167 cell division protein FtsZ; Validated; Region: PRK09330 122586001168 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 122586001169 nucleotide binding site [chemical binding]; other site 122586001170 SulA interaction site; other site 122586001171 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 122586001172 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 122586001173 tetramer interface [polypeptide binding]; other site 122586001174 active site 122586001175 Mg2+/Mn2+ binding site [ion binding]; other site 122586001176 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 122586001177 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 122586001178 dimer interface [polypeptide binding]; other site 122586001179 active site 122586001180 citrylCoA binding site [chemical binding]; other site 122586001181 oxalacetate/citrate binding site [chemical binding]; other site 122586001182 coenzyme A binding site [chemical binding]; other site 122586001183 catalytic triad [active] 122586001184 hypothetical protein; Provisional; Region: PRK10621 122586001185 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 122586001186 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 122586001187 substrate binding site [chemical binding]; other site 122586001188 ligand binding site [chemical binding]; other site 122586001189 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 122586001190 substrate binding site [chemical binding]; other site 122586001191 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 122586001192 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 122586001193 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 122586001194 Transcriptional regulator; Region: Rrf2; cl17282 122586001195 Rrf2 family protein; Region: rrf2_super; TIGR00738 122586001196 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 122586001197 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 122586001198 prephenate dehydrogenase; Validated; Region: PRK08507 122586001199 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 122586001200 putative active site [active] 122586001201 catalytic triad [active] 122586001202 dimer interface [polypeptide binding]; other site 122586001203 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 122586001204 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586001205 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586001206 Homeodomain-like domain; Region: HTH_32; pfam13565 122586001207 Integrase core domain; Region: rve; pfam00665 122586001208 EamA-like transporter family; Region: EamA; pfam00892 122586001209 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 122586001210 EamA-like transporter family; Region: EamA; pfam00892 122586001211 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 122586001212 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 122586001213 putative substrate translocation pore; other site 122586001214 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 122586001215 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 122586001216 Prephenate dehydratase; Region: PDT; pfam00800 122586001217 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 122586001218 putative L-Phe binding site [chemical binding]; other site 122586001219 Recombination protein O N terminal; Region: RecO_N; pfam11967 122586001220 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 122586001221 Recombination protein O C terminal; Region: RecO_C; pfam02565 122586001222 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 122586001223 active site 122586001224 hydrophilic channel; other site 122586001225 dimerization interface [polypeptide binding]; other site 122586001226 catalytic residues [active] 122586001227 active site lid [active] 122586001228 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 122586001229 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 122586001230 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 122586001231 active site 122586001232 8-oxo-dGMP binding site [chemical binding]; other site 122586001233 nudix motif; other site 122586001234 metal binding site [ion binding]; metal-binding site 122586001235 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 122586001236 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 122586001237 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 122586001238 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 122586001239 AMIN domain; Region: AMIN; pfam11741 122586001240 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 122586001241 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 122586001242 active site 122586001243 metal binding site [ion binding]; metal-binding site 122586001244 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 122586001245 glutamate racemase; Provisional; Region: PRK00865 122586001246 Fic family protein [Function unknown]; Region: COG3177 122586001247 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 122586001248 Fic/DOC family; Region: Fic; pfam02661 122586001249 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 122586001250 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 122586001251 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 122586001252 N-terminal plug; other site 122586001253 ligand-binding site [chemical binding]; other site 122586001254 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 122586001255 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 122586001256 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 122586001257 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 122586001258 dimerization interface [polypeptide binding]; other site 122586001259 substrate binding site [chemical binding]; other site 122586001260 active site 122586001261 calcium binding site [ion binding]; other site 122586001262 Uncharacterized conserved protein [Function unknown]; Region: COG2928 122586001263 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 122586001264 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 122586001265 dimer interface [polypeptide binding]; other site 122586001266 anticodon binding site; other site 122586001267 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 122586001268 homodimer interface [polypeptide binding]; other site 122586001269 motif 1; other site 122586001270 active site 122586001271 motif 2; other site 122586001272 GAD domain; Region: GAD; pfam02938 122586001273 motif 3; other site 122586001274 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 122586001275 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 122586001276 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 122586001277 dimer interface [polypeptide binding]; other site 122586001278 active site 122586001279 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 122586001280 catalytic residues [active] 122586001281 substrate binding site [chemical binding]; other site 122586001282 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 122586001283 oligomer interface [polypeptide binding]; other site 122586001284 putative active site [active] 122586001285 Mn binding site [ion binding]; other site 122586001286 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 122586001287 anion transporter; Region: dass; TIGR00785 122586001288 transmembrane helices; other site 122586001289 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 122586001290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 122586001291 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 122586001292 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 122586001293 substrate-cofactor binding pocket; other site 122586001294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586001295 catalytic residue [active] 122586001296 Protein of unknown function (DUF452); Region: DUF452; pfam04301 122586001297 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 122586001298 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 122586001299 S-adenosylmethionine binding site [chemical binding]; other site 122586001300 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 122586001301 active site 122586001302 phosphorylation site [posttranslational modification] 122586001303 intermolecular recognition site; other site 122586001304 dimerization interface [polypeptide binding]; other site 122586001305 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 122586001306 G1 box; other site 122586001307 GTP/Mg2+ binding site [chemical binding]; other site 122586001308 G2 box; other site 122586001309 Switch I region; other site 122586001310 G3 box; other site 122586001311 Switch II region; other site 122586001312 G4 box; other site 122586001313 G5 box; other site 122586001314 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 122586001315 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 122586001316 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 122586001317 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 122586001318 Replication initiation factor; Region: Rep_trans; pfam02486 122586001319 Inhibitor of the contact-dependent growth inhibition (CDI) system of Escherichia coli EC869, and related proteins; Region: CDI_inhibitor_EC869_like; cd13445 122586001320 CDI toxin binding surface [polypeptide binding]; other site 122586001321 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 122586001322 haemagglutination activity domain; Region: Haemagg_act; pfam05860 122586001323 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586001324 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 122586001325 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 122586001326 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 122586001327 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 122586001328 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 122586001329 Initiator Replication protein; Region: Rep_3; pfam01051 122586001330 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 122586001331 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 122586001332 haemagglutination activity domain; Region: Haemagg_act; pfam05860 122586001333 Protein of unknown function (DUF342); Region: DUF342; cl19219 122586001334 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586001335 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 122586001336 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 122586001337 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586001338 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 122586001339 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 122586001340 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586001341 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 122586001342 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 122586001343 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 122586001344 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586001345 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 122586001346 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 122586001347 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 122586001348 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586001349 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 122586001350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 122586001351 Immunity protein 29; Region: Imm29; pfam15575 122586001352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 122586001353 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 122586001354 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 122586001355 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 122586001356 Ligand Binding Site [chemical binding]; other site 122586001357 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 122586001358 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 122586001359 active site 122586001360 Predicted membrane protein [Function unknown]; Region: COG3759 122586001361 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 122586001362 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 122586001363 FeS/SAM binding site; other site 122586001364 beta-hexosaminidase; Provisional; Region: PRK05337 122586001365 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 122586001366 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 122586001367 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 122586001368 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 122586001369 PDZ domain of trypsin-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 122586001370 protein binding site [polypeptide binding]; other site 122586001371 PDZ domain of trypsin-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 122586001372 protein binding site [polypeptide binding]; other site 122586001373 endonuclease III; Provisional; Region: PRK10702 122586001374 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 122586001375 minor groove reading motif; other site 122586001376 helix-hairpin-helix signature motif; other site 122586001377 substrate binding pocket [chemical binding]; other site 122586001378 active site 122586001379 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 122586001380 Predicted membrane protein [Function unknown]; Region: COG1238 122586001381 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 122586001382 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 122586001383 putative substrate translocation pore; other site 122586001384 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 122586001385 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 122586001386 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 122586001387 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 122586001388 Transporter associated domain; Region: CorC_HlyC; smart01091 122586001389 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 122586001390 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 122586001391 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 122586001392 domain interfaces; other site 122586001393 active site 122586001394 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 122586001395 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 122586001396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586001397 homodimer interface [polypeptide binding]; other site 122586001398 catalytic residue [active] 122586001399 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 122586001400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 122586001401 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 122586001402 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 122586001403 putative active site [active] 122586001404 putative metal binding site [ion binding]; other site 122586001405 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 122586001406 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 122586001407 Walker A/P-loop; other site 122586001408 ATP binding site [chemical binding]; other site 122586001409 Q-loop/lid; other site 122586001410 Microvirus H protein (pilot protein); Region: Microvir_H; cl11620 122586001411 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 122586001412 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 122586001413 ABC transporter signature motif; other site 122586001414 Walker B; other site 122586001415 D-loop; other site 122586001416 H-loop/switch region; other site 122586001417 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 122586001418 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 122586001419 NAD binding site [chemical binding]; other site 122586001420 substrate binding site [chemical binding]; other site 122586001421 catalytic Zn binding site [ion binding]; other site 122586001422 tetramer interface [polypeptide binding]; other site 122586001423 structural Zn binding site [ion binding]; other site 122586001424 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 122586001425 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 122586001426 macrolide transporter subunit MacA; Provisional; Region: PRK11578 122586001427 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 122586001428 HlyD family secretion protein; Region: HlyD_3; pfam13437 122586001429 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 122586001430 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 122586001431 Walker A/P-loop; other site 122586001432 ATP binding site [chemical binding]; other site 122586001433 Q-loop/lid; other site 122586001434 ABC transporter signature motif; other site 122586001435 Walker B; other site 122586001436 D-loop; other site 122586001437 H-loop/switch region; other site 122586001438 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 122586001439 FtsX-like permease family; Region: FtsX; pfam02687 122586001440 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 122586001441 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 122586001442 dimerization domain [polypeptide binding]; other site 122586001443 dimer interface [polypeptide binding]; other site 122586001444 catalytic residues [active] 122586001445 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 122586001446 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 122586001447 ATP binding site [chemical binding]; other site 122586001448 putative Mg++ binding site [ion binding]; other site 122586001449 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]; Region: COG2888; cl19729 122586001450 helicase superfamily c-terminal domain; Region: HELICc; smart00490 122586001451 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 122586001452 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 122586001453 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 122586001454 nucleotide binding site [chemical binding]; other site 122586001455 Predicted transcriptional regulator [Transcription]; Region: COG2932 122586001456 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 122586001457 Catalytic site [active] 122586001458 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 122586001459 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 122586001460 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 122586001461 serine acetyltransferase; Provisional; Region: cysE; PRK11132 122586001462 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 122586001463 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 122586001464 trimer interface [polypeptide binding]; other site 122586001465 active site 122586001466 substrate binding site [chemical binding]; other site 122586001467 CoA binding site [chemical binding]; other site 122586001468 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 122586001469 dimer interface [polypeptide binding]; other site 122586001470 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 122586001471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 122586001472 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 122586001473 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 122586001474 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 122586001475 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 122586001476 FAD binding pocket [chemical binding]; other site 122586001477 FAD binding motif [chemical binding]; other site 122586001478 phosphate binding motif [ion binding]; other site 122586001479 beta-alpha-beta structure motif; other site 122586001480 NAD binding pocket [chemical binding]; other site 122586001481 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 122586001482 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 122586001483 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 122586001484 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 122586001485 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 122586001486 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 122586001487 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 122586001488 lipoyl-biotinyl attachment site [posttranslational modification]; other site 122586001489 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 122586001490 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 122586001491 transmembrane helices; other site 122586001492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 122586001493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 122586001494 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 122586001495 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 122586001496 putative DNA binding site [nucleotide binding]; other site 122586001497 putative Zn2+ binding site [ion binding]; other site 122586001498 AsnC family; Region: AsnC_trans_reg; pfam01037 122586001499 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 122586001500 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 122586001501 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 122586001502 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 122586001503 lipoyl attachment site [posttranslational modification]; other site 122586001504 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 122586001505 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 122586001506 tRNA; other site 122586001507 putative tRNA binding site [nucleotide binding]; other site 122586001508 putative NADP binding site [chemical binding]; other site 122586001509 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 122586001510 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 122586001511 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 122586001512 Domain present in carbohydrate binding proteins and sugar hydrolses; Region: CASH; smart00722 122586001513 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 122586001514 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 122586001515 Walker A/P-loop; other site 122586001516 ATP binding site [chemical binding]; other site 122586001517 Q-loop/lid; other site 122586001518 ABC transporter signature motif; other site 122586001519 Walker B; other site 122586001520 D-loop; other site 122586001521 H-loop/switch region; other site 122586001522 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 122586001523 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 122586001524 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 122586001525 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 122586001526 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; cl19102 122586001527 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 122586001528 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 122586001529 putative active site [active] 122586001530 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 122586001531 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 122586001532 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 122586001533 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 122586001534 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 122586001535 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 122586001536 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 122586001537 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 122586001538 metal binding site [ion binding]; metal-binding site 122586001539 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 122586001540 ABC-ATPase subunit interface; other site 122586001541 dimer interface [polypeptide binding]; other site 122586001542 putative PBP binding regions; other site 122586001543 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 122586001544 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 122586001545 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 122586001546 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 122586001547 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 122586001548 RimM N-terminal domain; Region: RimM; pfam01782 122586001549 PRC-barrel domain; Region: PRC; pfam05239 122586001550 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 122586001551 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 122586001552 CoA binding domain; Region: CoA_binding_2; pfam13380 122586001553 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 122586001554 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 122586001555 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 122586001556 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 122586001557 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 122586001558 dimerization interface [polypeptide binding]; other site 122586001559 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 122586001560 dimer interface [polypeptide binding]; other site 122586001561 phosphorylation site [posttranslational modification] 122586001562 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 122586001563 ATP binding site [chemical binding]; other site 122586001564 Mg2+ binding site [ion binding]; other site 122586001565 G-X-G motif; other site 122586001566 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 122586001567 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 122586001568 active site 122586001569 phosphorylation site [posttranslational modification] 122586001570 intermolecular recognition site; other site 122586001571 dimerization interface [polypeptide binding]; other site 122586001572 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 122586001573 DNA binding site [nucleotide binding] 122586001574 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 122586001575 O-Antigen ligase; Region: Wzy_C; pfam04932 122586001576 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 122586001577 Predicted membrane protein [Function unknown]; Region: COG3308 122586001578 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 122586001579 active site 122586001580 dimer interface [polypeptide binding]; other site 122586001581 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 122586001582 sec-independent translocase; Provisional; Region: PRK04654 122586001583 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 122586001584 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 122586001585 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 122586001586 nucleotide binding site/active site [active] 122586001587 HIT family signature motif; other site 122586001588 catalytic residue [active] 122586001589 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 122586001590 metal binding site [ion binding]; metal-binding site 122586001591 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 122586001592 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 122586001593 putative NAD(P) binding site [chemical binding]; other site 122586001594 catalytic Zn binding site [ion binding]; other site 122586001595 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 122586001596 putative active site [active] 122586001597 Zn binding site [ion binding]; other site 122586001598 Preprotein translocase subunit; Region: YajC; pfam02699 122586001599 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 122586001600 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 122586001601 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 122586001602 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 122586001603 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 122586001604 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 122586001605 Protein export membrane protein; Region: SecD_SecF; pfam02355 122586001606 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 122586001607 16S/18S rRNA binding site [nucleotide binding]; other site 122586001608 S13e-L30e interaction site [polypeptide binding]; other site 122586001609 25S rRNA binding site [nucleotide binding]; other site 122586001610 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 122586001611 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 122586001612 Walker A/P-loop; other site 122586001613 ATP binding site [chemical binding]; other site 122586001614 Q-loop/lid; other site 122586001615 ABC transporter signature motif; other site 122586001616 Walker B; other site 122586001617 D-loop; other site 122586001618 H-loop/switch region; other site 122586001619 TOBE domain; Region: TOBE_2; pfam08402 122586001620 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 122586001621 dimer interface [polypeptide binding]; other site 122586001622 conserved gate region; other site 122586001623 putative PBP binding loops; other site 122586001624 ABC-ATPase subunit interface; other site 122586001625 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 122586001626 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 122586001627 dimer interface [polypeptide binding]; other site 122586001628 conserved gate region; other site 122586001629 putative PBP binding loops; other site 122586001630 ABC-ATPase subunit interface; other site 122586001631 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 122586001632 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 122586001633 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 122586001634 transcription termination factor Rho; Provisional; Region: rho; PRK09376 122586001635 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 122586001636 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 122586001637 RNA binding site [nucleotide binding]; other site 122586001638 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 122586001639 multimer interface [polypeptide binding]; other site 122586001640 Walker A motif; other site 122586001641 ATP binding site [chemical binding]; other site 122586001642 Walker B motif; other site 122586001643 phosphoenolpyruvate synthase; Validated; Region: PRK06464 122586001644 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 122586001645 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 122586001646 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 122586001647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 122586001648 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 122586001649 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 122586001650 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 122586001651 motif II; other site 122586001652 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 122586001653 dinuclear metal binding motif [ion binding]; other site 122586001654 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 122586001655 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 122586001656 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 122586001657 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 122586001658 trimer interface [polypeptide binding]; other site 122586001659 putative metal binding site [ion binding]; other site 122586001660 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 122586001661 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 122586001662 G1 box; other site 122586001663 putative GEF interaction site [polypeptide binding]; other site 122586001664 GTP/Mg2+ binding site [chemical binding]; other site 122586001665 Switch I region; other site 122586001666 G2 box; other site 122586001667 G3 box; other site 122586001668 Switch II region; other site 122586001669 G4 box; other site 122586001670 G5 box; other site 122586001671 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 122586001672 Elongation Factor G, domain II; Region: EFG_II; pfam14492 122586001673 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 122586001674 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 122586001675 substrate binding site [chemical binding]; other site 122586001676 glutamase interaction surface [polypeptide binding]; other site 122586001677 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 122586001678 catalytic residues [active] 122586001679 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 122586001680 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 122586001681 putative active site [active] 122586001682 oxyanion strand; other site 122586001683 catalytic triad [active] 122586001684 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 122586001685 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 122586001686 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 122586001687 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 122586001688 Walker A/P-loop; other site 122586001689 ATP binding site [chemical binding]; other site 122586001690 Q-loop/lid; other site 122586001691 ABC transporter signature motif; other site 122586001692 Walker B; other site 122586001693 D-loop; other site 122586001694 H-loop/switch region; other site 122586001695 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 122586001696 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 122586001697 dimer interface [polypeptide binding]; other site 122586001698 conserved gate region; other site 122586001699 putative PBP binding loops; other site 122586001700 ABC-ATPase subunit interface; other site 122586001701 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 122586001702 dimer interface [polypeptide binding]; other site 122586001703 conserved gate region; other site 122586001704 putative PBP binding loops; other site 122586001705 ABC-ATPase subunit interface; other site 122586001706 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 122586001707 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586001708 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586001709 Homeodomain-like domain; Region: HTH_32; pfam13565 122586001710 Integrase core domain; Region: rve; pfam00665 122586001711 argininosuccinate lyase; Provisional; Region: PRK00855 122586001712 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 122586001713 active sites [active] 122586001714 tetramer interface [polypeptide binding]; other site 122586001715 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 122586001716 active site 122586001717 tetramer interface; other site 122586001718 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 122586001719 active site 122586001720 dimerization interface [polypeptide binding]; other site 122586001721 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 122586001722 dimer interface [polypeptide binding]; other site 122586001723 substrate binding site [chemical binding]; other site 122586001724 metal binding sites [ion binding]; metal-binding site 122586001725 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 122586001726 nudix motif; other site 122586001727 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 122586001728 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 122586001729 RNAase interaction site [polypeptide binding]; other site 122586001730 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 122586001731 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 122586001732 Putative toxin 64; Region: Toxin_64; pfam15542 122586001733 Pretoxin HINT domain; Region: PT-HINT; pfam07591 122586001734 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 122586001735 thioester formation/cholesterol transfer; other site 122586001736 protein-splicing catalytic site; other site 122586001737 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 122586001738 Cation transport protein; Region: TrkH; cl17365 122586001739 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 122586001740 homotrimer interaction site [polypeptide binding]; other site 122586001741 putative active site [active] 122586001742 Opacity family porin protein; Region: Opacity; pfam02462 122586001743 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 122586001744 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 122586001745 FeS/SAM binding site; other site 122586001746 HemN C-terminal domain; Region: HemN_C; pfam06969 122586001747 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 122586001748 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 122586001749 nucleotide binding pocket [chemical binding]; other site 122586001750 K-X-D-G motif; other site 122586001751 catalytic site [active] 122586001752 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 122586001753 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 122586001754 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 122586001755 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 122586001756 Dimer interface [polypeptide binding]; other site 122586001757 BRCT sequence motif; other site 122586001758 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 122586001759 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 122586001760 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 122586001761 amidase catalytic site [active] 122586001762 Zn binding residues [ion binding]; other site 122586001763 substrate binding site [chemical binding]; other site 122586001764 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 122586001765 dimerization interface [polypeptide binding]; other site 122586001766 thymidylate kinase; Validated; Region: tmk; PRK00698 122586001767 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 122586001768 TMP-binding site; other site 122586001769 ATP-binding site [chemical binding]; other site 122586001770 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 122586001771 Malic enzyme, N-terminal domain; Region: malic; pfam00390 122586001772 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 122586001773 putative NAD(P) binding site [chemical binding]; other site 122586001774 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 122586001775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 122586001776 Uncharacterized conserved protein [Function unknown]; Region: COG2835 122586001777 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 122586001778 Ligand binding site; other site 122586001779 oligomer interface; other site 122586001780 conjugal transfer ATP-binding protein TraC; Provisional; Region: PRK13721 122586001781 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 122586001782 substrate binding site [chemical binding]; other site 122586001783 active site 122586001784 catalytic residues [active] 122586001785 heterodimer interface [polypeptide binding]; other site 122586001786 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 122586001787 CNP1-like family; Region: CNP1; pfam08750 122586001788 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 122586001789 CPxP motif; other site 122586001790 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 122586001791 active site 122586001792 substrate binding pocket [chemical binding]; other site 122586001793 dimer interface [polypeptide binding]; other site 122586001794 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 122586001795 putative RNA binding site [nucleotide binding]; other site 122586001796 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 122586001797 homopentamer interface [polypeptide binding]; other site 122586001798 active site 122586001799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 122586001800 ribonuclease III; Reviewed; Region: rnc; PRK00102 122586001801 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 122586001802 dimerization interface [polypeptide binding]; other site 122586001803 active site 122586001804 metal binding site [ion binding]; metal-binding site 122586001805 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 122586001806 dsRNA binding site [nucleotide binding]; other site 122586001807 GTPase Era; Reviewed; Region: era; PRK00089 122586001808 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 122586001809 G1 box; other site 122586001810 GTP/Mg2+ binding site [chemical binding]; other site 122586001811 Switch I region; other site 122586001812 G2 box; other site 122586001813 Switch II region; other site 122586001814 G3 box; other site 122586001815 G4 box; other site 122586001816 G5 box; other site 122586001817 KH domain; Region: KH_2; pfam07650 122586001818 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 122586001819 active site 122586001820 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 122586001821 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 122586001822 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 122586001823 amidophosphoribosyltransferase; Provisional; Region: PRK09246 122586001824 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 122586001825 active site 122586001826 tetramer interface [polypeptide binding]; other site 122586001827 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 122586001828 active site 122586001829 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 122586001830 cell division protein FtsN; Region: ftsN; TIGR02223 122586001831 Sporulation related domain; Region: SPOR; pfam05036 122586001832 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 122586001833 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 122586001834 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 122586001835 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 122586001836 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 122586001837 Walker A/P-loop; other site 122586001838 ATP binding site [chemical binding]; other site 122586001839 Q-loop/lid; other site 122586001840 ABC transporter signature motif; other site 122586001841 Walker B; other site 122586001842 D-loop; other site 122586001843 H-loop/switch region; other site 122586001844 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 122586001845 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 122586001846 putative active site [active] 122586001847 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 122586001848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586001849 catalytic residue [active] 122586001850 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 122586001851 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 122586001852 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 122586001853 Domain of unknown function (DUF4659); Region: DUF4659; pfam15558 122586001854 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 122586001855 Protein of unknown function, DUF601; Region: DUF601; pfam04642 122586001856 Autotransporter beta-domain; Region: Autotransporter; pfam03797 122586001857 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 122586001858 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 122586001859 Competence protein; Region: Competence; pfam03772 122586001860 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 122586001861 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 122586001862 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 122586001863 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 122586001864 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 122586001865 RNA binding surface [nucleotide binding]; other site 122586001866 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 122586001867 active site 122586001868 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 122586001869 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 122586001870 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 122586001871 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 122586001872 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 122586001873 Processivity clamp loader gamma complex DNA pol III C-term; Region: DNA_pol3_delt_C; pfam14840 122586001874 Predicted membrane protein/domain [Function unknown]; Region: COG1714 122586001875 hypothetical protein; Provisional; Region: PRK11820 122586001876 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 122586001877 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 122586001878 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 122586001879 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 122586001880 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 122586001881 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 122586001882 DNA binding residues [nucleotide binding] 122586001883 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 122586001884 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 122586001885 putative active site [active] 122586001886 catalytic triad [active] 122586001887 putative dimer interface [polypeptide binding]; other site 122586001888 potassium/proton antiporter; Reviewed; Region: PRK05326 122586001889 potassium/proton antiporter; Reviewed; Region: PRK05326 122586001890 Transporter associated domain; Region: CorC_HlyC; smart01091 122586001891 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 122586001892 Cytochrome c; Region: Cytochrom_C; pfam00034 122586001893 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 122586001894 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 122586001895 C-terminal domain interface [polypeptide binding]; other site 122586001896 active site 122586001897 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 122586001898 active site 122586001899 N-terminal domain interface [polypeptide binding]; other site 122586001900 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 122586001901 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 122586001902 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 122586001903 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 122586001904 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 122586001905 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 122586001906 active site 122586001907 dimer interface [polypeptide binding]; other site 122586001908 motif 1; other site 122586001909 motif 2; other site 122586001910 motif 3; other site 122586001911 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 122586001912 anticodon binding site; other site 122586001913 translation initiation factor IF-3; Region: infC; TIGR00168 122586001914 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 122586001915 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 122586001916 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 122586001917 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 122586001918 23S rRNA binding site [nucleotide binding]; other site 122586001919 L21 binding site [polypeptide binding]; other site 122586001920 L13 binding site [polypeptide binding]; other site 122586001921 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 122586001922 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 122586001923 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 122586001924 dimer interface [polypeptide binding]; other site 122586001925 motif 1; other site 122586001926 active site 122586001927 motif 2; other site 122586001928 motif 3; other site 122586001929 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 122586001930 cofactor binding site; other site 122586001931 DNA binding site [nucleotide binding] 122586001932 substrate interaction site [chemical binding]; other site 122586001933 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 122586001934 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 122586001935 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 122586001936 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 122586001937 putative tRNA-binding site [nucleotide binding]; other site 122586001938 B3/4 domain; Region: B3_4; pfam03483 122586001939 tRNA synthetase B5 domain; Region: B5; smart00874 122586001940 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 122586001941 dimer interface [polypeptide binding]; other site 122586001942 motif 1; other site 122586001943 motif 3; other site 122586001944 motif 2; other site 122586001945 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 122586001946 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 122586001947 DNA binding site [nucleotide binding] 122586001948 dimer interface [polypeptide binding]; other site 122586001949 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 122586001950 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 122586001951 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 122586001952 inhibitor-cofactor binding pocket; inhibition site 122586001953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586001954 catalytic residue [active] 122586001955 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 122586001956 AAA domain; Region: AAA_26; pfam13500 122586001957 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 122586001958 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 122586001959 putative active site [active] 122586001960 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 122586001961 active site 122586001962 phosphorylation site [posttranslational modification] 122586001963 HPr kinase/phosphorylase; Provisional; Region: PRK05428 122586001964 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 122586001965 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 122586001966 Hpr binding site; other site 122586001967 active site 122586001968 homohexamer subunit interaction site [polypeptide binding]; other site 122586001969 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 122586001970 AAA domain; Region: AAA_33; pfam13671 122586001971 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 122586001972 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 122586001973 GTP/Mg2+ binding site [chemical binding]; other site 122586001974 G4 box; other site 122586001975 G5 box; other site 122586001976 G1 box; other site 122586001977 Switch I region; other site 122586001978 G2 box; other site 122586001979 G3 box; other site 122586001980 Switch II region; other site 122586001981 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 122586001982 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 122586001983 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 122586001984 Walker A/P-loop; other site 122586001985 ATP binding site [chemical binding]; other site 122586001986 Q-loop/lid; other site 122586001987 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 122586001988 ABC transporter signature motif; other site 122586001989 Walker B; other site 122586001990 D-loop; other site 122586001991 H-loop/switch region; other site 122586001992 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 122586001993 FAD dependent oxidoreductase; Region: DAO; pfam01266 122586001994 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 122586001995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 122586001996 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 122586001997 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 122586001998 S-adenosylmethionine binding site [chemical binding]; other site 122586001999 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 122586002000 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 122586002001 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 122586002002 catalytic center binding site [active] 122586002003 ATP binding site [chemical binding]; other site 122586002004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 122586002005 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 122586002006 S-adenosylmethionine binding site [chemical binding]; other site 122586002007 bacterial Hfq-like; Region: Hfq; cd01716 122586002008 hexamer interface [polypeptide binding]; other site 122586002009 Sm1 motif; other site 122586002010 RNA binding site [nucleotide binding]; other site 122586002011 Sm2 motif; other site 122586002012 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 122586002013 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 122586002014 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 122586002015 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 122586002016 catalytic triad [active] 122586002017 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 122586002018 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 122586002019 active site 122586002020 Int/Topo IB signature motif; other site 122586002021 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 122586002022 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 122586002023 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 122586002024 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 122586002025 NADP binding site [chemical binding]; other site 122586002026 active site 122586002027 putative substrate binding site [chemical binding]; other site 122586002028 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 122586002029 ATP binding site [chemical binding]; other site 122586002030 active site 122586002031 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 122586002032 substrate binding site [chemical binding]; other site 122586002033 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 122586002034 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 122586002035 RNase E interface [polypeptide binding]; other site 122586002036 trimer interface [polypeptide binding]; other site 122586002037 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 122586002038 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 122586002039 RNase E interface [polypeptide binding]; other site 122586002040 trimer interface [polypeptide binding]; other site 122586002041 active site 122586002042 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 122586002043 putative nucleic acid binding region [nucleotide binding]; other site 122586002044 G-X-X-G motif; other site 122586002045 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 122586002046 RNA binding site [nucleotide binding]; other site 122586002047 domain interface; other site 122586002048 Uncharacterized conserved protein [Function unknown]; Region: COG2836 122586002049 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 122586002050 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 122586002051 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 122586002052 cysteine synthase; Region: PLN02565 122586002053 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 122586002054 dimer interface [polypeptide binding]; other site 122586002055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586002056 catalytic residue [active] 122586002057 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 122586002058 EamA-like transporter family; Region: EamA; pfam00892 122586002059 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 122586002060 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 122586002061 Catalytic site [active] 122586002062 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 122586002063 GTP-binding protein LepA; Provisional; Region: PRK05433 122586002064 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 122586002065 G1 box; other site 122586002066 putative GEF interaction site [polypeptide binding]; other site 122586002067 GTP/Mg2+ binding site [chemical binding]; other site 122586002068 Switch I region; other site 122586002069 G2 box; other site 122586002070 G3 box; other site 122586002071 Switch II region; other site 122586002072 G4 box; other site 122586002073 G5 box; other site 122586002074 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 122586002075 Elongation Factor G, domain II; Region: EFG_II; pfam14492 122586002076 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 122586002077 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 122586002078 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 122586002079 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 122586002080 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 122586002081 Walker A motif; other site 122586002082 ATP binding site [chemical binding]; other site 122586002083 Walker B motif; other site 122586002084 DNA polymerase III subunit delta'; Validated; Region: PRK08699 122586002085 DNA polymerase III subunit delta'; Validated; Region: PRK08485 122586002086 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 122586002087 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 122586002088 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 122586002089 active site 122586002090 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 122586002091 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 122586002092 putative GSH binding site [chemical binding]; other site 122586002093 catalytic residues [active] 122586002094 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 122586002095 active site 122586002096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 122586002097 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 122586002098 active site 122586002099 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 122586002100 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 122586002101 HemY protein N-terminus; Region: HemY_N; pfam07219 122586002102 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 122586002103 substrate binding site [chemical binding]; other site 122586002104 active site 122586002105 DNA repair protein RadA; Provisional; Region: PRK11823 122586002106 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 122586002107 Walker A motif/ATP binding site; other site 122586002108 ATP binding site [chemical binding]; other site 122586002109 Walker B motif; other site 122586002110 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 122586002111 Uncharacterized conserved protein [Function unknown]; Region: COG3439 122586002112 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 122586002113 active site residue [active] 122586002114 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 122586002115 Part of AAA domain; Region: AAA_19; pfam13245 122586002116 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 122586002117 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 122586002118 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 122586002119 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 122586002120 substrate binding pocket [chemical binding]; other site 122586002121 membrane-bound complex binding site; other site 122586002122 hinge residues; other site 122586002123 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 122586002124 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 122586002125 dimer interface [polypeptide binding]; other site 122586002126 conserved gate region; other site 122586002127 putative PBP binding loops; other site 122586002128 ABC-ATPase subunit interface; other site 122586002129 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 122586002130 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 122586002131 Walker A/P-loop; other site 122586002132 ATP binding site [chemical binding]; other site 122586002133 Q-loop/lid; other site 122586002134 ABC transporter signature motif; other site 122586002135 Walker B; other site 122586002136 D-loop; other site 122586002137 H-loop/switch region; other site 122586002138 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 122586002139 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 122586002140 active site 122586002141 substrate binding site [chemical binding]; other site 122586002142 metal binding site [ion binding]; metal-binding site 122586002143 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 122586002144 active site 122586002145 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 122586002146 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 122586002147 transmembrane helices; other site 122586002148 VanZ like family; Region: VanZ; cl01971 122586002149 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 122586002150 putative active site [active] 122586002151 catalytic residue [active] 122586002152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 122586002153 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 122586002154 putative coenzyme Q binding site [chemical binding]; other site 122586002155 FtsH Extracellular; Region: FtsH_ext; pfam06480 122586002156 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 122586002157 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 122586002158 Walker A motif; other site 122586002159 ATP binding site [chemical binding]; other site 122586002160 Walker B motif; other site 122586002161 arginine finger; other site 122586002162 Peptidase family M41; Region: Peptidase_M41; pfam01434 122586002163 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 122586002164 S-adenosylmethionine binding site [chemical binding]; other site 122586002165 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 122586002166 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 122586002167 dimer interface [polypeptide binding]; other site 122586002168 active site 122586002169 aspartate-rich active site metal binding site; other site 122586002170 allosteric magnesium binding site [ion binding]; other site 122586002171 Schiff base residues; other site 122586002172 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 122586002173 homodimer interface [polypeptide binding]; other site 122586002174 substrate-cofactor binding pocket; other site 122586002175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586002176 catalytic residue [active] 122586002177 putative GTP cyclohydrolase; Provisional; Region: PRK13674 122586002178 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 122586002179 dimer interface [polypeptide binding]; other site 122586002180 FMN binding site [chemical binding]; other site 122586002181 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586002182 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586002183 Homeodomain-like domain; Region: HTH_32; pfam13565 122586002184 Integrase core domain; Region: rve; pfam00665 122586002185 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 122586002186 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 122586002187 RNA binding surface [nucleotide binding]; other site 122586002188 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 122586002189 active site 122586002190 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 122586002191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 122586002192 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 122586002193 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 122586002194 putative NAD(P) binding site [chemical binding]; other site 122586002195 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 122586002196 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 122586002197 Bacterial transcriptional repressor; Region: TetR; pfam13972 122586002198 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 122586002199 FAD binding domain; Region: FAD_binding_4; pfam01565 122586002200 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 122586002201 multidrug efflux protein; Reviewed; Region: PRK01766 122586002202 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 122586002203 cation binding site [ion binding]; other site 122586002204 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 122586002205 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 122586002206 motif 1; other site 122586002207 dimer interface [polypeptide binding]; other site 122586002208 active site 122586002209 motif 2; other site 122586002210 motif 3; other site 122586002211 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 122586002212 GDP-binding site [chemical binding]; other site 122586002213 ACT binding site; other site 122586002214 IMP binding site; other site 122586002215 Protein of unknown function (DUF723); Region: DUF723; pfam05265 122586002216 Protein of unknown function (DUF723); Region: DUF723; pfam05265 122586002217 Protein of unknown function (DUF723); Region: DUF723; pfam05265 122586002218 Intron encoded nuclease repeat motif; Region: IENR1; smart00497 122586002219 Protein of unknown function (DUF723); Region: DUF723; pfam05265 122586002220 NUMOD1 domain; Region: NUMOD1; pfam07453 122586002221 heat shock protein HtpX; Provisional; Region: PRK05457 122586002222 adenylate kinase; Reviewed; Region: adk; PRK00279 122586002223 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 122586002224 AMP-binding site [chemical binding]; other site 122586002225 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 122586002226 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 122586002227 active site 122586002228 dimer interface [polypeptide binding]; other site 122586002229 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 122586002230 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 122586002231 putative ribose interaction site [chemical binding]; other site 122586002232 putative ADP binding site [chemical binding]; other site 122586002233 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 122586002234 cofactor binding site; other site 122586002235 DNA binding site [nucleotide binding] 122586002236 substrate interaction site [chemical binding]; other site 122586002237 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 122586002238 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 122586002239 NADP binding site [chemical binding]; other site 122586002240 homopentamer interface [polypeptide binding]; other site 122586002241 substrate binding site [chemical binding]; other site 122586002242 active site 122586002243 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 122586002244 HsdM N-terminal domain; Region: HsdM_N; pfam12161 122586002245 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 122586002246 S-adenosylmethionine binding site [chemical binding]; other site 122586002247 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 122586002248 Virulence protein [General function prediction only]; Region: COG3943 122586002249 AAA domain; Region: AAA_13; pfam13166 122586002250 AAA domain; Region: AAA_13; pfam13166 122586002251 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 122586002252 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586002253 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586002254 Homeodomain-like domain; Region: HTH_32; pfam13565 122586002255 Integrase core domain; Region: rve; pfam00665 122586002256 Integrase core domain; Region: rve_3; cl15866 122586002257 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 122586002258 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 122586002259 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 122586002260 ATP binding site [chemical binding]; other site 122586002261 putative Mg++ binding site [ion binding]; other site 122586002262 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 122586002263 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 122586002264 Clp amino terminal domain; Region: Clp_N; pfam02861 122586002265 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 122586002266 Walker A motif; other site 122586002267 ATP binding site [chemical binding]; other site 122586002268 Walker B motif; other site 122586002269 arginine finger; other site 122586002270 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 122586002271 Walker A motif; other site 122586002272 ATP binding site [chemical binding]; other site 122586002273 Walker B motif; other site 122586002274 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 122586002275 Uncharacterized conserved protein [Function unknown]; Region: COG2127 122586002276 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 122586002277 DNA-binding site [nucleotide binding]; DNA binding site 122586002278 RNA-binding motif; other site 122586002279 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 122586002280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 122586002281 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 122586002282 DHH family; Region: DHH; pfam01368 122586002283 DHHA1 domain; Region: DHHA1; pfam02272 122586002284 poly(A) polymerase; Region: pcnB; TIGR01942 122586002285 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 122586002286 active site 122586002287 NTP binding site [chemical binding]; other site 122586002288 metal binding triad [ion binding]; metal-binding site 122586002289 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 122586002290 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 122586002291 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 122586002292 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 122586002293 PhoH-like protein; Region: PhoH; pfam02562 122586002294 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 122586002295 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 122586002296 trimer interface [polypeptide binding]; other site 122586002297 active site 122586002298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 122586002299 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 122586002300 GTP-binding protein Der; Reviewed; Region: PRK00093 122586002301 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 122586002302 G1 box; other site 122586002303 GTP/Mg2+ binding site [chemical binding]; other site 122586002304 Switch I region; other site 122586002305 G2 box; other site 122586002306 Switch II region; other site 122586002307 G3 box; other site 122586002308 G4 box; other site 122586002309 G5 box; other site 122586002310 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 122586002311 G1 box; other site 122586002312 GTP/Mg2+ binding site [chemical binding]; other site 122586002313 Switch I region; other site 122586002314 G2 box; other site 122586002315 G3 box; other site 122586002316 Switch II region; other site 122586002317 G4 box; other site 122586002318 G5 box; other site 122586002319 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 122586002320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 122586002321 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 122586002322 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 122586002323 dimer interface [polypeptide binding]; other site 122586002324 motif 1; other site 122586002325 active site 122586002326 motif 2; other site 122586002327 motif 3; other site 122586002328 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 122586002329 anticodon binding site; other site 122586002330 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 122586002331 putative active site [active] 122586002332 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 122586002333 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 122586002334 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 122586002335 probable active site [active] 122586002336 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 122586002337 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 122586002338 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 122586002339 S-adenosylmethionine binding site [chemical binding]; other site 122586002340 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 122586002341 oligomerization interface [polypeptide binding]; other site 122586002342 active site 122586002343 metal binding site [ion binding]; metal-binding site 122586002344 Pantoate-beta-alanine ligase; Region: PanC; cd00560 122586002345 active site 122586002346 ATP-binding site [chemical binding]; other site 122586002347 pantoate-binding site; other site 122586002348 HXXH motif; other site 122586002349 TPR repeat; Region: TPR_11; pfam13414 122586002350 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 122586002351 binding surface 122586002352 TPR motif; other site 122586002353 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 122586002354 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 122586002355 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 122586002356 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 122586002357 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 122586002358 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 122586002359 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 122586002360 active site 122586002361 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 122586002362 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 122586002363 5S rRNA interface [nucleotide binding]; other site 122586002364 CTC domain interface [polypeptide binding]; other site 122586002365 L16 interface [polypeptide binding]; other site 122586002366 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 122586002367 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 122586002368 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 122586002369 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 122586002370 threonine dehydratase; Reviewed; Region: PRK09224 122586002371 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 122586002372 tetramer interface [polypeptide binding]; other site 122586002373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586002374 catalytic residue [active] 122586002375 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 122586002376 putative Ile/Val binding site [chemical binding]; other site 122586002377 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 122586002378 putative Ile/Val binding site [chemical binding]; other site 122586002379 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 122586002380 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 122586002381 Walker A/P-loop; other site 122586002382 ATP binding site [chemical binding]; other site 122586002383 Q-loop/lid; other site 122586002384 ABC transporter signature motif; other site 122586002385 Walker B; other site 122586002386 D-loop; other site 122586002387 H-loop/switch region; other site 122586002388 TOBE-like domain; Region: TOBE_3; pfam12857 122586002389 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 122586002390 dimer interface [polypeptide binding]; other site 122586002391 conserved gate region; other site 122586002392 putative PBP binding loops; other site 122586002393 ABC-ATPase subunit interface; other site 122586002394 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 122586002395 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 122586002396 dimer interface [polypeptide binding]; other site 122586002397 conserved gate region; other site 122586002398 putative PBP binding loops; other site 122586002399 ABC-ATPase subunit interface; other site 122586002400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 122586002401 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 122586002402 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 122586002403 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 122586002404 replicative DNA helicase; Provisional; Region: PRK05748 122586002405 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 122586002406 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 122586002407 Walker A motif; other site 122586002408 ATP binding site [chemical binding]; other site 122586002409 Walker B motif; other site 122586002410 DNA binding loops [nucleotide binding] 122586002411 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 122586002412 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 122586002413 Type II transport protein GspH; Region: GspH; pfam12019 122586002414 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 122586002415 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 122586002416 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 122586002417 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 122586002418 PilX N-terminal; Region: PilX_N; pfam14341 122586002419 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 122586002420 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 122586002421 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 122586002422 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 122586002423 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 122586002424 trimer interface [polypeptide binding]; other site 122586002425 active site 122586002426 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 122586002427 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 122586002428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586002429 homodimer interface [polypeptide binding]; other site 122586002430 catalytic residue [active] 122586002431 hypothetical protein; Validated; Region: PRK02101 122586002432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 122586002433 KilA-N domain; Region: KilA-N; pfam04383 122586002434 Predicted helicase [General function prediction only]; Region: COG4889 122586002435 Uncharacterized conserved protein [Function unknown]; Region: COG5532 122586002436 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 122586002437 non-specific DNA binding site [nucleotide binding]; other site 122586002438 Predicted transcriptional regulator [Transcription]; Region: COG2932 122586002439 salt bridge; other site 122586002440 sequence-specific DNA binding site [nucleotide binding]; other site 122586002441 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 122586002442 Catalytic site [active] 122586002443 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586002444 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586002445 Homeodomain-like domain; Region: HTH_32; pfam13565 122586002446 Integrase core domain; Region: rve; pfam00665 122586002447 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 122586002448 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 122586002449 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional; Region: PRK14844 122586002450 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 122586002451 Transposase domain (DUF772); Region: DUF772; pfam05598 122586002452 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 122586002453 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 122586002454 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 122586002455 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 122586002456 Cytochrome c556 [Energy production and conversion]; Region: COG3909 122586002457 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 122586002458 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 122586002459 putative NAD(P) binding site [chemical binding]; other site 122586002460 homotetramer interface [polypeptide binding]; other site 122586002461 homodimer interface [polypeptide binding]; other site 122586002462 active site 122586002463 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 122586002464 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 122586002465 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 122586002466 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 122586002467 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 122586002468 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 122586002469 dimer interface [polypeptide binding]; other site 122586002470 active site 122586002471 catalytic residue [active] 122586002472 Sulfate transporter family; Region: Sulfate_transp; cl19250 122586002473 xanthine permease; Region: pbuX; TIGR03173 122586002474 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 122586002475 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 122586002476 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 122586002477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 122586002478 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 122586002479 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 122586002480 nucleoside/Zn binding site; other site 122586002481 dimer interface [polypeptide binding]; other site 122586002482 catalytic motif [active] 122586002483 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 122586002484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 122586002485 elongation factor P; Validated; Region: PRK00529 122586002486 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 122586002487 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 122586002488 RNA binding site [nucleotide binding]; other site 122586002489 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 122586002490 RNA binding site [nucleotide binding]; other site 122586002491 Methyltransferase domain; Region: Methyltransf_31; pfam13847 122586002492 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 122586002493 S-adenosylmethionine binding site [chemical binding]; other site 122586002494 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 122586002495 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 122586002496 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 122586002497 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 122586002498 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 122586002499 FAD binding site [chemical binding]; other site 122586002500 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 122586002501 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 122586002502 THF binding site; other site 122586002503 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 122586002504 substrate binding site [chemical binding]; other site 122586002505 THF binding site; other site 122586002506 zinc-binding site [ion binding]; other site 122586002507 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 122586002508 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 122586002509 catalytic triad [active] 122586002510 dimer interface [polypeptide binding]; other site 122586002511 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 122586002512 GSH binding site [chemical binding]; other site 122586002513 catalytic residues [active] 122586002514 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 122586002515 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 122586002516 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 122586002517 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 122586002518 Iron-sulfur protein interface; other site 122586002519 proximal quinone binding site [chemical binding]; other site 122586002520 SdhD (CybS) interface [polypeptide binding]; other site 122586002521 proximal heme binding site [chemical binding]; other site 122586002522 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 122586002523 SdhC subunit interface [polypeptide binding]; other site 122586002524 proximal heme binding site [chemical binding]; other site 122586002525 cardiolipin binding site; other site 122586002526 Iron-sulfur protein interface; other site 122586002527 proximal quinone binding site [chemical binding]; other site 122586002528 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 122586002529 L-aspartate oxidase; Provisional; Region: PRK06175 122586002530 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 122586002531 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 122586002532 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 122586002533 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 122586002534 Uncharacterized conserved protein [Function unknown]; Region: COG2938 122586002535 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 122586002536 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 122586002537 dimer interface [polypeptide binding]; other site 122586002538 active site 122586002539 citrylCoA binding site [chemical binding]; other site 122586002540 NADH binding [chemical binding]; other site 122586002541 cationic pore residues; other site 122586002542 oxalacetate/citrate binding site [chemical binding]; other site 122586002543 coenzyme A binding site [chemical binding]; other site 122586002544 catalytic triad [active] 122586002545 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 122586002546 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 122586002547 TPP-binding site [chemical binding]; other site 122586002548 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 122586002549 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 122586002550 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 122586002551 E3 interaction surface; other site 122586002552 lipoyl attachment site [posttranslational modification]; other site 122586002553 e3 binding domain; Region: E3_binding; pfam02817 122586002554 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 122586002555 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 122586002556 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 122586002557 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 122586002558 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 122586002559 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 122586002560 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 122586002561 CoA-ligase; Region: Ligase_CoA; pfam00549 122586002562 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 122586002563 CoA binding domain; Region: CoA_binding; pfam02629 122586002564 CoA-ligase; Region: Ligase_CoA; pfam00549 122586002565 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 122586002566 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 122586002567 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 122586002568 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 122586002569 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 122586002570 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 122586002571 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 122586002572 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 122586002573 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 122586002574 glutamine binding [chemical binding]; other site 122586002575 catalytic triad [active] 122586002576 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 122586002577 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 122586002578 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 122586002579 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 122586002580 Replication initiation factor; Region: Rep_trans; pfam02486 122586002581 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 122586002582 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 122586002583 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 122586002584 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 122586002585 Predicted membrane protein [Function unknown]; Region: COG3686 122586002586 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 122586002587 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 122586002588 ligand binding site [chemical binding]; other site 122586002589 homodimer interface [polypeptide binding]; other site 122586002590 NAD(P) binding site [chemical binding]; other site 122586002591 trimer interface B [polypeptide binding]; other site 122586002592 trimer interface A [polypeptide binding]; other site 122586002593 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 122586002594 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 122586002595 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 122586002596 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 122586002597 motif II; other site 122586002598 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 122586002599 putative ion selectivity filter; other site 122586002600 putative pore gating glutamate residue; other site 122586002601 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 122586002602 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 122586002603 purine monophosphate binding site [chemical binding]; other site 122586002604 dimer interface [polypeptide binding]; other site 122586002605 putative catalytic residues [active] 122586002606 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 122586002607 Mu-like prophage protein gp16 [Function unknown]; Region: COG4382 122586002608 Mor transcription activator family; Region: Mor; cl02360 122586002609 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 122586002610 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 122586002611 active site 122586002612 metal binding site [ion binding]; metal-binding site 122586002613 Transposase domain (DUF772); Region: DUF772; pfam05598 122586002614 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 122586002615 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 122586002616 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 122586002617 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 122586002618 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 122586002619 Tryptophan-ring motif of head of Trimeric autotransporter adhesin; Region: TAA-Trp-ring; pfam15401 122586002620 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 122586002621 Rubredoxin [Energy production and conversion]; Region: COG1773 122586002622 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 122586002623 iron binding site [ion binding]; other site 122586002624 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 122586002625 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 122586002626 active site 122586002627 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 122586002628 Uncharacterized conserved protein [Function unknown]; Region: COG2128 122586002629 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 122586002630 D-lactate dehydrogenase; Provisional; Region: PRK11183 122586002631 FAD binding domain; Region: FAD_binding_4; cl19922 122586002632 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 122586002633 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 122586002634 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 122586002635 FAD binding domain; Region: FAD_binding_4; pfam01565 122586002636 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 122586002637 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 122586002638 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 122586002639 Cysteine-rich domain; Region: CCG; pfam02754 122586002640 Cysteine-rich domain; Region: CCG; pfam02754 122586002641 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 122586002642 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 122586002643 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 122586002644 FMN binding site [chemical binding]; other site 122586002645 active site 122586002646 catalytic residues [active] 122586002647 substrate binding site [chemical binding]; other site 122586002648 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 122586002649 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 122586002650 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 122586002651 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 122586002652 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 122586002653 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 122586002654 non-specific DNA binding site [nucleotide binding]; other site 122586002655 salt bridge; other site 122586002656 sequence-specific DNA binding site [nucleotide binding]; other site 122586002657 Predicted transcriptional regulator [Transcription]; Region: COG2932 122586002658 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 122586002659 Catalytic site [active] 122586002660 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 122586002661 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 122586002662 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 122586002663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 122586002664 Smr domain; Region: Smr; pfam01713 122586002665 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 122586002666 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 122586002667 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 122586002668 Coenzyme A binding pocket [chemical binding]; other site 122586002669 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 122586002670 ATP-grasp domain; Region: ATP-grasp_4; cl17255 122586002671 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 122586002672 anthranilate synthase component I; Provisional; Region: PRK13565 122586002673 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 122586002674 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 122586002675 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586002676 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586002677 Homeodomain-like domain; Region: HTH_32; pfam13565 122586002678 Integrase core domain; Region: rve; pfam00665 122586002679 Integrase core domain; Region: rve_3; cl15866 122586002680 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 122586002681 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 122586002682 Ligand Binding Site [chemical binding]; other site 122586002683 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 122586002684 Aminomethyltransferase folate-binding domain; Region: GCV_T; cl01893 122586002685 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 122586002686 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 122586002687 homotrimer interaction site [polypeptide binding]; other site 122586002688 putative active site [active] 122586002689 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 122586002690 putative deacylase active site [active] 122586002691 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 122586002692 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 122586002693 HSP70 interaction site [polypeptide binding]; other site 122586002694 Predicted membrane protein [Function unknown]; Region: COG3671 122586002695 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 122586002696 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 122586002697 Aspartase; Region: Aspartase; cd01357 122586002698 active sites [active] 122586002699 tetramer interface [polypeptide binding]; other site 122586002700 Uncharacterized conserved protein [Function unknown]; Region: COG2353 122586002701 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 122586002702 NgoBV restriction endonuclease; Region: RE_NgoBV; pfam09564 122586002703 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 122586002704 cofactor binding site; other site 122586002705 DNA binding site [nucleotide binding] 122586002706 substrate interaction site [chemical binding]; other site 122586002707 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 122586002708 substrate binding site [chemical binding]; other site 122586002709 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 122586002710 substrate binding site [chemical binding]; other site 122586002711 ligand binding site [chemical binding]; other site 122586002712 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 122586002713 hypothetical protein; Reviewed; Region: PRK00024 122586002714 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 122586002715 MPN+ (JAMM) motif; other site 122586002716 Zinc-binding site [ion binding]; other site 122586002717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 122586002718 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 122586002719 Bacterial Ig-like domain; Region: Big_5; pfam13205 122586002720 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 122586002721 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 122586002722 HflX GTPase family; Region: HflX; cd01878 122586002723 G1 box; other site 122586002724 GTP/Mg2+ binding site [chemical binding]; other site 122586002725 Switch I region; other site 122586002726 G2 box; other site 122586002727 G3 box; other site 122586002728 Switch II region; other site 122586002729 G4 box; other site 122586002730 G5 box; other site 122586002731 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 122586002732 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 122586002733 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 122586002734 metal-binding site [ion binding] 122586002735 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 122586002736 Soluble P-type ATPase [General function prediction only]; Region: COG4087 122586002737 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 122586002738 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 122586002739 FAD binding pocket [chemical binding]; other site 122586002740 FAD binding motif [chemical binding]; other site 122586002741 phosphate binding motif [ion binding]; other site 122586002742 beta-alpha-beta structure motif; other site 122586002743 NAD binding pocket [chemical binding]; other site 122586002744 threonine synthase; Validated; Region: PRK09225 122586002745 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 122586002746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586002747 catalytic residue [active] 122586002748 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 122586002749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 122586002750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 122586002751 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 122586002752 dimerization interface [polypeptide binding]; other site 122586002753 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586002754 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586002755 Homeodomain-like domain; Region: HTH_32; pfam13565 122586002756 Integrase core domain; Region: rve; pfam00665 122586002757 Integrase core domain; Region: rve_3; cl15866 122586002758 ABC transporter ATPase component; Reviewed; Region: PRK11147 122586002759 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 122586002760 ABC transporter; Region: ABC_tran_2; pfam12848 122586002761 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 122586002762 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 122586002763 Outer membrane protein OpcA; Region: OpcA; pfam07239 122586002764 Transposase domain (DUF772); Region: DUF772; pfam05598 122586002765 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 122586002766 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 122586002767 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 122586002768 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 122586002769 dimer interface [polypeptide binding]; other site 122586002770 active site 122586002771 glycine-pyridoxal phosphate binding site [chemical binding]; other site 122586002772 folate binding site [chemical binding]; other site 122586002773 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 122586002774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 122586002775 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 122586002776 AMP binding site [chemical binding]; other site 122586002777 metal binding site [ion binding]; metal-binding site 122586002778 active site 122586002779 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 122586002780 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 122586002781 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 122586002782 homooctamer interface [polypeptide binding]; other site 122586002783 active site 122586002784 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 122586002785 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 122586002786 dimer interface [polypeptide binding]; other site 122586002787 ADP-ribose binding site [chemical binding]; other site 122586002788 active site 122586002789 nudix motif; other site 122586002790 metal binding site [ion binding]; metal-binding site 122586002791 camphor resistance protein CrcB; Provisional; Region: PRK14230 122586002792 Predicted membrane protein [Function unknown]; Region: COG3235 122586002793 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 122586002794 AAA-like domain; Region: AAA_10; pfam12846 122586002795 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 122586002796 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 122586002797 putative catalytic cysteine [active] 122586002798 glutamate 5-kinase; Region: proB; TIGR01027 122586002799 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 122586002800 nucleotide binding site [chemical binding]; other site 122586002801 homotetrameric interface [polypeptide binding]; other site 122586002802 putative phosphate binding site [ion binding]; other site 122586002803 putative allosteric binding site; other site 122586002804 PUA domain; Region: PUA; pfam01472 122586002805 2-isopropylmalate synthase; Validated; Region: PRK00915 122586002806 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 122586002807 active site 122586002808 catalytic residues [active] 122586002809 metal binding site [ion binding]; metal-binding site 122586002810 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 122586002811 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 122586002812 yecA family protein; Region: ygfB_yecA; TIGR02292 122586002813 SEC-C motif; Region: SEC-C; cl19389 122586002814 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 122586002815 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 122586002816 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 122586002817 putative active site [active] 122586002818 Zn binding site [ion binding]; other site 122586002819 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 122586002820 feedback inhibition sensing region; other site 122586002821 homohexameric interface [polypeptide binding]; other site 122586002822 nucleotide binding site [chemical binding]; other site 122586002823 N-acetyl-L-glutamate binding site [chemical binding]; other site 122586002824 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 122586002825 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 122586002826 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 122586002827 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 122586002828 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 122586002829 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 122586002830 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 122586002831 Integrase core domain; Region: rve; pfam00665 122586002832 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 122586002833 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 122586002834 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 122586002835 non-specific DNA binding site [nucleotide binding]; other site 122586002836 salt bridge; other site 122586002837 sequence-specific DNA binding site [nucleotide binding]; other site 122586002838 AAA domain; Region: AAA_22; pfam13401 122586002839 Mor transcription activator family; Region: Mor; cl02360 122586002840 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 122586002841 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 122586002842 active site 122586002843 metal binding site [ion binding]; metal-binding site 122586002844 Uncharacterized conserved protein [Function unknown]; Region: COG3422 122586002845 Protein of unknown function (DUF1319); Region: DUF1319; pfam07028 122586002846 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 122586002847 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 122586002848 phage uncharacterized protein (putative large terminase), C-terminal domain; Region: psiM2_ORF9; TIGR01630 122586002849 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 122586002850 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 122586002851 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 122586002852 Mu-like prophage I protein [General function prediction only]; Region: COG4388 122586002853 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586002854 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586002855 Homeodomain-like domain; Region: HTH_32; pfam13565 122586002856 Integrase core domain; Region: rve; pfam00665 122586002857 Integrase core domain; Region: rve_3; cl15866 122586002858 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 122586002859 Mu-like prophage protein gp36 [Function unknown]; Region: COG4387 122586002860 Mu-like prophage protein gp37 [General function prediction only]; Region: COG5003 122586002861 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 122586002862 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 122586002863 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 122586002864 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 122586002865 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 122586002866 Mu-like prophage protein gp45 [Function unknown]; Region: COG4384 122586002867 Mu-like prophage protein gp46 [Function unknown]; Region: COG4381 122586002868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 122586002869 Phage Tail Collar Domain; Region: Collar; pfam07484 122586002870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 122586002871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 122586002872 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 122586002873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 122586002874 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 122586002875 short chain dehydrogenase; Provisional; Region: PRK08703 122586002876 short chain dehydrogenase; Provisional; Region: PRK12939 122586002877 NAD(P) binding site [chemical binding]; other site 122586002878 active site 122586002879 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 122586002880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 122586002881 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 122586002882 active site lid residues [active] 122586002883 substrate binding pocket [chemical binding]; other site 122586002884 catalytic residues [active] 122586002885 substrate-Mg2+ binding site; other site 122586002886 aspartate-rich region 1; other site 122586002887 aspartate-rich region 2; other site 122586002888 chaperone protein HscA; Provisional; Region: hscA; PRK05183 122586002889 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 122586002890 nucleotide binding site [chemical binding]; other site 122586002891 putative NEF/HSP70 interaction site [polypeptide binding]; other site 122586002892 SBD interface [polypeptide binding]; other site 122586002893 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 122586002894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 122586002895 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 122586002896 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 122586002897 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 122586002898 catalytic loop [active] 122586002899 iron binding site [ion binding]; other site 122586002900 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 122586002901 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 122586002902 RNA binding surface [nucleotide binding]; other site 122586002903 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 122586002904 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 122586002905 Ligand Binding Site [chemical binding]; other site 122586002906 TilS substrate binding domain; Region: TilS; pfam09179 122586002907 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 122586002908 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 122586002909 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 122586002910 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 122586002911 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 122586002912 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 122586002913 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 122586002914 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 122586002915 biotin synthase; Region: bioB; TIGR00433 122586002916 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 122586002917 FeS/SAM binding site; other site 122586002918 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 122586002919 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 122586002920 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 122586002921 sulfite reductase subunit beta; Provisional; Region: PRK13504 122586002922 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 122586002923 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 122586002924 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 122586002925 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; cl19102 122586002926 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 122586002927 Flavodoxin; Region: Flavodoxin_1; pfam00258 122586002928 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 122586002929 FAD binding pocket [chemical binding]; other site 122586002930 FAD binding motif [chemical binding]; other site 122586002931 catalytic residues [active] 122586002932 NAD binding pocket [chemical binding]; other site 122586002933 phosphate binding motif [ion binding]; other site 122586002934 beta-alpha-beta structure motif; other site 122586002935 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 122586002936 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 122586002937 CysD dimerization site [polypeptide binding]; other site 122586002938 G1 box; other site 122586002939 putative GEF interaction site [polypeptide binding]; other site 122586002940 GTP/Mg2+ binding site [chemical binding]; other site 122586002941 Switch I region; other site 122586002942 G2 box; other site 122586002943 G3 box; other site 122586002944 Switch II region; other site 122586002945 G4 box; other site 122586002946 G5 box; other site 122586002947 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 122586002948 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 122586002949 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 122586002950 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 122586002951 Active Sites [active] 122586002952 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 122586002953 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 122586002954 Active Sites [active] 122586002955 siroheme synthase; Provisional; Region: cysG; PRK10637 122586002956 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 122586002957 Sirohaem synthase dimerization region; Region: CysG_dimeriser; pfam10414 122586002958 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 122586002959 active site 122586002960 SAM binding site [chemical binding]; other site 122586002961 homodimer interface [polypeptide binding]; other site 122586002962 Cytochrome b [Energy production and conversion]; Region: COG3658 122586002963 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 122586002964 putative substrate binding site [chemical binding]; other site 122586002965 putative ATP binding site [chemical binding]; other site 122586002966 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 122586002967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 122586002968 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 122586002969 short chain dehydrogenase; Provisional; Region: PRK08703 122586002970 short chain dehydrogenase; Provisional; Region: PRK12939 122586002971 NAD(P) binding site [chemical binding]; other site 122586002972 active site 122586002973 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 122586002974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 122586002975 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 122586002976 active site lid residues [active] 122586002977 substrate binding pocket [chemical binding]; other site 122586002978 catalytic residues [active] 122586002979 substrate-Mg2+ binding site; other site 122586002980 aspartate-rich region 1; other site 122586002981 aspartate-rich region 2; other site 122586002982 chaperone protein HscA; Provisional; Region: hscA; PRK05183 122586002983 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 122586002984 nucleotide binding site [chemical binding]; other site 122586002985 putative NEF/HSP70 interaction site [polypeptide binding]; other site 122586002986 SBD interface [polypeptide binding]; other site 122586002987 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 122586002988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 122586002989 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 122586002990 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 122586002991 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 122586002992 catalytic loop [active] 122586002993 iron binding site [ion binding]; other site 122586002994 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 122586002995 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 122586002996 RNA binding surface [nucleotide binding]; other site 122586002997 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 122586002998 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 122586002999 Ligand Binding Site [chemical binding]; other site 122586003000 TilS substrate binding domain; Region: TilS; pfam09179 122586003001 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 122586003002 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 122586003003 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 122586003004 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 122586003005 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 122586003006 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 122586003007 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 122586003008 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 122586003009 biotin synthase; Region: bioB; TIGR00433 122586003010 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 122586003011 FeS/SAM binding site; other site 122586003012 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 122586003013 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 122586003014 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 122586003015 sulfite reductase subunit beta; Provisional; Region: PRK13504 122586003016 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 122586003017 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 122586003018 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 122586003019 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; cl19102 122586003020 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 122586003021 Flavodoxin; Region: Flavodoxin_1; pfam00258 122586003022 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 122586003023 FAD binding pocket [chemical binding]; other site 122586003024 FAD binding motif [chemical binding]; other site 122586003025 catalytic residues [active] 122586003026 NAD binding pocket [chemical binding]; other site 122586003027 phosphate binding motif [ion binding]; other site 122586003028 beta-alpha-beta structure motif; other site 122586003029 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 122586003030 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 122586003031 CysD dimerization site [polypeptide binding]; other site 122586003032 G1 box; other site 122586003033 putative GEF interaction site [polypeptide binding]; other site 122586003034 GTP/Mg2+ binding site [chemical binding]; other site 122586003035 Switch I region; other site 122586003036 G2 box; other site 122586003037 G3 box; other site 122586003038 Switch II region; other site 122586003039 G4 box; other site 122586003040 G5 box; other site 122586003041 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 122586003042 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 122586003043 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 122586003044 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 122586003045 Active Sites [active] 122586003046 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 122586003047 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 122586003048 Active Sites [active] 122586003049 siroheme synthase; Provisional; Region: cysG; PRK10637 122586003050 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 122586003051 Sirohaem synthase dimerization region; Region: CysG_dimeriser; pfam10414 122586003052 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 122586003053 active site 122586003054 SAM binding site [chemical binding]; other site 122586003055 homodimer interface [polypeptide binding]; other site 122586003056 Cytochrome b [Energy production and conversion]; Region: COG3658 122586003057 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 122586003058 putative substrate binding site [chemical binding]; other site 122586003059 putative ATP binding site [chemical binding]; other site 122586003060 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 122586003061 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 122586003062 G1 box; other site 122586003063 putative GEF interaction site [polypeptide binding]; other site 122586003064 GTP/Mg2+ binding site [chemical binding]; other site 122586003065 Switch I region; other site 122586003066 G2 box; other site 122586003067 G3 box; other site 122586003068 Switch II region; other site 122586003069 G4 box; other site 122586003070 G5 box; other site 122586003071 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 122586003072 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 122586003073 ribonuclease R; Region: RNase_R; TIGR02063 122586003074 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 122586003075 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 122586003076 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 122586003077 RNA binding site [nucleotide binding]; other site 122586003078 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 122586003079 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 122586003080 active site 122586003081 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 122586003082 Immunity protein 23; Region: Imm23; pfam15593 122586003083 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 122586003084 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 122586003085 metal binding triad; other site 122586003086 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 122586003087 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 122586003088 Zn2+ binding site [ion binding]; other site 122586003089 Mg2+ binding site [ion binding]; other site 122586003090 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 122586003091 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 122586003092 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 122586003093 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 122586003094 non-specific DNA binding site [nucleotide binding]; other site 122586003095 salt bridge; other site 122586003096 sequence-specific DNA binding site [nucleotide binding]; other site 122586003097 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 122586003098 Ferritin-like domain; Region: Ferritin; pfam00210 122586003099 heme binding site [chemical binding]; other site 122586003100 ferroxidase pore; other site 122586003101 ferroxidase diiron center [ion binding]; other site 122586003102 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 122586003103 Ferritin-like domain; Region: Ferritin; pfam00210 122586003104 heme binding site [chemical binding]; other site 122586003105 ferroxidase pore; other site 122586003106 ferroxidase diiron center [ion binding]; other site 122586003107 ACP:hemolysin acyltransferase (hemolysin-activating protein) [Posttranslational modification, protein turnover, chaperones]; Region: HlyC; COG2994 122586003108 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 122586003109 haemagglutination activity domain; Region: Haemagg_act; pfam05860 122586003110 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586003111 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 122586003112 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 122586003113 lipoyl synthase; Provisional; Region: PRK05481 122586003114 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 122586003115 FeS/SAM binding site; other site 122586003116 lipoate-protein ligase B; Provisional; Region: PRK14342 122586003117 Uncharacterized conserved protein [Function unknown]; Region: COG2921 122586003118 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 122586003119 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 122586003120 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 122586003121 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 122586003122 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 122586003123 ligand binding site [chemical binding]; other site 122586003124 active site 122586003125 UGI interface [polypeptide binding]; other site 122586003126 catalytic site [active] 122586003127 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 122586003128 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 122586003129 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 122586003130 ABC transporter; Region: ABC_tran_2; pfam12848 122586003131 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 122586003132 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 122586003133 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 122586003134 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 122586003135 homoserine dehydrogenase; Provisional; Region: PRK06349 122586003136 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 122586003137 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 122586003138 histone-like DNA-binding protein HU; Region: HU; cd13831 122586003139 dimer interface [polypeptide binding]; other site 122586003140 DNA binding site [nucleotide binding] 122586003141 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 122586003142 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 122586003143 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 122586003144 Walker A motif; other site 122586003145 ATP binding site [chemical binding]; other site 122586003146 Walker B motif; other site 122586003147 arginine finger; other site 122586003148 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 122586003149 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 122586003150 AAA domain; Region: AAA_30; pfam13604 122586003151 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 122586003152 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 122586003153 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 122586003154 Walker A/P-loop; other site 122586003155 ATP binding site [chemical binding]; other site 122586003156 Q-loop/lid; other site 122586003157 ABC transporter signature motif; other site 122586003158 Walker B; other site 122586003159 D-loop; other site 122586003160 H-loop/switch region; other site 122586003161 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 122586003162 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 122586003163 FtsX-like permease family; Region: FtsX; pfam02687 122586003164 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 122586003165 RecR protein; Region: RecR; pfam02132 122586003166 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 122586003167 putative active site [active] 122586003168 putative metal-binding site [ion binding]; other site 122586003169 tetramer interface [polypeptide binding]; other site 122586003170 SurA N-terminal domain; Region: SurA_N_3; cl07813 122586003171 periplasmic folding chaperone; Provisional; Region: PRK10788 122586003172 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 122586003173 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 122586003174 putative catalytic residues [active] 122586003175 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 122586003176 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 122586003177 ABC transporter; Region: ABC_tran_2; pfam12848 122586003178 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 122586003179 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 122586003180 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 122586003181 active site 122586003182 NTP binding site [chemical binding]; other site 122586003183 metal binding triad [ion binding]; metal-binding site 122586003184 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 122586003185 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 122586003186 Zn2+ binding site [ion binding]; other site 122586003187 Mg2+ binding site [ion binding]; other site 122586003188 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 122586003189 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 122586003190 Walker A motif; other site 122586003191 ATP binding site [chemical binding]; other site 122586003192 Walker B motif; other site 122586003193 arginine finger; other site 122586003194 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 122586003195 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 122586003196 substrate binding site [chemical binding]; other site 122586003197 hexamer interface [polypeptide binding]; other site 122586003198 metal binding site [ion binding]; metal-binding site 122586003199 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 122586003200 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 122586003201 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 122586003202 Walker A motif; other site 122586003203 ATP binding site [chemical binding]; other site 122586003204 Walker B motif; other site 122586003205 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 122586003206 Lumazine binding domain; Region: Lum_binding; pfam00677 122586003207 Lumazine binding domain; Region: Lum_binding; pfam00677 122586003208 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 122586003209 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 122586003210 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 122586003211 dimerization interface [polypeptide binding]; other site 122586003212 GAF domain; Region: GAF_3; pfam13492 122586003213 Histidine kinase; Region: HisKA_3; pfam07730 122586003214 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 122586003215 ATP binding site [chemical binding]; other site 122586003216 Mg2+ binding site [ion binding]; other site 122586003217 G-X-G motif; other site 122586003218 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 122586003219 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 122586003220 active site 122586003221 phosphorylation site [posttranslational modification] 122586003222 intermolecular recognition site; other site 122586003223 dimerization interface [polypeptide binding]; other site 122586003224 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 122586003225 DNA binding residues [nucleotide binding] 122586003226 dimerization interface [polypeptide binding]; other site 122586003227 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586003228 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586003229 Homeodomain-like domain; Region: HTH_32; pfam13565 122586003230 Integrase core domain; Region: rve; pfam00665 122586003231 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 122586003232 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 122586003233 dimerization interface [polypeptide binding]; other site 122586003234 putative ATP binding site [chemical binding]; other site 122586003235 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 122586003236 dimerization interface [polypeptide binding]; other site 122586003237 active site 122586003238 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 122586003239 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 122586003240 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 122586003241 dimerization interface [polypeptide binding]; other site 122586003242 recombination factor protein RarA; Reviewed; Region: PRK13342 122586003243 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 122586003244 Walker A motif; other site 122586003245 ATP binding site [chemical binding]; other site 122586003246 Walker B motif; other site 122586003247 arginine finger; other site 122586003248 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 122586003249 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586003250 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586003251 Homeodomain-like domain; Region: HTH_32; pfam13565 122586003252 Integrase core domain; Region: rve; pfam00665 122586003253 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 122586003254 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 122586003255 substrate binding site [chemical binding]; other site 122586003256 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 122586003257 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 122586003258 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 122586003259 Uncharacterized conserved protein [Function unknown]; Region: COG2361 122586003260 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 122586003261 active site 122586003262 NTP binding site [chemical binding]; other site 122586003263 metal binding triad [ion binding]; metal-binding site 122586003264 antibiotic binding site [chemical binding]; other site 122586003265 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 122586003266 metal binding site 2 [ion binding]; metal-binding site 122586003267 putative DNA binding helix; other site 122586003268 metal binding site 1 [ion binding]; metal-binding site 122586003269 dimer interface [polypeptide binding]; other site 122586003270 structural Zn2+ binding site [ion binding]; other site 122586003271 Low molecular weight phosphatase family; Region: LMWPc; cd00115 122586003272 active site 122586003273 glycerate kinase; Region: TIGR00045 122586003274 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 122586003275 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 122586003276 S-adenosylmethionine binding site [chemical binding]; other site 122586003277 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 122586003278 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 122586003279 metal-binding site [ion binding] 122586003280 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 122586003281 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 122586003282 active site 122586003283 catalytic triad [active] 122586003284 oxyanion hole [active] 122586003285 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 122586003286 active site 122586003287 oxyanion hole [active] 122586003288 catalytic triad [active] 122586003289 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 122586003290 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 122586003291 acyl-activating enzyme (AAE) consensus motif; other site 122586003292 putative AMP binding site [chemical binding]; other site 122586003293 putative active site [active] 122586003294 putative CoA binding site [chemical binding]; other site 122586003295 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 122586003296 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 122586003297 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 122586003298 Transglycosylase SLT domain; Region: SLT_2; cl19381 122586003299 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 122586003300 N-acetyl-D-glucosamine binding site [chemical binding]; other site 122586003301 catalytic residue [active] 122586003302 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 122586003303 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; cl09932 122586003304 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 122586003305 active site 122586003306 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 122586003307 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 122586003308 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 122586003309 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 122586003310 ATP binding site [chemical binding]; other site 122586003311 putative Mg++ binding site [ion binding]; other site 122586003312 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 122586003313 nucleotide binding region [chemical binding]; other site 122586003314 ATP-binding site [chemical binding]; other site 122586003315 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 122586003316 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 122586003317 tetramerization interface [polypeptide binding]; other site 122586003318 active site 122586003319 DAHP synthetase I family; Region: DAHP_synth_1; cl17225 122586003320 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 122586003321 enolase; Provisional; Region: eno; PRK00077 122586003322 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 122586003323 dimer interface [polypeptide binding]; other site 122586003324 metal binding site [ion binding]; metal-binding site 122586003325 substrate binding pocket [chemical binding]; other site 122586003326 Septum formation initiator; Region: DivIC; cl17659 122586003327 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 122586003328 catalytic loop [active] 122586003329 iron binding site [ion binding]; other site 122586003330 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 122586003331 dimer interface [polypeptide binding]; other site 122586003332 putative radical transfer pathway; other site 122586003333 diiron center [ion binding]; other site 122586003334 tyrosyl radical; other site 122586003335 N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; Region: EcoRII_N; cd10016 122586003336 DNA binding site [nucleotide binding] 122586003337 EcoRII C terminal; Region: EcoRII-C; pfam09019 122586003338 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 122586003339 cofactor binding site; other site 122586003340 DNA binding site [nucleotide binding] 122586003341 substrate interaction site [chemical binding]; other site 122586003342 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 122586003343 ATP cone domain; Region: ATP-cone; pfam03477 122586003344 Class I ribonucleotide reductase; Region: RNR_I; cd01679 122586003345 active site 122586003346 dimer interface [polypeptide binding]; other site 122586003347 catalytic residues [active] 122586003348 effector binding site; other site 122586003349 R2 peptide binding site; other site 122586003350 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 122586003351 putative acyl-acceptor binding pocket; other site 122586003352 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 122586003353 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 122586003354 DNA binding site [nucleotide binding] 122586003355 catalytic residue [active] 122586003356 H2TH interface [polypeptide binding]; other site 122586003357 putative catalytic residues [active] 122586003358 turnover-facilitating residue; other site 122586003359 intercalation triad [nucleotide binding]; other site 122586003360 8OG recognition residue [nucleotide binding]; other site 122586003361 putative reading head residues; other site 122586003362 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 122586003363 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 122586003364 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 122586003365 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 122586003366 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 122586003367 N-acetyl-D-glucosamine binding site [chemical binding]; other site 122586003368 catalytic residue [active] 122586003369 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 122586003370 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 122586003371 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 122586003372 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 122586003373 RNA binding surface [nucleotide binding]; other site 122586003374 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 122586003375 active site 122586003376 uracil binding [chemical binding]; other site 122586003377 cytidylate kinase; Provisional; Region: cmk; PRK00023 122586003378 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 122586003379 CMP-binding site; other site 122586003380 The sites determining sugar specificity; other site 122586003381 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 122586003382 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 122586003383 RNA binding site [nucleotide binding]; other site 122586003384 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 122586003385 RNA binding site [nucleotide binding]; other site 122586003386 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 122586003387 RNA binding site [nucleotide binding]; other site 122586003388 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 122586003389 RNA binding site [nucleotide binding]; other site 122586003390 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 122586003391 RNA binding site [nucleotide binding]; other site 122586003392 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 122586003393 RNA binding site [nucleotide binding]; other site 122586003394 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 122586003395 dimer interface [polypeptide binding]; other site 122586003396 DNA binding site [nucleotide binding] 122586003397 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 122586003398 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 122586003399 DNA binding residues [nucleotide binding] 122586003400 putative dimer interface [polypeptide binding]; other site 122586003401 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 122586003402 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 122586003403 substrate binding site [chemical binding]; other site 122586003404 catalytic Zn binding site [ion binding]; other site 122586003405 NAD binding site [chemical binding]; other site 122586003406 structural Zn binding site [ion binding]; other site 122586003407 dimer interface [polypeptide binding]; other site 122586003408 Predicted esterase [General function prediction only]; Region: COG0627 122586003409 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 122586003410 Predicted ATPase [General function prediction only]; Region: COG1485 122586003411 Nucleoside diphosphate kinase; Region: NDK; pfam00334 122586003412 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 122586003413 active site 122586003414 multimer interface [polypeptide binding]; other site 122586003415 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 122586003416 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 122586003417 FeS/SAM binding site; other site 122586003418 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 122586003419 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 122586003420 binding surface 122586003421 TPR motif; other site 122586003422 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 122586003423 TPR motif; other site 122586003424 binding surface 122586003425 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 122586003426 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 122586003427 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 122586003428 oligomer interface [polypeptide binding]; other site 122586003429 active site residues [active] 122586003430 trigger factor; Provisional; Region: tig; PRK01490 122586003431 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 122586003432 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 122586003433 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 122586003434 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 122586003435 HerA helicase [Replication, recombination, and repair]; Region: COG0433 122586003436 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 122586003437 AAA-like domain; Region: AAA_10; pfam12846 122586003438 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 122586003439 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 122586003440 Sulfate transporter family; Region: Sulfate_transp; cl19250 122586003441 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 122586003442 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 122586003443 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 122586003444 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 122586003445 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 122586003446 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 122586003447 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 122586003448 Primosomal replication protein N [DNA replication, recombination, and repair]; Region: PriB; COG2965 122586003449 generic binding surface I; other site 122586003450 generic binding surface II; other site 122586003451 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 122586003452 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 122586003453 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 122586003454 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 122586003455 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 122586003456 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 122586003457 metal-binding site [ion binding] 122586003458 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 122586003459 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 122586003460 active site 122586003461 motif I; other site 122586003462 motif II; other site 122586003463 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 122586003464 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 122586003465 GIY-YIG motif/motif A; other site 122586003466 active site 122586003467 catalytic site [active] 122586003468 putative DNA binding site [nucleotide binding]; other site 122586003469 metal binding site [ion binding]; metal-binding site 122586003470 UvrB/uvrC motif; Region: UVR; pfam02151 122586003471 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 122586003472 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 122586003473 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 122586003474 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 122586003475 Sel1-like repeats; Region: SEL1; smart00671 122586003476 Sel1-like repeats; Region: SEL1; smart00671 122586003477 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 122586003478 TPR motif; other site 122586003479 binding surface 122586003480 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 122586003481 S-adenosylmethionine binding site [chemical binding]; other site 122586003482 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 122586003483 excinuclease ABC subunit B; Provisional; Region: PRK05298 122586003484 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 122586003485 ATP-binding site [chemical binding]; other site 122586003486 ATP binding site [chemical binding]; other site 122586003487 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 122586003488 nucleotide binding region [chemical binding]; other site 122586003489 ATP-binding site [chemical binding]; other site 122586003490 Ultra-violet resistance protein B; Region: UvrB; pfam12344 122586003491 UvrB/uvrC motif; Region: UVR; pfam02151 122586003492 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 122586003493 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 122586003494 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 122586003495 protein binding site [polypeptide binding]; other site 122586003496 Catalytic dyad [active] 122586003497 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 122586003498 Peptidase family M23; Region: Peptidase_M23; pfam01551 122586003499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 122586003500 Putative transcriptional regulator [Transcription]; Region: COG1678 122586003501 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 122586003502 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 122586003503 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 122586003504 prolyl-tRNA synthetase; Provisional; Region: PRK09194 122586003505 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 122586003506 dimer interface [polypeptide binding]; other site 122586003507 motif 1; other site 122586003508 active site 122586003509 motif 2; other site 122586003510 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 122586003511 putative deacylase active site [active] 122586003512 motif 3; other site 122586003513 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 122586003514 anticodon binding site; other site 122586003515 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 122586003516 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 122586003517 dimer interface [polypeptide binding]; other site 122586003518 TPP-binding site [chemical binding]; other site 122586003519 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 122586003520 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 122586003521 E3 interaction surface; other site 122586003522 lipoyl attachment site [posttranslational modification]; other site 122586003523 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 122586003524 E3 interaction surface; other site 122586003525 lipoyl attachment site [posttranslational modification]; other site 122586003526 e3 binding domain; Region: E3_binding; pfam02817 122586003527 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 122586003528 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 122586003529 E3 interaction surface; other site 122586003530 lipoyl attachment site [posttranslational modification]; other site 122586003531 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 122586003532 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 122586003533 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 122586003534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 122586003535 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 122586003536 active site 122586003537 dimerization interface [polypeptide binding]; other site 122586003538 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 122586003539 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 122586003540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 122586003541 16S rRNA methyltransferase B; Provisional; Region: PRK10901 122586003542 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 122586003543 S-adenosylmethionine binding site [chemical binding]; other site 122586003544 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 122586003545 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 122586003546 NAD(P) binding site [chemical binding]; other site 122586003547 catalytic residues [active] 122586003548 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 122586003549 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 122586003550 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 122586003551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 122586003552 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 122586003553 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 122586003554 GatB domain; Region: GatB_Yqey; smart00845 122586003555 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 122586003556 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 122586003557 catalytic loop [active] 122586003558 iron binding site [ion binding]; other site 122586003559 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 122586003560 FAD binding pocket [chemical binding]; other site 122586003561 FAD binding motif [chemical binding]; other site 122586003562 phosphate binding motif [ion binding]; other site 122586003563 beta-alpha-beta structure motif; other site 122586003564 NAD binding pocket [chemical binding]; other site 122586003565 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 122586003566 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 122586003567 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 122586003568 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 122586003569 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 122586003570 RNA binding surface [nucleotide binding]; other site 122586003571 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 122586003572 probable active site [active] 122586003573 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 122586003574 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 122586003575 putative substrate translocation pore; other site 122586003576 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 122586003577 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 122586003578 generic binding surface II; other site 122586003579 generic binding surface I; other site 122586003580 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 122586003581 homodimer interface [polypeptide binding]; other site 122586003582 NAD binding pocket [chemical binding]; other site 122586003583 ATP binding pocket [chemical binding]; other site 122586003584 Mg binding site [ion binding]; other site 122586003585 active-site loop [active] 122586003586 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 122586003587 Hemerythrin-like domain; Region: Hr-like; cd12108 122586003588 Fe binding site [ion binding]; other site 122586003589 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 122586003590 catalytic residues [active] 122586003591 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 122586003592 S-adenosylmethionine binding site [chemical binding]; other site 122586003593 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 122586003594 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 122586003595 ATP binding site [chemical binding]; other site 122586003596 Mg++ binding site [ion binding]; other site 122586003597 motif III; other site 122586003598 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 122586003599 nucleotide binding region [chemical binding]; other site 122586003600 ATP-binding site [chemical binding]; other site 122586003601 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 122586003602 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 122586003603 inhibitor-cofactor binding pocket; inhibition site 122586003604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586003605 catalytic residue [active] 122586003606 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 122586003607 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 122586003608 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 122586003609 Walker A motif; other site 122586003610 ATP binding site [chemical binding]; other site 122586003611 Walker B motif; other site 122586003612 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 122586003613 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 122586003614 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 122586003615 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 122586003616 RNA binding site [nucleotide binding]; other site 122586003617 active site 122586003618 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 122586003619 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 122586003620 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 122586003621 active site 122586003622 substrate binding site [chemical binding]; other site 122586003623 FMN binding site [chemical binding]; other site 122586003624 putative catalytic residues [active] 122586003625 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 122586003626 Rrf2 family protein; Region: rrf2_super; TIGR00738 122586003627 cysteine desulfurase; Provisional; Region: PRK14012 122586003628 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 122586003629 catalytic residue [active] 122586003630 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 122586003631 trimerization site [polypeptide binding]; other site 122586003632 active site 122586003633 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 122586003634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 122586003635 co-chaperone HscB; Provisional; Region: hscB; PRK03578 122586003636 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 122586003637 HSP70 interaction site [polypeptide binding]; other site 122586003638 HSCB C-terminal oligomerization domain; Region: HSCB_C; pfam07743 122586003639 DNA gyrase subunit A; Validated; Region: PRK05560 122586003640 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 122586003641 CAP-like domain; other site 122586003642 active site 122586003643 primary dimer interface [polypeptide binding]; other site 122586003644 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 122586003645 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 122586003646 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 122586003647 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 122586003648 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 122586003649 Homeodomain-like domain; Region: HTH_23; cl17451 122586003650 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 122586003651 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 122586003652 active site 122586003653 dimer interface [polypeptide binding]; other site 122586003654 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 122586003655 dimer interface [polypeptide binding]; other site 122586003656 active site 122586003657 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 122586003658 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 122586003659 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 122586003660 putative active site [active] 122586003661 glucokinase; Provisional; Region: glk; PRK00292 122586003662 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 122586003663 putative active site [active] 122586003664 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 122586003665 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 122586003666 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 122586003667 phosphogluconate dehydratase; Validated; Region: PRK09054 122586003668 Entner-Doudoroff aldolase; Region: eda; TIGR01182 122586003669 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 122586003670 active site 122586003671 intersubunit interface [polypeptide binding]; other site 122586003672 catalytic residue [active] 122586003673 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 122586003674 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 122586003675 catalytic Zn binding site [ion binding]; other site 122586003676 structural Zn binding site [ion binding]; other site 122586003677 NAD(P) binding site [chemical binding]; other site 122586003678 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 122586003679 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 122586003680 minor groove reading motif; other site 122586003681 helix-hairpin-helix signature motif; other site 122586003682 substrate binding pocket [chemical binding]; other site 122586003683 active site 122586003684 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 122586003685 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 122586003686 DNA binding and oxoG recognition site [nucleotide binding] 122586003687 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 122586003688 E-class dimer interface [polypeptide binding]; other site 122586003689 P-class dimer interface [polypeptide binding]; other site 122586003690 active site 122586003691 Cu2+ binding site [ion binding]; other site 122586003692 Zn2+ binding site [ion binding]; other site 122586003693 Transposase domain (DUF772); Region: DUF772; pfam05598 122586003694 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 122586003695 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 122586003696 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 122586003697 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 122586003698 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 122586003699 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 122586003700 Walker A/P-loop; other site 122586003701 ATP binding site [chemical binding]; other site 122586003702 Q-loop/lid; other site 122586003703 ABC transporter signature motif; other site 122586003704 Walker B; other site 122586003705 D-loop; other site 122586003706 H-loop/switch region; other site 122586003707 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 122586003708 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 122586003709 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 122586003710 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 122586003711 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 122586003712 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 122586003713 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 122586003714 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 122586003715 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 122586003716 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 122586003717 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 122586003718 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 122586003719 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 122586003720 aminopeptidase N, Escherichia coli type; Region: pepN_proteo; TIGR02414 122586003721 active site 122586003722 Zn binding site [ion binding]; other site 122586003723 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 122586003724 active site 122586003725 catalytic site [active] 122586003726 substrate binding site [chemical binding]; other site 122586003727 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 122586003728 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 122586003729 putative acyl-acceptor binding pocket; other site 122586003730 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 122586003731 active site 122586003732 putative DNA-binding cleft [nucleotide binding]; other site 122586003733 dimer interface [polypeptide binding]; other site 122586003734 DNA-binding protein Fis; Provisional; Region: PRK01905 122586003735 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 122586003736 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 122586003737 FMN binding site [chemical binding]; other site 122586003738 active site 122586003739 catalytic residues [active] 122586003740 substrate binding site [chemical binding]; other site 122586003741 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 122586003742 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 122586003743 ATP binding site [chemical binding]; other site 122586003744 Mg++ binding site [ion binding]; other site 122586003745 motif III; other site 122586003746 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 122586003747 nucleotide binding region [chemical binding]; other site 122586003748 ATP-binding site [chemical binding]; other site 122586003749 Fic family protein [Function unknown]; Region: COG3177 122586003750 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 122586003751 Fic/DOC family; Region: Fic; pfam02661 122586003752 Protein of unknown function (DUF723); Region: DUF723; pfam05265 122586003753 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 122586003754 Catalytic site [active] 122586003755 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 122586003756 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 122586003757 dimer interface [polypeptide binding]; other site 122586003758 putative anticodon binding site; other site 122586003759 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 122586003760 motif 1; other site 122586003761 active site 122586003762 motif 2; other site 122586003763 motif 3; other site 122586003764 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 122586003765 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 122586003766 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 122586003767 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 122586003768 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 122586003769 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 122586003770 active site 122586003771 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 122586003772 trimer interface [polypeptide binding]; other site 122586003773 eyelet of channel; other site 122586003774 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 122586003775 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 122586003776 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 122586003777 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 122586003778 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 122586003779 hinge; other site 122586003780 active site 122586003781 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 122586003782 NlpC/P60 family; Region: NLPC_P60; pfam00877 122586003783 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 122586003784 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 122586003785 putative active site [active] 122586003786 catalytic site [active] 122586003787 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 122586003788 putative active site [active] 122586003789 catalytic site [active] 122586003790 putative transporter; Provisional; Region: PRK10504 122586003791 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 122586003792 putative substrate translocation pore; other site 122586003793 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 122586003794 Cysteine-rich domain; Region: CCG; pfam02754 122586003795 Cysteine-rich domain; Region: CCG; pfam02754 122586003796 Uncharacterized conserved protein [Function unknown]; Region: COG1556 122586003797 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 122586003798 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 122586003799 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 122586003800 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 122586003801 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 122586003802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 122586003803 Tetratricopeptide repeat; Region: TPR_6; pfam13174 122586003804 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 122586003805 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 122586003806 S-adenosylmethionine binding site [chemical binding]; other site 122586003807 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 122586003808 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 122586003809 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 122586003810 ATP binding site [chemical binding]; other site 122586003811 Mg2+ binding site [ion binding]; other site 122586003812 G-X-G motif; other site 122586003813 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 122586003814 ATP binding site [chemical binding]; other site 122586003815 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 122586003816 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 122586003817 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 122586003818 Walker A motif; other site 122586003819 ATP binding site [chemical binding]; other site 122586003820 Walker B motif; other site 122586003821 arginine finger; other site 122586003822 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 122586003823 hypothetical protein; Validated; Region: PRK00153 122586003824 recombinase A; Provisional; Region: recA; PRK09354 122586003825 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 122586003826 hexamer interface [polypeptide binding]; other site 122586003827 Walker A motif; other site 122586003828 ATP binding site [chemical binding]; other site 122586003829 Walker B motif; other site 122586003830 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 122586003831 active site 122586003832 catalytic residue [active] 122586003833 dimer interface [polypeptide binding]; other site 122586003834 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 122586003835 Part of AAA domain; Region: AAA_19; pfam13245 122586003836 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 122586003837 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 122586003838 active site 122586003839 DNA polymerase IV; Validated; Region: PRK02406 122586003840 DNA binding site [nucleotide binding] 122586003841 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 122586003842 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 122586003843 FAD binding pocket [chemical binding]; other site 122586003844 FAD binding motif [chemical binding]; other site 122586003845 phosphate binding motif [ion binding]; other site 122586003846 beta-alpha-beta structure motif; other site 122586003847 NAD binding pocket [chemical binding]; other site 122586003848 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 122586003849 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 122586003850 active site 122586003851 catalytic site [active] 122586003852 substrate binding site [chemical binding]; other site 122586003853 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 122586003854 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 122586003855 FMN binding site [chemical binding]; other site 122586003856 substrate binding site [chemical binding]; other site 122586003857 putative catalytic residue [active] 122586003858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 122586003859 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 122586003860 4Fe-4S binding domain; Region: Fer4_5; pfam12801 122586003861 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 122586003862 IG-like fold at C-terminal of FixG, putative oxidoreductase; Region: FixG_C; pfam11614 122586003863 transketolase; Reviewed; Region: PRK12753 122586003864 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 122586003865 TPP-binding site [chemical binding]; other site 122586003866 dimer interface [polypeptide binding]; other site 122586003867 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 122586003868 PYR/PP interface [polypeptide binding]; other site 122586003869 dimer interface [polypeptide binding]; other site 122586003870 TPP binding site [chemical binding]; other site 122586003871 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 122586003872 fumarate hydratase; Reviewed; Region: fumC; PRK00485 122586003873 Class II fumarases; Region: Fumarase_classII; cd01362 122586003874 active site 122586003875 tetramer interface [polypeptide binding]; other site 122586003876 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 122586003877 EamA-like transporter family; Region: EamA; pfam00892 122586003878 EamA-like transporter family; Region: EamA; pfam00892 122586003879 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 122586003880 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 122586003881 dimer interface [polypeptide binding]; other site 122586003882 ssDNA binding site [nucleotide binding]; other site 122586003883 tetramer (dimer of dimers) interface [polypeptide binding]; other site 122586003884 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 122586003885 Major Facilitator Superfamily; Region: MFS_1; pfam07690 122586003886 putative substrate translocation pore; other site 122586003887 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 122586003888 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 122586003889 N-acetyl-D-glucosamine binding site [chemical binding]; other site 122586003890 catalytic residue [active] 122586003891 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 122586003892 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 122586003893 Protein of unknown function (DUF560); Region: DUF560; pfam04575 122586003894 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 122586003895 exopolyphosphatase; Region: exo_poly_only; TIGR03706 122586003896 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 122586003897 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 122586003898 active site 122586003899 HIGH motif; other site 122586003900 dimer interface [polypeptide binding]; other site 122586003901 KMSKS motif; other site 122586003902 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 122586003903 Clp amino terminal domain; Region: Clp_N; pfam02861 122586003904 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 122586003905 Walker A motif; other site 122586003906 ATP binding site [chemical binding]; other site 122586003907 Walker B motif; other site 122586003908 arginine finger; other site 122586003909 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 122586003910 Walker A motif; other site 122586003911 ATP binding site [chemical binding]; other site 122586003912 Walker B motif; other site 122586003913 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 122586003914 aminotransferase AlaT; Validated; Region: PRK09265 122586003915 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 122586003916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586003917 homodimer interface [polypeptide binding]; other site 122586003918 catalytic residue [active] 122586003919 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 122586003920 active site 1 [active] 122586003921 dimer interface [polypeptide binding]; other site 122586003922 hexamer interface [polypeptide binding]; other site 122586003923 active site 2 [active] 122586003924 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 122586003925 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 122586003926 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 122586003927 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 122586003928 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 122586003929 NAD(P) binding site [chemical binding]; other site 122586003930 recombination regulator RecX; Reviewed; Region: recX; PRK00117 122586003931 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 122586003932 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 122586003933 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 122586003934 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 122586003935 Peptidase family M23; Region: Peptidase_M23; pfam01551 122586003936 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 122586003937 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 122586003938 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 122586003939 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 122586003940 Transporter associated domain; Region: CorC_HlyC; smart01091 122586003941 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 122586003942 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 122586003943 tetramerization interface [polypeptide binding]; other site 122586003944 NAD(P) binding site [chemical binding]; other site 122586003945 catalytic residues [active] 122586003946 Inhibitor of the contact-dependent growth inhibition (CDI) system of Escherichia coli EC869, and related proteins; Region: CDI_inhibitor_EC869_like; cd13445 122586003947 CDI toxin binding surface [polypeptide binding]; other site 122586003948 carbon starvation protein A; Provisional; Region: PRK15015 122586003949 Carbon starvation protein CstA; Region: CstA; pfam02554 122586003950 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 122586003951 Uncharacterized small protein [Function unknown]; Region: COG2879 122586003952 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 122586003953 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 122586003954 probable active site [active] 122586003955 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 122586003956 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 122586003957 aspartate kinase; Reviewed; Region: PRK06635 122586003958 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 122586003959 putative nucleotide binding site [chemical binding]; other site 122586003960 putative catalytic residues [active] 122586003961 putative Mg ion binding site [ion binding]; other site 122586003962 putative aspartate binding site [chemical binding]; other site 122586003963 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 122586003964 putative allosteric regulatory site; other site 122586003965 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 122586003966 ribonuclease PH; Reviewed; Region: rph; PRK00173 122586003967 Ribonuclease PH; Region: RNase_PH_bact; cd11362 122586003968 hexamer interface [polypeptide binding]; other site 122586003969 active site 122586003970 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 122586003971 Ligand Binding Site [chemical binding]; other site 122586003972 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 122586003973 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 122586003974 putative ATP binding site [chemical binding]; other site 122586003975 putative substrate interface [chemical binding]; other site 122586003976 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 122586003977 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 122586003978 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 122586003979 active site 122586003980 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 122586003981 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 122586003982 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 122586003983 active site 122586003984 HIGH motif; other site 122586003985 KMSK motif region; other site 122586003986 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 122586003987 tRNA binding surface [nucleotide binding]; other site 122586003988 anticodon binding site; other site 122586003989 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 122586003990 Sulfatase; Region: Sulfatase; cl19157 122586003991 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 122586003992 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 122586003993 dimer interface [polypeptide binding]; other site 122586003994 conserved gate region; other site 122586003995 putative PBP binding loops; other site 122586003996 ABC-ATPase subunit interface; other site 122586003997 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 122586003998 Staphylococcal nuclease homologue; Region: SNase; cl00140 122586003999 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 122586004000 tetramer (dimer of dimers) interface [polypeptide binding]; other site 122586004001 active site 122586004002 dimer interface [polypeptide binding]; other site 122586004003 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 122586004004 homotrimer interaction site [polypeptide binding]; other site 122586004005 zinc binding site [ion binding]; other site 122586004006 CDP-binding sites; other site 122586004007 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 122586004008 substrate binding site; other site 122586004009 dimer interface; other site 122586004010 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 122586004011 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 122586004012 active site 122586004013 catalytic site [active] 122586004014 substrate binding site [chemical binding]; other site 122586004015 H+ Antiporter protein; Region: 2A0121; TIGR00900 122586004016 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 122586004017 putative substrate translocation pore; other site 122586004018 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 122586004019 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 122586004020 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 122586004021 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 122586004022 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 122586004023 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 122586004024 DsbD alpha interface [polypeptide binding]; other site 122586004025 catalytic residues [active] 122586004026 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 122586004027 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 122586004028 active site lid residues [active] 122586004029 substrate binding pocket [chemical binding]; other site 122586004030 catalytic residues [active] 122586004031 substrate-Mg2+ binding site; other site 122586004032 aspartate-rich region 1; other site 122586004033 aspartate-rich region 2; other site 122586004034 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 122586004035 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 122586004036 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 122586004037 FAD binding domain; Region: FAD_binding_4; pfam01565 122586004038 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 122586004039 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 122586004040 SmpB-tmRNA interface; other site 122586004041 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 122586004042 putative active site [active] 122586004043 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 122586004044 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 122586004045 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 122586004046 DNA binding site [nucleotide binding] 122586004047 active site 122586004048 Phospholipid-binding protein [General function prediction only]; Region: COG1881 122586004049 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 122586004050 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 122586004051 metal binding site [ion binding]; metal-binding site 122586004052 dimer interface [polypeptide binding]; other site 122586004053 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 122586004054 Hemerythrin-like domain; Region: Hr-like; cd12108 122586004055 Fe binding site [ion binding]; other site 122586004056 Azurin is a redox partner for enzymes such as nitrite reductase or arsenite oxidase; Region: Azurin; cd13922 122586004057 Type 1 (T1) Cu binding site [ion binding]; other site 122586004058 Protein of unknown function (DUF721); Region: DUF721; pfam05258 122586004059 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 122586004060 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 122586004061 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 122586004062 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 122586004063 SEC-C motif; Region: SEC-C; pfam02810 122586004064 DNA primase; Validated; Region: dnaG; PRK05667 122586004065 CHC2 zinc finger; Region: zf-CHC2; pfam01807 122586004066 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 122586004067 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 122586004068 active site 122586004069 metal binding site [ion binding]; metal-binding site 122586004070 interdomain interaction site; other site 122586004071 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 122586004072 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 122586004073 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 122586004074 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 122586004075 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 122586004076 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 122586004077 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 122586004078 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 122586004079 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 122586004080 DNA binding residues [nucleotide binding] 122586004081 Transposase domain (DUF772); Region: DUF772; pfam05598 122586004082 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 122586004083 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 122586004084 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 122586004085 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 122586004086 N-terminal plug; other site 122586004087 ligand-binding site [chemical binding]; other site 122586004088 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 122586004089 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 122586004090 Replication initiation factor; Region: Rep_trans; pfam02486 122586004091 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 122586004092 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 122586004093 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 122586004094 Zonular occludens toxin (Zot); Region: Zot; cl17485 122586004095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 122586004096 Transposase; Region: DEDD_Tnp_IS110; pfam01548 122586004097 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 122586004098 Transposase domain (DUF772); Region: DUF772; pfam05598 122586004099 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 122586004100 CTP synthetase; Validated; Region: pyrG; PRK05380 122586004101 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 122586004102 Catalytic site [active] 122586004103 active site 122586004104 UTP binding site [chemical binding]; other site 122586004105 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 122586004106 active site 122586004107 putative oxyanion hole; other site 122586004108 catalytic triad [active] 122586004109 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 122586004110 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 122586004111 acyl-activating enzyme (AAE) consensus motif; other site 122586004112 putative AMP binding site [chemical binding]; other site 122586004113 putative active site [active] 122586004114 putative CoA binding site [chemical binding]; other site 122586004115 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 122586004116 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 122586004117 Ligand Binding Site [chemical binding]; other site 122586004118 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 122586004119 Integral membrane diacylglycerol kinase; Region: DAGK_IM; cd14264 122586004120 putative active site [active] 122586004121 trimer interface [polypeptide binding]; other site 122586004122 putative active site [active] 122586004123 Zn binding site [ion binding]; other site 122586004124 glutathione synthetase; Provisional; Region: PRK05246 122586004125 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 122586004126 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 122586004127 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 122586004128 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 122586004129 active site 122586004130 nucleotide binding site [chemical binding]; other site 122586004131 HIGH motif; other site 122586004132 KMSKS motif; other site 122586004133 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 122586004134 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 122586004135 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 122586004136 putative DNA binding site [nucleotide binding]; other site 122586004137 putative Zn2+ binding site [ion binding]; other site 122586004138 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 122586004139 Predicted membrane protein [Function unknown]; Region: COG2431 122586004140 Transcriptional regulators [Transcription]; Region: GntR; COG1802 122586004141 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 122586004142 DNA-binding site [nucleotide binding]; DNA binding site 122586004143 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 122586004144 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 122586004145 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 122586004146 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 122586004147 active site 122586004148 substrate binding site [chemical binding]; other site 122586004149 cosubstrate binding site; other site 122586004150 catalytic site [active] 122586004151 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 122586004152 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 122586004153 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 122586004154 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 122586004155 Predicted permeases [General function prediction only]; Region: COG0795 122586004156 Predicted permeases [General function prediction only]; Region: COG0795 122586004157 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 122586004158 Aconitate B N-terminal domain; Region: Aconitase_B_N; pfam11791 122586004159 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 122586004160 substrate binding site [chemical binding]; other site 122586004161 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 122586004162 substrate binding site [chemical binding]; other site 122586004163 ligand binding site [chemical binding]; other site 122586004164 ornithine carbamoyltransferase; Validated; Region: PRK02102 122586004165 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 122586004166 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 122586004167 ketol-acid reductoisomerase; Provisional; Region: PRK05479 122586004168 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 122586004169 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 122586004170 Uncharacterized conserved protein [Function unknown]; Region: COG1359 122586004171 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 122586004172 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 122586004173 putative valine binding site [chemical binding]; other site 122586004174 dimer interface [polypeptide binding]; other site 122586004175 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 122586004176 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 122586004177 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 122586004178 PYR/PP interface [polypeptide binding]; other site 122586004179 dimer interface [polypeptide binding]; other site 122586004180 TPP binding site [chemical binding]; other site 122586004181 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 122586004182 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 122586004183 TPP-binding site [chemical binding]; other site 122586004184 dimer interface [polypeptide binding]; other site 122586004185 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 122586004186 Cu(I) binding site [ion binding]; other site 122586004187 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 122586004188 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 122586004189 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 122586004190 GIY-YIG motif/motif A; other site 122586004191 putative active site [active] 122586004192 putative metal binding site [ion binding]; other site 122586004193 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 122586004194 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 122586004195 NAD binding site [chemical binding]; other site 122586004196 dimerization interface [polypeptide binding]; other site 122586004197 product binding site; other site 122586004198 substrate binding site [chemical binding]; other site 122586004199 zinc binding site [ion binding]; other site 122586004200 catalytic residues [active] 122586004201 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 122586004202 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 122586004203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586004204 homodimer interface [polypeptide binding]; other site 122586004205 catalytic residue [active] 122586004206 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 122586004207 putative active site pocket [active] 122586004208 4-fold oligomerization interface [polypeptide binding]; other site 122586004209 metal binding residues [ion binding]; metal-binding site 122586004210 3-fold/trimer interface [polypeptide binding]; other site 122586004211 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 122586004212 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 122586004213 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 122586004214 Transcriptional regulators [Transcription]; Region: MarR; COG1846 122586004215 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 122586004216 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 122586004217 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 122586004218 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 122586004219 putative inner membrane peptidase; Provisional; Region: PRK11778 122586004220 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 122586004221 tandem repeat interface [polypeptide binding]; other site 122586004222 oligomer interface [polypeptide binding]; other site 122586004223 active site residues [active] 122586004224 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 122586004225 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 122586004226 Cupin; Region: Cupin_6; pfam12852 122586004227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 122586004228 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 122586004229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 122586004230 Flagellar L-ring protein; Region: FlgH; cl19182 122586004231 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 122586004232 EamA-like transporter family; Region: EamA; pfam00892 122586004233 EamA-like transporter family; Region: EamA; cl17759 122586004234 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 122586004235 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 122586004236 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 122586004237 motif 1; other site 122586004238 active site 122586004239 motif 2; other site 122586004240 motif 3; other site 122586004241 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 122586004242 DHHA1 domain; Region: DHHA1; pfam02272 122586004243 Transposase domain (DUF772); Region: DUF772; pfam05598 122586004244 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 122586004245 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 122586004246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 122586004247 Transposase; Region: DEDD_Tnp_IS110; pfam01548 122586004248 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 122586004249 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 122586004250 gating phenylalanine in ion channel; other site 122586004251 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 122586004252 catalytic core [active] 122586004253 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 122586004254 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 122586004255 CAP-like domain; other site 122586004256 active site 122586004257 primary dimer interface [polypeptide binding]; other site 122586004258 Predicted permeases [General function prediction only]; Region: COG0730 122586004259 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 122586004260 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 122586004261 dimer interface [polypeptide binding]; other site 122586004262 phosphorylation site [posttranslational modification] 122586004263 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 122586004264 Mg2+ binding site [ion binding]; other site 122586004265 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 122586004266 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 122586004267 active site 122586004268 phosphorylation site [posttranslational modification] 122586004269 intermolecular recognition site; other site 122586004270 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 122586004271 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 122586004272 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 122586004273 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 122586004274 homodimer interface [polypeptide binding]; other site 122586004275 substrate-cofactor binding pocket; other site 122586004276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586004277 catalytic residue [active] 122586004278 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 122586004279 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 122586004280 substrate binding pocket [chemical binding]; other site 122586004281 membrane-bound complex binding site; other site 122586004282 hinge residues; other site 122586004283 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 122586004284 Fumarase C-terminus; Region: Fumerase_C; pfam05683 122586004285 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 122586004286 TrkA-N domain; Region: TrkA_N; pfam02254 122586004287 TrkA-C domain; Region: TrkA_C; pfam02080 122586004288 TrkA-N domain; Region: TrkA_N; pfam02254 122586004289 TrkA-C domain; Region: TrkA_C; pfam02080 122586004290 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 122586004291 dimer interface [polypeptide binding]; other site 122586004292 substrate binding site [chemical binding]; other site 122586004293 ATP binding site [chemical binding]; other site 122586004294 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 122586004295 tellurite resistance protein TehB; Provisional; Region: PRK12335 122586004296 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 122586004297 S-adenosylmethionine binding site [chemical binding]; other site 122586004298 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 122586004299 RNA/DNA hybrid binding site [nucleotide binding]; other site 122586004300 active site 122586004301 HIT domain; Region: HIT; pfam01230 122586004302 HIT family signature motif; other site 122586004303 catalytic residue [active] 122586004304 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 122586004305 dimer interface [polypeptide binding]; other site 122586004306 catalytic triad [active] 122586004307 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 122586004308 catalytic residues [active] 122586004309 dimer interface [polypeptide binding]; other site 122586004310 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 122586004311 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 122586004312 Cupredoxin domain 1 of Copper-containing nitrite reductase and two-domain laccase; Region: CuRO_1_CuNIR_like; cd04201 122586004313 Type 1 (T1) Cu binding site [ion binding]; other site 122586004314 trimer interface [polypeptide binding]; other site 122586004315 Type II Cu binding site [ion binding]; other site 122586004316 Cupredoxin domain 2 of Copper-containing nitrite reductase; Region: CuRO_2_CuNIR; cd04208 122586004317 trimer interface [polypeptide binding]; other site 122586004318 Cu binding site [ion binding]; other site 122586004319 Uncharacterized conserved protein [Function unknown]; Region: COG1262 122586004320 Sulfatase-modifying factor enzyme 1; Region: FGE-sulfatase; cl19582 122586004321 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 122586004322 Transposase; Region: DEDD_Tnp_IS110; pfam01548 122586004323 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 122586004324 Zonular occludens toxin (Zot); Region: Zot; cl17485 122586004325 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 122586004326 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 122586004327 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 122586004328 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 122586004329 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 122586004330 Replication initiation factor; Region: Rep_trans; pfam02486 122586004331 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 122586004332 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 122586004333 putative FMN binding site [chemical binding]; other site 122586004334 putative metal dependent hydrolase; Provisional; Region: PRK11598 122586004335 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 122586004336 Sulfatase; Region: Sulfatase; pfam00884 122586004337 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 122586004338 homodimer interface [polypeptide binding]; other site 122586004339 substrate-cofactor binding pocket; other site 122586004340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586004341 catalytic residue [active] 122586004342 Sm and related proteins; Region: Sm_like; cl00259 122586004343 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 122586004344 putative oligomer interface [polypeptide binding]; other site 122586004345 putative RNA binding site [nucleotide binding]; other site 122586004346 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 122586004347 NusA N-terminal domain; Region: NusA_N; pfam08529 122586004348 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 122586004349 RNA binding site [nucleotide binding]; other site 122586004350 homodimer interface [polypeptide binding]; other site 122586004351 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 122586004352 G-X-X-G motif; other site 122586004353 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 122586004354 G-X-X-G motif; other site 122586004355 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 122586004356 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 122586004357 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 122586004358 translation initiation factor IF-2; Validated; Region: infB; PRK05306 122586004359 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 122586004360 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 122586004361 G1 box; other site 122586004362 putative GEF interaction site [polypeptide binding]; other site 122586004363 GTP/Mg2+ binding site [chemical binding]; other site 122586004364 Switch I region; other site 122586004365 G2 box; other site 122586004366 G3 box; other site 122586004367 Switch II region; other site 122586004368 G4 box; other site 122586004369 G5 box; other site 122586004370 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 122586004371 Translation-initiation factor 2; Region: IF-2; pfam11987 122586004372 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 122586004373 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 122586004374 G1 box; other site 122586004375 GTP/Mg2+ binding site [chemical binding]; other site 122586004376 G2 box; other site 122586004377 Switch I region; other site 122586004378 G3 box; other site 122586004379 Switch II region; other site 122586004380 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 122586004381 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 122586004382 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 122586004383 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 122586004384 hypothetical protein; Validated; Region: PRK00110 122586004385 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 122586004386 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 122586004387 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 122586004388 putative DNA binding site [nucleotide binding]; other site 122586004389 putative Zn2+ binding site [ion binding]; other site 122586004390 AsnC family; Region: AsnC_trans_reg; pfam01037 122586004391 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 122586004392 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 122586004393 active site 122586004394 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 122586004395 substrate binding site [chemical binding]; other site 122586004396 catalytic residues [active] 122586004397 dimer interface [polypeptide binding]; other site 122586004398 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 122586004399 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 122586004400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 122586004401 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 122586004402 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 122586004403 S-adenosylmethionine binding site [chemical binding]; other site 122586004404 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 122586004405 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 122586004406 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 122586004407 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 122586004408 Flavoprotein; Region: Flavoprotein; cl19190 122586004409 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 122586004410 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 122586004411 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 122586004412 Zn2+ binding site [ion binding]; other site 122586004413 Mg2+ binding site [ion binding]; other site 122586004414 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 122586004415 synthetase active site [active] 122586004416 NTP binding site [chemical binding]; other site 122586004417 metal binding site [ion binding]; metal-binding site 122586004418 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 122586004419 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 122586004420 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 122586004421 Guanylate kinase; Region: Guanylate_kin; pfam00625 122586004422 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 122586004423 catalytic site [active] 122586004424 G-X2-G-X-G-K; other site 122586004425 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 122586004426 active site 122586004427 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 122586004428 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 122586004429 active site 122586004430 motif I; other site 122586004431 motif II; other site 122586004432 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 122586004433 putative protease; Provisional; Region: PRK15452 122586004434 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 122586004435 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 122586004436 putative active site [active] 122586004437 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 122586004438 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 122586004439 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 122586004440 N-terminal plug; other site 122586004441 ligand-binding site [chemical binding]; other site 122586004442 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 122586004443 heme binding pocket [chemical binding]; other site 122586004444 heme ligand [chemical binding]; other site 122586004445 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 122586004446 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 122586004447 Paraquat-inducible protein A; Region: PqiA; pfam04403 122586004448 Paraquat-inducible protein A; Region: PqiA; pfam04403 122586004449 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 122586004450 mce related protein; Region: MCE; pfam02470 122586004451 mce related protein; Region: MCE; pfam02470 122586004452 Fibrinogen alpha/beta chain family; Region: Fib_alpha; pfam08702 122586004453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 122586004454 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 122586004455 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 122586004456 active site 122586004457 catalytic triad [active] 122586004458 oxyanion hole [active] 122586004459 switch loop; other site 122586004460 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 122586004461 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 122586004462 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 122586004463 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 122586004464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586004465 homodimer interface [polypeptide binding]; other site 122586004466 catalytic residue [active] 122586004467 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 122586004468 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 122586004469 S-adenosylmethionine binding site [chemical binding]; other site 122586004470 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 122586004471 Tetramer interface [polypeptide binding]; other site 122586004472 active site 122586004473 FMN-binding site [chemical binding]; other site 122586004474 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 122586004475 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 122586004476 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 122586004477 ATP binding site [chemical binding]; other site 122586004478 Mg2+ binding site [ion binding]; other site 122586004479 G-X-G motif; other site 122586004480 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 122586004481 anchoring element; other site 122586004482 dimer interface [polypeptide binding]; other site 122586004483 ATP binding site [chemical binding]; other site 122586004484 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 122586004485 active site 122586004486 metal binding site [ion binding]; metal-binding site 122586004487 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 122586004488 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 122586004489 putative active site [active] 122586004490 Ap4A binding site [chemical binding]; other site 122586004491 nudix motif; other site 122586004492 putative metal binding site [ion binding]; other site 122586004493 seryl-tRNA synthetase; Provisional; Region: PRK05431 122586004494 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 122586004495 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 122586004496 dimer interface [polypeptide binding]; other site 122586004497 active site 122586004498 motif 1; other site 122586004499 motif 2; other site 122586004500 motif 3; other site 122586004501 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 122586004502 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 122586004503 putative ligand binding site [chemical binding]; other site 122586004504 putative NAD binding site [chemical binding]; other site 122586004505 catalytic site [active] 122586004506 peptide chain release factor 1; Validated; Region: prfA; PRK00591 122586004507 This domain is found in peptide chain release factors; Region: PCRF; smart00937 122586004508 RF-1 domain; Region: RF-1; pfam00472 122586004509 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 122586004510 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 122586004511 active site 122586004512 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 122586004513 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 122586004514 active site 122586004515 homodimer interface [polypeptide binding]; other site 122586004516 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 122586004517 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 122586004518 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 122586004519 active site 122586004520 substrate binding site [chemical binding]; other site 122586004521 metal binding site [ion binding]; metal-binding site 122586004522 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 122586004523 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 122586004524 substrate binding pocket [chemical binding]; other site 122586004525 dimer interface [polypeptide binding]; other site 122586004526 inhibitor binding site; inhibition site 122586004527 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 122586004528 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 122586004529 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 122586004530 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 122586004531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 122586004532 Predicted membrane protein [Function unknown]; Region: COG4648 122586004533 acyl carrier protein; Provisional; Region: PRK05350 122586004534 Phosphopantetheine attachment site; Region: PP-binding; cl09936 122586004535 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 122586004536 putative acyl-acceptor binding pocket; other site 122586004537 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 122586004538 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 122586004539 putative active site 1 [active] 122586004540 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 122586004541 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 122586004542 NAD(P) binding site [chemical binding]; other site 122586004543 homotetramer interface [polypeptide binding]; other site 122586004544 homodimer interface [polypeptide binding]; other site 122586004545 active site 122586004546 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 122586004547 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 122586004548 dimer interface [polypeptide binding]; other site 122586004549 active site 122586004550 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 122586004551 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 122586004552 putative metal binding site; other site 122586004553 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 122586004554 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 122586004555 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 122586004556 Na2 binding site [ion binding]; other site 122586004557 putative substrate binding site 1 [chemical binding]; other site 122586004558 Na binding site 1 [ion binding]; other site 122586004559 putative substrate binding site 2 [chemical binding]; other site 122586004560 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 122586004561 dimerization interface [polypeptide binding]; other site 122586004562 active site 122586004563 glutamate dehydrogenase; Provisional; Region: PRK09414 122586004564 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 122586004565 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 122586004566 NAD(P) binding site [chemical binding]; other site 122586004567 Transcriptional regulators [Transcription]; Region: FadR; COG2186 122586004568 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 122586004569 DNA-binding site [nucleotide binding]; DNA binding site 122586004570 FCD domain; Region: FCD; pfam07729 122586004571 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 122586004572 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586004573 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586004574 Homeodomain-like domain; Region: HTH_32; pfam13565 122586004575 Integrase core domain; Region: rve; pfam00665 122586004576 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 122586004577 Outer membrane efflux protein; Region: OEP; pfam02321 122586004578 Outer membrane efflux protein; Region: OEP; pfam02321 122586004579 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 122586004580 MMPL family; Region: MMPL; cl14618 122586004581 MMPL family; Region: MMPL; cl14618 122586004582 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 122586004583 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 122586004584 HlyD family secretion protein; Region: HlyD_3; pfam13437 122586004585 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 122586004586 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 122586004587 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 122586004588 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 122586004589 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 122586004590 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 122586004591 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 122586004592 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 122586004593 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 122586004594 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 122586004595 N-terminal domain of cytochrome oxidase-cbb3, FixP; Region: FixP_N; pfam14715 122586004596 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 122586004597 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 122586004598 Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]; Region: CcoQ; COG4736 122586004599 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 122586004600 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 122586004601 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 122586004602 Low-spin heme binding site [chemical binding]; other site 122586004603 Putative water exit pathway; other site 122586004604 Binuclear center (active site) [active] 122586004605 Putative proton exit pathway; other site 122586004606 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 122586004607 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 122586004608 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 122586004609 Zn binding site [ion binding]; other site 122586004610 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 122586004611 protein binding site [polypeptide binding]; other site 122586004612 TIGR01244 family protein; Region: TIGR01244 122586004613 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 122586004614 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 122586004615 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 122586004616 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 122586004617 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 122586004618 Peptidase family M50; Region: Peptidase_M50; pfam02163 122586004619 active site 122586004620 putative substrate binding region [chemical binding]; other site 122586004621 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 122586004622 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 122586004623 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 122586004624 C-terminal domain interface [polypeptide binding]; other site 122586004625 GSH binding site (G-site) [chemical binding]; other site 122586004626 catalytic residues [active] 122586004627 putative dimer interface [polypeptide binding]; other site 122586004628 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 122586004629 N-terminal domain interface [polypeptide binding]; other site 122586004630 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 122586004631 HD domain; Region: HD_4; pfam13328 122586004632 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 122586004633 synthetase active site [active] 122586004634 NTP binding site [chemical binding]; other site 122586004635 metal binding site [ion binding]; metal-binding site 122586004636 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 122586004637 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 122586004638 DDE superfamily endonuclease; Region: DDE_3; pfam13358 122586004639 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 122586004640 Outer membrane efflux protein; Region: OEP; pfam02321 122586004641 Outer membrane efflux protein; Region: OEP; pfam02321 122586004642 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 122586004643 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 122586004644 HlyD family secretion protein; Region: HlyD_3; pfam13437 122586004645 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 122586004646 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 122586004647 Replication initiation factor; Region: Rep_trans; pfam02486 122586004648 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 122586004649 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 122586004650 Zonular occludens toxin (Zot); Region: Zot; pfam05707 122586004651 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 122586004652 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 122586004653 Transposase; Region: DEDD_Tnp_IS110; pfam01548 122586004654 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 122586004655 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 122586004656 Fic family protein [Function unknown]; Region: COG3177 122586004657 Fic/DOC family; Region: Fic; pfam02661 122586004658 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 122586004659 HipA N-terminal domain; Region: Couple_hipA; pfam13657 122586004660 HipA-like N-terminal domain; Region: HipA_N; pfam07805 122586004661 HipA-like C-terminal domain; Region: HipA_C; pfam07804 122586004662 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 122586004663 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 122586004664 ACP:hemolysin acyltransferase (hemolysin-activating protein) [Posttranslational modification, protein turnover, chaperones]; Region: HlyC; COG2994 122586004665 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 122586004666 haemagglutination activity domain; Region: Haemagg_act; pfam05860 122586004667 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586004668 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 122586004669 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 122586004670 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 122586004671 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586004672 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586004673 Homeodomain-like domain; Region: HTH_32; pfam13565 122586004674 Integrase core domain; Region: rve; pfam00665 122586004675 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586004676 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 122586004677 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 122586004678 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586004679 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 122586004680 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 122586004681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 122586004682 haemagglutination activity domain; Region: Haemagg_act; pfam05860 122586004683 Protein of unknown function (DUF342); Region: DUF342; cl19219 122586004684 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 122586004685 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 122586004686 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 122586004687 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 122586004688 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 122586004689 Uncharacterized conserved protein [Function unknown]; Region: COG2850 122586004690 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 122586004691 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 122586004692 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl19935 122586004693 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 122586004694 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 122586004695 generic binding surface II; other site 122586004696 ssDNA binding site; other site 122586004697 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 122586004698 ATP binding site [chemical binding]; other site 122586004699 putative Mg++ binding site [ion binding]; other site 122586004700 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 122586004701 nucleotide binding region [chemical binding]; other site 122586004702 ATP-binding site [chemical binding]; other site 122586004703 protein-export chaperone SecB; Region: secB; TIGR00809 122586004704 SecA binding site; other site 122586004705 Preprotein binding site; other site 122586004706 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 122586004707 GSH binding site [chemical binding]; other site 122586004708 catalytic residues [active] 122586004709 ribonuclease G; Provisional; Region: PRK11712 122586004710 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 122586004711 homodimer interface [polypeptide binding]; other site 122586004712 oligonucleotide binding site [chemical binding]; other site 122586004713 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 122586004714 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 122586004715 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 122586004716 dimer interface [polypeptide binding]; other site 122586004717 phosphorylation site [posttranslational modification] 122586004718 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 122586004719 ATP binding site [chemical binding]; other site 122586004720 Mg2+ binding site [ion binding]; other site 122586004721 G-X-G motif; other site 122586004722 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 122586004723 Citrate transporter; Region: CitMHS; pfam03600 122586004724 Predicted flavoprotein [General function prediction only]; Region: COG0431 122586004725 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 122586004726 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 122586004727 S-adenosylmethionine synthetase; Validated; Region: PRK05250 122586004728 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 122586004729 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 122586004730 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 122586004731 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 122586004732 putative acyl-acceptor binding pocket; other site 122586004733 UGMP family protein; Validated; Region: PRK09604 122586004734 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 122586004735 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 122586004736 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 122586004737 Cytochrome c553 [Energy production and conversion]; Region: COG2863 122586004738 Cytochrome c; Region: Cytochrom_C; pfam00034 122586004739 Predicted GTPase [General function prediction only]; Region: COG0218 122586004740 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 122586004741 G1 box; other site 122586004742 GTP/Mg2+ binding site [chemical binding]; other site 122586004743 Switch I region; other site 122586004744 G2 box; other site 122586004745 G3 box; other site 122586004746 Switch II region; other site 122586004747 G4 box; other site 122586004748 G5 box; other site 122586004749 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 122586004750 Transglycosylase; Region: Transgly; pfam00912 122586004751 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 122586004752 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 122586004753 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 122586004754 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 122586004755 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 122586004756 AMIN domain; Region: AMIN; pfam11741 122586004757 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 122586004758 Secretin and TonB N terminus short domain; Region: STN; smart00965 122586004759 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 122586004760 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 122586004761 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 122586004762 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 122586004763 ADP binding site [chemical binding]; other site 122586004764 magnesium binding site [ion binding]; other site 122586004765 putative shikimate binding site; other site 122586004766 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 122586004767 active site 122586004768 dimer interface [polypeptide binding]; other site 122586004769 metal binding site [ion binding]; metal-binding site 122586004770 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 122586004771 putative active site [active] 122586004772 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 122586004773 putative dimer interface [polypeptide binding]; other site 122586004774 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 122586004775 ATP cone domain; Region: ATP-cone; pfam03477 122586004776 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 122586004777 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 122586004778 catalytic motif [active] 122586004779 Zn binding site [ion binding]; other site 122586004780 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 122586004781 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 122586004782 Polysaccharide biosynthesis C-terminal domain; Region: Polysacc_synt_C; cl10513 122586004783 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 122586004784 Bacterial sugar transferase; Region: Bac_transf; pfam02397 122586004785 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 122586004786 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 122586004787 putative trimer interface [polypeptide binding]; other site 122586004788 putative CoA binding site [chemical binding]; other site 122586004789 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 122586004790 inhibitor-cofactor binding pocket; inhibition site 122586004791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586004792 catalytic residue [active] 122586004793 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 122586004794 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 122586004795 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 122586004796 NAD(P) binding site [chemical binding]; other site 122586004797 homodimer interface [polypeptide binding]; other site 122586004798 substrate binding site [chemical binding]; other site 122586004799 active site 122586004800 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 122586004801 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 122586004802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586004803 homodimer interface [polypeptide binding]; other site 122586004804 catalytic residue [active] 122586004805 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 122586004806 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 122586004807 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 122586004808 active site 122586004809 active site 122586004810 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 122586004811 RNA binding surface [nucleotide binding]; other site 122586004812 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 122586004813 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 122586004814 putative active site [active] 122586004815 putative PHP Thumb interface [polypeptide binding]; other site 122586004816 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 122586004817 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 122586004818 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 122586004819 generic binding surface II; other site 122586004820 generic binding surface I; other site 122586004821 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 122586004822 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 122586004823 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 122586004824 N-terminal plug; other site 122586004825 ligand-binding site [chemical binding]; other site 122586004826 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 122586004827 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 122586004828 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 122586004829 motif II; other site 122586004830 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 122586004831 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 122586004832 Fe-S cluster binding site [ion binding]; other site 122586004833 substrate binding site [chemical binding]; other site 122586004834 catalytic site [active] 122586004835 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 122586004836 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 122586004837 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 122586004838 active site 122586004839 HIGH motif; other site 122586004840 nucleotide binding site [chemical binding]; other site 122586004841 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 122586004842 active site 122586004843 KMSKS motif; other site 122586004844 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 122586004845 tRNA binding surface [nucleotide binding]; other site 122586004846 anticodon binding site; other site 122586004847 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 122586004848 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 122586004849 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 122586004850 active site 122586004851 Riboflavin kinase; Region: Flavokinase; smart00904 122586004852 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 122586004853 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 122586004854 active site 122586004855 HIGH motif; other site 122586004856 dimer interface [polypeptide binding]; other site 122586004857 KMSKS motif; other site 122586004858 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 122586004859 GTP-binding protein YchF; Reviewed; Region: PRK09601 122586004860 YchF GTPase; Region: YchF; cd01900 122586004861 G1 box; other site 122586004862 GTP/Mg2+ binding site [chemical binding]; other site 122586004863 Switch I region; other site 122586004864 G2 box; other site 122586004865 Switch II region; other site 122586004866 G3 box; other site 122586004867 G4 box; other site 122586004868 G5 box; other site 122586004869 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 122586004870 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 122586004871 Potassium binding sites [ion binding]; other site 122586004872 Cesium cation binding sites [ion binding]; other site 122586004873 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 122586004874 Predicted membrane protein [Function unknown]; Region: COG2510 122586004875 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 122586004876 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 122586004877 Substrate binding site; other site 122586004878 metal-binding site 122586004879 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 122586004880 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 122586004881 Transcriptional regulators [Transcription]; Region: MarR; COG1846 122586004882 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 122586004883 catalytic residues [active] 122586004884 antiporter inner membrane protein; Provisional; Region: PRK11670 122586004885 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 122586004886 Walker A motif; other site 122586004887 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 122586004888 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 122586004889 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 122586004890 catalytic site [active] 122586004891 subunit interface [polypeptide binding]; other site 122586004892 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 122586004893 putative active site [active] 122586004894 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 122586004895 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 122586004896 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 122586004897 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 122586004898 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 122586004899 ATP-grasp domain; Region: ATP-grasp_4; cl17255 122586004900 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 122586004901 IMP binding site; other site 122586004902 dimer interface [polypeptide binding]; other site 122586004903 interdomain contacts; other site 122586004904 partial ornithine binding site; other site 122586004905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 122586004906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 122586004907 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 122586004908 putative effector binding pocket; other site 122586004909 dimerization interface [polypeptide binding]; other site 122586004910 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 122586004911 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 122586004912 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 122586004913 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 122586004914 carboxyltransferase (CT) interaction site; other site 122586004915 biotinylation site [posttranslational modification]; other site 122586004916 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 122586004917 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 122586004918 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 122586004919 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 122586004920 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 122586004921 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 122586004922 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 122586004923 S-adenosylmethionine binding site [chemical binding]; other site 122586004924 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 122586004925 catalytic site [active] 122586004926 putative active site [active] 122586004927 putative substrate binding site [chemical binding]; other site 122586004928 dimer interface [polypeptide binding]; other site 122586004929 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 122586004930 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 122586004931 inhibitor-cofactor binding pocket; inhibition site 122586004932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586004933 catalytic residue [active] 122586004934 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 122586004935 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 122586004936 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 122586004937 FeS/SAM binding site; other site 122586004938 TRAM domain; Region: TRAM; pfam01938 122586004939 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 122586004940 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 122586004941 TPP-binding site; other site 122586004942 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 122586004943 PYR/PP interface [polypeptide binding]; other site 122586004944 dimer interface [polypeptide binding]; other site 122586004945 TPP binding site [chemical binding]; other site 122586004946 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 122586004947 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 122586004948 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 122586004949 active site 122586004950 Int/Topo IB signature motif; other site 122586004951 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 122586004952 intersubunit interface [polypeptide binding]; other site 122586004953 active site 122586004954 zinc binding site [ion binding]; other site 122586004955 Na+ binding site [ion binding]; other site 122586004956 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 122586004957 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 122586004958 Glycoprotease family; Region: Peptidase_M22; pfam00814 122586004959 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 122586004960 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 122586004961 Coenzyme A binding pocket [chemical binding]; other site 122586004962 Uracil-DNA glycosylase [DNA replication, recombination, and repair]; Region: COG1573 122586004963 active site 122586004964 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 122586004965 active site 122586004966 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 122586004967 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 122586004968 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 122586004969 putative feedback inhibition sensing region; other site 122586004970 putative nucleotide binding site [chemical binding]; other site 122586004971 putative substrate binding site [chemical binding]; other site 122586004972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 122586004973 Coenzyme A binding pocket [chemical binding]; other site 122586004974 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 122586004975 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 122586004976 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 122586004977 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 122586004978 putative ligand binding residues [chemical binding]; other site 122586004979 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 122586004980 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 122586004981 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 122586004982 N-terminal plug; other site 122586004983 ligand-binding site [chemical binding]; other site 122586004984 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 122586004985 active site residue [active] 122586004986 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 122586004987 S-adenosylmethionine binding site [chemical binding]; other site 122586004988 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 122586004989 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 122586004990 substrate binding site [chemical binding]; other site 122586004991 dimer interface [polypeptide binding]; other site 122586004992 catalytic triad [active] 122586004993 protein translocase, SecG subunit; Region: secG; TIGR00810 122586004994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4737 122586004995 Predicted transcriptional regulator [Transcription]; Region: COG2944 122586004996 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 122586004997 non-specific DNA binding site [nucleotide binding]; other site 122586004998 salt bridge; other site 122586004999 sequence-specific DNA binding site [nucleotide binding]; other site 122586005000 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 122586005001 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 122586005002 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 122586005003 Dam-replacing family; Region: DRP; pfam06044 122586005004 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 122586005005 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 122586005006 HIGH motif; other site 122586005007 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 122586005008 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 122586005009 active site 122586005010 KMSKS motif; other site 122586005011 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 122586005012 tRNA binding surface [nucleotide binding]; other site 122586005013 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 122586005014 polyphosphate kinase; Provisional; Region: PRK05443 122586005015 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 122586005016 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 122586005017 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 122586005018 putative domain interface [polypeptide binding]; other site 122586005019 putative active site [active] 122586005020 catalytic site [active] 122586005021 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 122586005022 putative domain interface [polypeptide binding]; other site 122586005023 putative active site [active] 122586005024 catalytic site [active] 122586005025 DNA polymerase III subunit beta; Validated; Region: PRK05643 122586005026 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 122586005027 putative DNA binding surface [nucleotide binding]; other site 122586005028 dimer interface [polypeptide binding]; other site 122586005029 beta-clamp/clamp loader binding surface; other site 122586005030 beta-clamp/translesion DNA polymerase binding surface; other site 122586005031 DnaA N-terminal domain; Region: DnaA_N; pfam11638 122586005032 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 122586005033 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 122586005034 Walker A motif; other site 122586005035 ATP binding site [chemical binding]; other site 122586005036 Walker B motif; other site 122586005037 arginine finger; other site 122586005038 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 122586005039 DnaA box-binding interface [nucleotide binding]; other site 122586005040 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 122586005041 ribonuclease P; Reviewed; Region: rnpA; PRK04390 122586005042 hypothetical protein; Provisional; Region: PRK14373 122586005043 membrane protein insertase; Provisional; Region: PRK01318 122586005044 YidC periplasmic domain; Region: YidC_periplas; pfam14849 122586005045 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 122586005046 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 122586005047 putative SAM binding site [chemical binding]; other site 122586005048 homodimer interface [polypeptide binding]; other site 122586005049 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 122586005050 active site 122586005051 dimer interface [polypeptide binding]; other site 122586005052 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 122586005053 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 122586005054 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 122586005055 active site 122586005056 putative phosphate acyltransferase; Provisional; Region: PRK05331 122586005057 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 122586005058 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 122586005059 dimer interface [polypeptide binding]; other site 122586005060 active site 122586005061 CoA binding pocket [chemical binding]; other site 122586005062 Predicted membrane protein [Function unknown]; Region: COG3326 122586005063 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 122586005064 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 122586005065 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 122586005066 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 122586005067 Walker A/P-loop; other site 122586005068 ATP binding site [chemical binding]; other site 122586005069 Q-loop/lid; other site 122586005070 ABC transporter signature motif; other site 122586005071 Walker B; other site 122586005072 D-loop; other site 122586005073 H-loop/switch region; other site 122586005074 GMP synthase; Reviewed; Region: guaA; PRK00074 122586005075 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 122586005076 AMP/PPi binding site [chemical binding]; other site 122586005077 candidate oxyanion hole; other site 122586005078 catalytic triad [active] 122586005079 potential glutamine specificity residues [chemical binding]; other site 122586005080 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 122586005081 ATP Binding subdomain [chemical binding]; other site 122586005082 Ligand Binding sites [chemical binding]; other site 122586005083 Dimerization subdomain; other site 122586005084 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 122586005085 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 122586005086 NAD(P) binding site [chemical binding]; other site 122586005087 homotetramer interface [polypeptide binding]; other site 122586005088 homodimer interface [polypeptide binding]; other site 122586005089 active site 122586005090 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 122586005091 active site 122586005092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 122586005093 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 122586005094 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 122586005095 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 122586005096 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 122586005097 active site 122586005098 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 122586005099 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 122586005100 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 122586005101 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 122586005102 dimer interface [polypeptide binding]; other site 122586005103 motif 1; other site 122586005104 active site 122586005105 motif 2; other site 122586005106 motif 3; other site 122586005107 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 122586005108 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 122586005109 gamma subunit interface [polypeptide binding]; other site 122586005110 epsilon subunit interface [polypeptide binding]; other site 122586005111 LBP interface [polypeptide binding]; other site 122586005112 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 122586005113 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 122586005114 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 122586005115 alpha subunit interaction interface [polypeptide binding]; other site 122586005116 Walker A motif; other site 122586005117 ATP binding site [chemical binding]; other site 122586005118 Walker B motif; other site 122586005119 inhibitor binding site; inhibition site 122586005120 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 122586005121 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 122586005122 core domain interface [polypeptide binding]; other site 122586005123 delta subunit interface [polypeptide binding]; other site 122586005124 epsilon subunit interface [polypeptide binding]; other site 122586005125 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 122586005126 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 122586005127 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 122586005128 beta subunit interaction interface [polypeptide binding]; other site 122586005129 Walker A motif; other site 122586005130 ATP binding site [chemical binding]; other site 122586005131 Walker B motif; other site 122586005132 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 122586005133 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 122586005134 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 122586005135 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 122586005136 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 122586005137 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 122586005138 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 122586005139 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 122586005140 ParB-like nuclease domain; Region: ParBc; pfam02195 122586005141 KorB domain; Region: KorB; pfam08535 122586005142 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 122586005143 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 122586005144 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 122586005145 dimer interface [polypeptide binding]; other site 122586005146 conserved gate region; other site 122586005147 ABC-ATPase subunit interface; other site 122586005148 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 122586005149 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 122586005150 Walker A/P-loop; other site 122586005151 ATP binding site [chemical binding]; other site 122586005152 Q-loop/lid; other site 122586005153 ABC transporter signature motif; other site 122586005154 Walker B; other site 122586005155 D-loop; other site 122586005156 H-loop/switch region; other site 122586005157 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 122586005158 Soluble lytic murein transglycosylase L domain; Region: SLT_L; pfam14718 122586005159 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 122586005160 N-acetyl-D-glucosamine binding site [chemical binding]; other site 122586005161 catalytic residue [active] 122586005162 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 122586005163 Uncharacterized conserved protein [Function unknown]; Region: COG1610 122586005164 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 122586005165 stringent starvation protein A; Provisional; Region: sspA; PRK09481 122586005166 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 122586005167 C-terminal domain interface [polypeptide binding]; other site 122586005168 putative GSH binding site (G-site) [chemical binding]; other site 122586005169 dimer interface [polypeptide binding]; other site 122586005170 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 122586005171 dimer interface [polypeptide binding]; other site 122586005172 N-terminal domain interface [polypeptide binding]; other site 122586005173 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 122586005174 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 122586005175 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 122586005176 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 122586005177 catalytic residues [active] 122586005178 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 122586005179 active site 122586005180 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 122586005181 Predicted NTP binding protein (contains STAS domain) [General function prediction only]; Region: COG3113 122586005182 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 122586005183 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 122586005184 mce related protein; Region: MCE; pfam02470 122586005185 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 122586005186 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 122586005187 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 122586005188 Walker A/P-loop; other site 122586005189 ATP binding site [chemical binding]; other site 122586005190 Q-loop/lid; other site 122586005191 ABC transporter signature motif; other site 122586005192 Walker B; other site 122586005193 D-loop; other site 122586005194 H-loop/switch region; other site 122586005195 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 122586005196 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 122586005197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 122586005198 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 122586005199 NAD binding site [chemical binding]; other site 122586005200 catalytic residues [active] 122586005201 substrate binding site [chemical binding]; other site 122586005202 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 122586005203 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 122586005204 catalytic triad [active] 122586005205 putative active site [active] 122586005206 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 122586005207 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 122586005208 Autotransporter beta-domain; Region: Autotransporter; pfam03797 122586005209 aminodeoxychorismate synthase; Provisional; Region: PRK07508 122586005210 chorismate binding enzyme; Region: Chorismate_bind; cl10555 122586005211 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 122586005212 homodimer interface [polypeptide binding]; other site 122586005213 substrate-cofactor binding pocket; other site 122586005214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 122586005215 catalytic residue [active] 122586005216 Protein of unknown function (DUF560); Region: DUF560; pfam04575 122586005217 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 122586005218 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 122586005219 ring oligomerisation interface [polypeptide binding]; other site 122586005220 ATP/Mg binding site [chemical binding]; other site 122586005221 stacking interactions; other site 122586005222 hinge regions; other site 122586005223 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 122586005224 oligomerisation interface [polypeptide binding]; other site 122586005225 mobile loop; other site 122586005226 roof hairpin; other site 122586005227 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 122586005228 Na2 binding site [ion binding]; other site 122586005229 putative substrate binding site 1 [chemical binding]; other site 122586005230 Na binding site 1 [ion binding]; other site 122586005231 putative substrate binding site 2 [chemical binding]; other site 122586005232 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 122586005233 diaminopimelate decarboxylase; Region: lysA; TIGR01048 122586005234 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 122586005235 active site 122586005236 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 122586005237 substrate binding site [chemical binding]; other site 122586005238 catalytic residues [active] 122586005239 dimer interface [polypeptide binding]; other site 122586005240 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 122586005241 putative iron binding site [ion binding]; other site 122586005242 conserved hypothetical integral membrane protein; Region: TIGR00698 122586005243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 122586005244 S-ribosylhomocysteinase; Provisional; Region: PRK02260 122586005245 DNA polymerase I; Provisional; Region: PRK05755 122586005246 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 122586005247 active site 122586005248 metal binding site 1 [ion binding]; metal-binding site 122586005249 putative 5' ssDNA interaction site; other site 122586005250 metal binding site 3; metal-binding site 122586005251 metal binding site 2 [ion binding]; metal-binding site 122586005252 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 122586005253 putative DNA binding site [nucleotide binding]; other site 122586005254 putative metal binding site [ion binding]; other site 122586005255 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 122586005256 active site 122586005257 catalytic site [active] 122586005258 substrate binding site [chemical binding]; other site 122586005259 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 122586005260 active site 122586005261 DNA binding site [nucleotide binding] 122586005262 catalytic site [active] 122586005263 Fic/DOC family; Region: Fic; pfam02661 122586005264 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 122586005265 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 122586005266 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 122586005267 Autotransporter beta-domain; Region: Autotransporter; pfam03797 122586005268 Predicted membrane protein [Function unknown]; Region: COG5346 122586005269 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 122586005270 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 122586005271 trmE is a tRNA modification GTPase; Region: trmE; cd04164 122586005272 G1 box; other site 122586005273 GTP/Mg2+ binding site [chemical binding]; other site 122586005274 Switch I region; other site 122586005275 G2 box; other site 122586005276 Switch II region; other site 122586005277 G3 box; other site 122586005278 G4 box; other site 122586005279 G5 box; other site 122586005280 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 122586005281 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 122586005282 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 122586005283 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 122586005284 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 122586005285 putative ligand binding residues [chemical binding]; other site 122586005286 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 122586005287 ABC-ATPase subunit interface; other site 122586005288 dimer interface [polypeptide binding]; other site 122586005289 putative PBP binding regions; other site 122586005290 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 122586005291 ABC-ATPase subunit interface; other site 122586005292 dimer interface [polypeptide binding]; other site 122586005293 putative PBP binding regions; other site 122586005294 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 122586005295 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 122586005296 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 122586005297 Walker A/P-loop; other site 122586005298 ATP binding site [chemical binding]; other site 122586005299 Q-loop/lid; other site 122586005300 ABC transporter signature motif; other site 122586005301 Walker B; other site 122586005302 D-loop; other site 122586005303 H-loop/switch region; other site 122586005304 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 122586005305 Nitrogen regulatory protein P-II; Region: P-II; smart00938 122586005306 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 122586005307 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 122586005308 dimerization interface [polypeptide binding]; other site 122586005309 ATP binding site [chemical binding]; other site 122586005310 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 122586005311 dimerization interface [polypeptide binding]; other site 122586005312 ATP binding site [chemical binding]; other site 122586005313 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 122586005314 putative active site [active] 122586005315 catalytic triad [active] 122586005316 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 122586005317 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 122586005318 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 122586005319 Autotransporter beta-domain; Region: Autotransporter; pfam03797 122586005320 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 122586005321 MgtE intracellular N domain; Region: MgtE_N; smart00924 122586005322 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 122586005323 Divalent cation transporter; Region: MgtE; cl00786 122586005324 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 122586005325 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 122586005326 dimerization interface [polypeptide binding]; other site 122586005327 domain crossover interface; other site 122586005328 redox-dependent activation switch; other site 122586005329 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 122586005330 NlpC/P60 family; Region: NLPC_P60; pfam00877 122586005331 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 122586005332 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 122586005333 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 122586005334 heterotetramer interface [polypeptide binding]; other site 122586005335 active site pocket [active] 122586005336 cleavage site 122586005337 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 122586005338 putative ion selectivity filter; other site 122586005339 putative pore gating glutamate residue; other site 122586005340 putative H+/Cl- coupling transport residue; other site 122586005341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 122586005342 DEAD-like helicases superfamily; Region: DEXDc; smart00487 122586005343 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 122586005344 ATP binding site [chemical binding]; other site 122586005345 putative Mg++ binding site [ion binding]; other site 122586005346 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 122586005347 nucleotide binding region [chemical binding]; other site 122586005348 ATP-binding site [chemical binding]; other site 122586005349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 122586005350 ABC transporter signature motif; other site 122586005351 Walker B; other site 122586005352 D-loop; other site 122586005353 H-loop/switch region; other site 122586005354 Protein of unknown function (DUF4435); Region: DUF4435; pfam14491 122586005355 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 122586005356 Sulfatase; Region: Sulfatase; pfam00884 122586005357 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 122586005358 Helicase associated domain (HA2); Region: HA2; pfam04408 122586005359 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 122586005360 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 122586005361 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 122586005362 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 122586005363 non-specific DNA binding site [nucleotide binding]; other site 122586005364 salt bridge; other site 122586005365 sequence-specific DNA binding site [nucleotide binding]; other site 122586005366 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 122586005367 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 122586005368 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 122586005369 comEA protein; Region: comE; TIGR01259 122586005370 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 122586005371 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 122586005372 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 122586005373 active site 122586005374 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 122586005375 active site 122586005376 (T/H)XGH motif; other site 122586005377 YccA-like proteins; Region: YccA_like; cd10433 122586005378 oxidative damage protection protein; Provisional; Region: PRK05408 122586005379 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 122586005380 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 122586005381 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 122586005382 active site 122586005383 (T/H)XGH motif; other site 122586005384 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 122586005385 active site clefts [active] 122586005386 zinc binding site [ion binding]; other site 122586005387 dimer interface [polypeptide binding]; other site 122586005388 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 122586005389 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 122586005390 dimer interface [polypeptide binding]; other site 122586005391 conserved gate region; other site 122586005392 putative PBP binding loops; other site 122586005393 ABC-ATPase subunit interface; other site 122586005394 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 122586005395 ABC-ATPase subunit interface; other site 122586005396 putative PBP binding loops; other site 122586005397 fructuronate transporter; Provisional; Region: PRK10034; cl15264 122586005398 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 122586005399 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 122586005400 ATP-binding site [chemical binding]; other site 122586005401 Gluconate-6-phosphate binding site [chemical binding]; other site 122586005402 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 122586005403 Phosphotransferase enzyme family; Region: APH; pfam01636 122586005404 putative active site [active] 122586005405 putative substrate binding site [chemical binding]; other site 122586005406 ATP binding site [chemical binding]; other site 122586005407 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 122586005408 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 122586005409 S-adenosylmethionine binding site [chemical binding]; other site 122586005410 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 122586005411 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 122586005412 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 122586005413 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 122586005414 active site 122586005415 motif I; other site 122586005416 motif II; other site 122586005417 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 122586005418 putative acyl-acceptor binding pocket; other site 122586005419 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 122586005420 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 122586005421 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 122586005422 dimerization interface 3.5A [polypeptide binding]; other site 122586005423 active site 122586005424 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 122586005425 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 122586005426 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 122586005427 trimer interface [polypeptide binding]; other site 122586005428 eyelet of channel; other site 122586005429 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 122586005430 ThiC-associated domain; Region: ThiC-associated; pfam13667 122586005431 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 122586005432 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 122586005433 nudix motif; other site 122586005434 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 122586005435 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 122586005436 Walker A/P-loop; other site 122586005437 ATP binding site [chemical binding]; other site 122586005438 Q-loop/lid; other site 122586005439 ABC transporter signature motif; other site 122586005440 Walker B; other site 122586005441 D-loop; other site 122586005442 H-loop/switch region; other site 122586005443 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 122586005444 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 122586005445 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 122586005446 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 122586005447 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 122586005448 dimerization domain swap beta strand [polypeptide binding]; other site 122586005449 regulatory protein interface [polypeptide binding]; other site 122586005450 active site 122586005451 regulatory phosphorylation site [posttranslational modification]; other site 122586005452 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 122586005453 active pocket/dimerization site; other site 122586005454 active site 122586005455 phosphorylation site [posttranslational modification] 122586005456 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 122586005457 active site 122586005458 DNA ligase; Provisional; Region: PRK09125 122586005459 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 122586005460 DNA binding site [nucleotide binding] 122586005461 active site 122586005462 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 122586005463 DNA binding site [nucleotide binding] 122586005464 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 122586005465 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 122586005466 RmuC family; Region: RmuC; pfam02646 122586005467 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 122586005468 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 122586005469 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 122586005470 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 122586005471 Qi binding site; other site 122586005472 intrachain domain interface; other site 122586005473 interchain domain interface [polypeptide binding]; other site 122586005474 heme bH binding site [chemical binding]; other site 122586005475 heme bL binding site [chemical binding]; other site 122586005476 Qo binding site; other site 122586005477 interchain domain interface [polypeptide binding]; other site 122586005478 intrachain domain interface; other site 122586005479 Qi binding site; other site 122586005480 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 122586005481 Qo binding site; other site 122586005482 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 122586005483 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 122586005484 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 122586005485 [2Fe-2S] cluster binding site [ion binding]; other site 122586005486 Uncharacterized conserved protein [Function unknown]; Region: COG0327 122586005487 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 122586005488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 122586005489 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 122586005490 putative dimerization interface [polypeptide binding]; other site 122586005491 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 122586005492 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 122586005493 23S rRNA interface [nucleotide binding]; other site 122586005494 L3 interface [polypeptide binding]; other site 122586005495 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 122586005496 rod shape-determining protein MreC; Region: MreC; cl19252 122586005497 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 122586005498 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 122586005499 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 122586005500 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 122586005501 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 122586005502 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 122586005503 ATP binding site [chemical binding]; other site 122586005504 substrate interface [chemical binding]; other site 122586005505 hypothetical protein; Provisional; Region: PRK04325 122586005506 Predicted permease [General function prediction only]; Region: COG2056 122586005507 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 122586005508 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 122586005509 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional; Region: PRK14966 122586005510 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 122586005511 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 122586005512 S-adenosylmethionine binding site [chemical binding]; other site 122586005513 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 122586005514 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 122586005515 Na binding site [ion binding]; other site 122586005516 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 122586005517 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 122586005518 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 122586005519 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 122586005520 thiamine phosphate binding site [chemical binding]; other site 122586005521 active site 122586005522 pyrophosphate binding site [ion binding]; other site 122586005523 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 122586005524 thiS-thiF/thiG interaction site; other site 122586005525 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 122586005526 ThiS interaction site; other site 122586005527 putative active site [active] 122586005528 tetramer interface [polypeptide binding]; other site 122586005529 Sporulation related domain; Region: SPOR; pfam05036 122586005530 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 122586005531 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 122586005532 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 122586005533 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 122586005534 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 122586005535 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 122586005536 active site 122586005537 HIGH motif; other site 122586005538 nucleotide binding site [chemical binding]; other site 122586005539 RDD family; Region: RDD; pfam06271 122586005540 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 122586005541 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 122586005542 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 122586005543 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 122586005544 putative active site [active] 122586005545 putative catalytic site [active] 122586005546 putative DNA binding site [nucleotide binding]; other site 122586005547 putative phosphate binding site [ion binding]; other site 122586005548 metal binding site A [ion binding]; metal-binding site 122586005549 putative AP binding site [nucleotide binding]; other site 122586005550 putative metal binding site B [ion binding]; other site 122586005551 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 122586005552 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 122586005553 active site 122586005554 HIGH motif; other site 122586005555 KMSKS motif; other site 122586005556 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 122586005557 tRNA binding surface [nucleotide binding]; other site 122586005558 anticodon binding site; other site 122586005559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 122586005560 Walker A/P-loop; other site 122586005561 ATP binding site [chemical binding]; other site 122586005562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 122586005563 ABC transporter signature motif; other site 122586005564 Walker B; other site 122586005565 D-loop; other site 122586005566 H-loop/switch region; other site 122586005567 GTPase CgtA; Reviewed; Region: obgE; PRK12299 122586005568 GTP1/OBG; Region: GTP1_OBG; pfam01018 122586005569 Obg GTPase; Region: Obg; cd01898 122586005570 G1 box; other site 122586005571 GTP/Mg2+ binding site [chemical binding]; other site 122586005572 Switch I region; other site 122586005573 G2 box; other site 122586005574 G3 box; other site 122586005575 Switch II region; other site 122586005576 G4 box; other site 122586005577 G5 box; other site 122586005578 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 122586005579 putative SAM binding site [chemical binding]; other site 122586005580 putative homodimer interface [polypeptide binding]; other site 122586005581 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 122586005582 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 122586005583 dimer interface [polypeptide binding]; other site 122586005584 active site 122586005585 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 122586005586 BON domain; Region: BON; pfam04972 122586005587 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 122586005588 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 122586005589 active site 122586005590 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 122586005591 non-specific DNA binding site [nucleotide binding]; other site 122586005592 salt bridge; other site 122586005593 sequence-specific DNA binding site [nucleotide binding]; other site 122586005594 Predicted dehydrogenase [General function prediction only]; Region: COG0579 122586005595 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 122586005596 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 122586005597 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 122586005598 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 122586005599 rRNA interaction site [nucleotide binding]; other site 122586005600 S8 interaction site; other site 122586005601 putative laminin-1 binding site; other site 122586005602 elongation factor Ts; Provisional; Region: tsf; PRK09377 122586005603 UBA/TS-N domain; Region: UBA; pfam00627 122586005604 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 122586005605 putative nucleotide binding site [chemical binding]; other site 122586005606 uridine monophosphate binding site [chemical binding]; other site 122586005607 homohexameric interface [polypeptide binding]; other site 122586005608 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 122586005609 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 122586005610 Immunity protein 21; Region: Imm21; pfam15569 122586005611 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]; Region: MCM2; COG1241 122586005612 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 122586005613 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 122586005614 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 122586005615 tandem repeat interface [polypeptide binding]; other site 122586005616 oligomer interface [polypeptide binding]; other site 122586005617 active site residues [active] 122586005618 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 122586005619 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 122586005620 putative MPT binding site; other site 122586005621 argininosuccinate synthase; Validated; Region: PRK05370 122586005622 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 122586005623 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 122586005624 serine/threonine transporter SstT; Provisional; Region: PRK13628 122586005625 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 122586005626 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 122586005627 Surface antigen; Region: Bac_surface_Ag; pfam01103 122586005628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 122586005629 Family of unknown function (DUF490); Region: DUF490; pfam04357 122586005630 Family of unknown function (DUF490); Region: DUF490; pfam04357 122586005631 Family of unknown function (DUF490); Region: DUF490; pfam04357 122586005632 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 122586005633 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 122586005634 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 122586005635 putative substrate translocation pore; other site 122586005636 peptide chain release factor 2; Validated; Region: prfB; PRK00578 122586005637 This domain is found in peptide chain release factors; Region: PCRF; smart00937 122586005638 RF-1 domain; Region: RF-1; pfam00472 122586005639 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 122586005640 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 122586005641 active site 122586005642 nucleophile elbow; other site 122586005643 Predicted membrane protein [Function unknown]; Region: COG2259 122586005644 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 122586005645 Protein of unknown function (DUF692); Region: DUF692; pfam05114 122586005646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 122586005647 RNA polymerase sigma factor; Provisional; Region: PRK12532 122586005648 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 122586005649 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 122586005650 DNA binding residues [nucleotide binding] 122586005651 Putative zinc-finger; Region: zf-HC2; pfam13490 122586005652 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 122586005653 Helix-turn-helix domain; Region: HTH_38; pfam13936 122586005654 Homeodomain-like domain; Region: HTH_32; pfam13565 122586005655 Integrase core domain; Region: rve; pfam00665 122586005656 Integrase core domain; Region: rve_3; cl15866 122586005657 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 122586005658 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 122586005659 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 122586005660 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 122586005661 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 122586005662 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 122586005663 Uncharacterized conserved protein [Function unknown]; Region: COG1739 122586005664 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 122586005665 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 122586005666 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 122586005667 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 122586005668 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 122586005669 Ligand binding site [chemical binding]; other site 122586005670 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 122586005671 putative active site [active] 122586005672 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 122586005673 catalytic triad [active] 122586005674 metal binding site [ion binding]; metal-binding site 122586005675 conserved cis-peptide bond; other site 122586005676 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 122586005677 homodimer interaction site [polypeptide binding]; other site 122586005678 cofactor binding site; other site 122586005679 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 122586005680 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 122586005681 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 122586005682 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 122586005683 MutS domain I; Region: MutS_I; pfam01624 122586005684 MutS domain II; Region: MutS_II; pfam05188 122586005685 MutS domain III; Region: MutS_III; pfam05192 122586005686 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 122586005687 Walker A/P-loop; other site 122586005688 ATP binding site [chemical binding]; other site 122586005689 Q-loop/lid; other site 122586005690 ABC transporter signature motif; other site 122586005691 Walker B; other site 122586005692 D-loop; other site 122586005693 H-loop/switch region; other site