-- dump date 20140619_163321 -- class Genbank::misc_feature -- table misc_feature_note -- id note 630588000001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 630588000002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 630588000003 Coenzyme A binding pocket [chemical binding]; other site 630588000004 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 630588000005 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 630588000006 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 630588000007 active site 630588000008 HIGH motif; other site 630588000009 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 630588000010 active site 630588000011 KMSKS motif; other site 630588000012 Uncharacterized conserved protein [Function unknown]; Region: COG1434 630588000013 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 630588000014 putative active site [active] 630588000015 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 630588000016 ArsC family; Region: ArsC; pfam03960 630588000017 catalytic residues [active] 630588000018 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 630588000019 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 630588000020 catalytic residues [active] 630588000021 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 630588000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 630588000023 Walker A/P-loop; other site 630588000024 ATP binding site [chemical binding]; other site 630588000025 Q-loop/lid; other site 630588000026 ABC transporter signature motif; other site 630588000027 Walker B; other site 630588000028 D-loop; other site 630588000029 H-loop/switch region; other site 630588000030 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 630588000031 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 630588000032 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 630588000033 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 630588000034 Phosphoglycerate kinase; Region: PGK; pfam00162 630588000035 substrate binding site [chemical binding]; other site 630588000036 hinge regions; other site 630588000037 ADP binding site [chemical binding]; other site 630588000038 catalytic site [active] 630588000039 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588000040 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588000041 Homeodomain-like domain; Region: HTH_32; pfam13565 630588000042 Integrase core domain; Region: rve; pfam00665 630588000043 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 630588000044 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 630588000045 hinge; other site 630588000046 active site 630588000047 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 630588000048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 630588000049 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 630588000050 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 630588000051 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 630588000052 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 630588000053 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 630588000054 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 630588000055 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 630588000056 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 630588000057 Pilin (bacterial filament); Region: Pilin; pfam00114 630588000058 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 630588000059 Pilin (bacterial filament); Region: Pilin; pfam00114 630588000060 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 630588000061 Pilin (bacterial filament); Region: Pilin; pfam00114 630588000062 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 630588000063 Pilin (bacterial filament); Region: Pilin; pfam00114 630588000064 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 630588000065 Pilin (bacterial filament); Region: Pilin; pfam00114 630588000066 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 630588000067 Pilin (bacterial filament); Region: Pilin; pfam00114 630588000068 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 630588000069 Pilin (bacterial filament); Region: Pilin; pfam00114 630588000070 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 630588000071 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 630588000072 Pilin (bacterial filament); Region: Pilin; pfam00114 630588000073 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 630588000074 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 630588000075 Predicted membrane protein [Function unknown]; Region: COG3205 630588000076 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 630588000077 glycerate dehydrogenase; Provisional; Region: PRK06487 630588000078 putative ligand binding site [chemical binding]; other site 630588000079 putative NAD binding site [chemical binding]; other site 630588000080 catalytic site [active] 630588000081 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 630588000082 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 630588000083 active site 630588000084 HIGH motif; other site 630588000085 KMSKS motif; other site 630588000086 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 630588000087 tRNA binding surface [nucleotide binding]; other site 630588000088 anticodon binding site; other site 630588000089 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 630588000090 dimer interface [polypeptide binding]; other site 630588000091 putative tRNA-binding site [nucleotide binding]; other site 630588000092 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 630588000093 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 630588000094 glutaminase active site [active] 630588000095 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 630588000096 dimer interface [polypeptide binding]; other site 630588000097 active site 630588000098 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 630588000099 dimer interface [polypeptide binding]; other site 630588000100 active site 630588000101 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 630588000102 MltA specific insert domain; Region: MltA; pfam03562 630588000103 3D domain; Region: 3D; pfam06725 630588000104 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 630588000105 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 630588000106 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 630588000107 Imelysin; Region: Peptidase_M75; pfam09375 630588000108 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 630588000109 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 630588000110 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 630588000111 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 630588000112 PhnA protein; Region: PhnA; pfam03831 630588000113 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 630588000114 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 630588000115 Substrate binding site; other site 630588000116 Mg++ binding site; other site 630588000117 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 630588000118 active site 630588000119 substrate binding site [chemical binding]; other site 630588000120 CoA binding site [chemical binding]; other site 630588000121 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 630588000122 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 630588000123 motif II; other site 630588000124 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 630588000125 ABC transporter periplasmic binding protein, thiB subfamily; Region: sfuA; TIGR01254 630588000126 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 630588000127 Conserved TM helix; Region: TM_helix; pfam05552 630588000128 Mechanosensitive ion channel; Region: MS_channel; pfam00924 630588000129 Competence-damaged protein; Region: CinA; pfam02464 630588000130 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 630588000131 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 630588000132 catalytic residues [active] 630588000133 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 630588000134 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 630588000135 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 630588000136 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 630588000137 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 630588000138 P loop; other site 630588000139 GTP binding site [chemical binding]; other site 630588000140 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 630588000141 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 630588000142 TIGR01666 family membrane protein; Region: YCCS 630588000143 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 630588000144 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 630588000145 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 630588000146 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 630588000147 Walker A motif; other site 630588000148 ATP binding site [chemical binding]; other site 630588000149 Walker B motif; other site 630588000150 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 630588000151 SPOC domain; Region: SPOC; pfam07744 630588000152 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 630588000153 Walker A motif; other site 630588000154 ATP binding site [chemical binding]; other site 630588000155 Walker B motif; other site 630588000156 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 630588000157 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 630588000158 catalytic residue [active] 630588000159 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 630588000160 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 630588000161 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 630588000162 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 630588000163 Helix-hairpin-helix motif; Region: HHH; pfam00633 630588000164 chaperone protein DnaJ; Provisional; Region: PRK10767 630588000165 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 630588000166 HSP70 interaction site [polypeptide binding]; other site 630588000167 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 630588000168 substrate binding site [polypeptide binding]; other site 630588000169 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 630588000170 Zn binding sites [ion binding]; other site 630588000171 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 630588000172 dimer interface [polypeptide binding]; other site 630588000173 Predicted membrane protein [Function unknown]; Region: COG1297 630588000174 putative oligopeptide transporter, OPT family; Region: TIGR00733 630588000175 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 630588000176 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 630588000177 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 630588000178 substrate binding site; other site 630588000179 tetramer interface; other site 630588000180 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 630588000181 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 630588000182 NAD binding site [chemical binding]; other site 630588000183 substrate binding site [chemical binding]; other site 630588000184 homodimer interface [polypeptide binding]; other site 630588000185 active site 630588000186 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 630588000187 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 630588000188 NAD binding site [chemical binding]; other site 630588000189 homodimer interface [polypeptide binding]; other site 630588000190 active site 630588000191 substrate binding site [chemical binding]; other site 630588000192 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 630588000193 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 630588000194 NeuB family; Region: NeuB; pfam03102 630588000195 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 630588000196 NeuB binding interface [polypeptide binding]; other site 630588000197 putative substrate binding site [chemical binding]; other site 630588000198 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 630588000199 ligand binding site; other site 630588000200 tetramer interface; other site 630588000201 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 630588000202 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 630588000203 active site 630588000204 homodimer interface [polypeptide binding]; other site 630588000205 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 630588000206 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 630588000207 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 630588000208 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 630588000209 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 630588000210 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 630588000211 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 630588000212 Walker A/P-loop; other site 630588000213 ATP binding site [chemical binding]; other site 630588000214 Q-loop/lid; other site 630588000215 ABC transporter signature motif; other site 630588000216 Walker B; other site 630588000217 D-loop; other site 630588000218 H-loop/switch region; other site 630588000219 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 630588000220 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 630588000221 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 630588000222 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 630588000223 RNA binding site [nucleotide binding]; other site 630588000225 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 630588000226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 630588000227 active site 630588000228 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 630588000229 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 630588000230 NAD binding site [chemical binding]; other site 630588000231 substrate binding site [chemical binding]; other site 630588000232 homodimer interface [polypeptide binding]; other site 630588000233 active site 630588000234 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 630588000235 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 630588000236 substrate binding site; other site 630588000237 tetramer interface; other site 630588000238 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 630588000239 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 630588000240 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 630588000241 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 630588000242 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 630588000243 Sel1-like repeats; Region: SEL1; smart00671 630588000244 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 630588000245 Sel1-like repeats; Region: SEL1; smart00671 630588000246 Sel1-like repeats; Region: SEL1; smart00671 630588000247 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 630588000248 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 630588000249 cyanate hydratase; Validated; Region: PRK02866 630588000250 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 630588000251 pyruvate kinase; Provisional; Region: PRK05826 630588000252 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 630588000253 domain interfaces; other site 630588000254 active site 630588000255 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 630588000256 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 630588000257 HlyD family secretion protein; Region: HlyD_3; pfam13437 630588000258 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 630588000259 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 630588000260 putative active site [active] 630588000261 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 630588000262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 630588000263 Walker A/P-loop; other site 630588000264 ATP binding site [chemical binding]; other site 630588000265 Q-loop/lid; other site 630588000266 ABC transporter signature motif; other site 630588000267 Walker B; other site 630588000268 D-loop; other site 630588000269 H-loop/switch region; other site 630588000270 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 630588000271 putative active site [active] 630588000272 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 630588000273 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 630588000274 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 630588000275 Coenzyme A binding pocket [chemical binding]; other site 630588000276 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 630588000277 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 630588000278 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 630588000279 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 630588000280 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 630588000281 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 630588000282 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 630588000283 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 630588000284 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 630588000285 active site 630588000286 catalytic residues [active] 630588000287 metal binding site [ion binding]; metal-binding site 630588000288 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 630588000289 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 630588000290 putative active site [active] 630588000291 substrate binding site [chemical binding]; other site 630588000292 putative cosubstrate binding site; other site 630588000293 catalytic site [active] 630588000294 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 630588000295 substrate binding site [chemical binding]; other site 630588000296 16S rRNA methyltransferase B; Provisional; Region: PRK10901 630588000297 NusB family; Region: NusB; pfam01029 630588000298 putative RNA binding site [nucleotide binding]; other site 630588000299 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 630588000300 S-adenosylmethionine binding site [chemical binding]; other site 630588000301 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 630588000302 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 630588000303 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 630588000304 dimerization interface [polypeptide binding]; other site 630588000305 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 630588000306 dimer interface [polypeptide binding]; other site 630588000307 phosphorylation site [posttranslational modification] 630588000308 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 630588000309 ATP binding site [chemical binding]; other site 630588000310 Mg2+ binding site [ion binding]; other site 630588000311 G-X-G motif; other site 630588000312 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 630588000313 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 630588000314 active site 630588000315 phosphorylation site [posttranslational modification] 630588000316 intermolecular recognition site; other site 630588000317 dimerization interface [polypeptide binding]; other site 630588000318 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 630588000319 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 630588000320 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 630588000321 DNA protecting protein DprA; Region: dprA; TIGR00732 630588000322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Smg; COG2922 630588000323 DNA topoisomerase I; Validated; Region: PRK06599 630588000324 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 630588000325 active site 630588000326 interdomain interaction site; other site 630588000327 putative metal-binding site [ion binding]; other site 630588000328 nucleotide binding site [chemical binding]; other site 630588000329 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 630588000330 domain I; other site 630588000331 DNA binding groove [nucleotide binding] 630588000332 phosphate binding site [ion binding]; other site 630588000333 domain II; other site 630588000334 domain III; other site 630588000335 nucleotide binding site [chemical binding]; other site 630588000336 catalytic site [active] 630588000337 domain IV; other site 630588000338 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 630588000339 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 630588000340 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 630588000341 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 630588000342 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 630588000343 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 630588000344 non-specific DNA binding site [nucleotide binding]; other site 630588000345 salt bridge; other site 630588000346 sequence-specific DNA binding site [nucleotide binding]; other site 630588000347 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 630588000348 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 630588000349 S-adenosylmethionine binding site [chemical binding]; other site 630588000350 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 630588000351 elongation factor Tu; Reviewed; Region: PRK00049 630588000352 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 630588000353 G1 box; other site 630588000354 GEF interaction site [polypeptide binding]; other site 630588000355 GTP/Mg2+ binding site [chemical binding]; other site 630588000356 Switch I region; other site 630588000357 G2 box; other site 630588000358 G3 box; other site 630588000359 Switch II region; other site 630588000360 G4 box; other site 630588000361 G5 box; other site 630588000362 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 630588000363 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 630588000364 Antibiotic Binding Site [chemical binding]; other site 630588000365 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 630588000366 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 630588000367 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 630588000368 putative homodimer interface [polypeptide binding]; other site 630588000369 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 630588000370 heterodimer interface [polypeptide binding]; other site 630588000371 homodimer interface [polypeptide binding]; other site 630588000372 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 630588000373 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 630588000374 23S rRNA interface [nucleotide binding]; other site 630588000375 L7/L12 interface [polypeptide binding]; other site 630588000376 putative thiostrepton binding site; other site 630588000377 L25 interface [polypeptide binding]; other site 630588000378 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 630588000379 mRNA/rRNA interface [nucleotide binding]; other site 630588000380 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 630588000381 23S rRNA interface [nucleotide binding]; other site 630588000382 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 630588000383 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 630588000384 core dimer interface [polypeptide binding]; other site 630588000385 peripheral dimer interface [polypeptide binding]; other site 630588000386 L10 interface [polypeptide binding]; other site 630588000387 L11 interface [polypeptide binding]; other site 630588000388 putative EF-Tu interaction site [polypeptide binding]; other site 630588000389 putative EF-G interaction site [polypeptide binding]; other site 630588000390 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 630588000391 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 630588000392 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 630588000393 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 630588000394 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 630588000395 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 630588000396 RPB3 interaction site [polypeptide binding]; other site 630588000397 RPB1 interaction site [polypeptide binding]; other site 630588000398 RPB11 interaction site [polypeptide binding]; other site 630588000399 RPB10 interaction site [polypeptide binding]; other site 630588000400 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 630588000401 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 630588000402 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 630588000403 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 630588000404 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 630588000405 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 630588000406 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 630588000407 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 630588000408 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 630588000409 DNA binding site [nucleotide binding] 630588000410 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 630588000411 Protein of unknown function (DUF560); Region: DUF560; pfam04575 630588000412 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 630588000413 S17 interaction site [polypeptide binding]; other site 630588000414 S8 interaction site; other site 630588000415 16S rRNA interaction site [nucleotide binding]; other site 630588000416 streptomycin interaction site [chemical binding]; other site 630588000417 23S rRNA interaction site [nucleotide binding]; other site 630588000418 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 630588000419 30S ribosomal protein S7; Validated; Region: PRK05302 630588000420 elongation factor G; Reviewed; Region: PRK00007 630588000421 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 630588000422 G1 box; other site 630588000423 putative GEF interaction site [polypeptide binding]; other site 630588000424 GTP/Mg2+ binding site [chemical binding]; other site 630588000425 Switch I region; other site 630588000426 G2 box; other site 630588000427 G3 box; other site 630588000428 Switch II region; other site 630588000429 G4 box; other site 630588000430 G5 box; other site 630588000431 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 630588000432 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 630588000433 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 630588000434 elongation factor Tu; Reviewed; Region: PRK00049 630588000435 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 630588000436 G1 box; other site 630588000437 GEF interaction site [polypeptide binding]; other site 630588000438 GTP/Mg2+ binding site [chemical binding]; other site 630588000439 Switch I region; other site 630588000440 G2 box; other site 630588000441 G3 box; other site 630588000442 Switch II region; other site 630588000443 G4 box; other site 630588000444 G5 box; other site 630588000445 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 630588000446 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 630588000447 Antibiotic Binding Site [chemical binding]; other site 630588000448 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 630588000449 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 630588000450 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 630588000451 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 630588000452 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 630588000453 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 630588000454 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 630588000455 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 630588000456 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 630588000457 putative translocon binding site; other site 630588000458 protein-rRNA interface [nucleotide binding]; other site 630588000459 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 630588000460 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 630588000461 G-X-X-G motif; other site 630588000462 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 630588000463 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 630588000464 23S rRNA interface [nucleotide binding]; other site 630588000465 5S rRNA interface [nucleotide binding]; other site 630588000466 putative antibiotic binding site [chemical binding]; other site 630588000467 L25 interface [polypeptide binding]; other site 630588000468 L27 interface [polypeptide binding]; other site 630588000469 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 630588000470 23S rRNA interface [nucleotide binding]; other site 630588000471 putative translocon interaction site; other site 630588000472 signal recognition particle (SRP54) interaction site; other site 630588000473 L23 interface [polypeptide binding]; other site 630588000474 trigger factor interaction site; other site 630588000475 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 630588000476 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 630588000477 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 630588000478 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 630588000479 RNA binding site [nucleotide binding]; other site 630588000480 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 630588000481 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 630588000482 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 630588000483 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 630588000484 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 630588000485 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 630588000486 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 630588000487 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 630588000488 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 630588000489 5S rRNA interface [nucleotide binding]; other site 630588000490 23S rRNA interface [nucleotide binding]; other site 630588000491 L5 interface [polypeptide binding]; other site 630588000492 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 630588000493 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 630588000494 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 630588000495 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 630588000496 23S rRNA binding site [nucleotide binding]; other site 630588000497 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 630588000498 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 630588000499 SecY translocase; Region: SecY; pfam00344 630588000500 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 630588000501 rRNA binding site [nucleotide binding]; other site 630588000502 predicted 30S ribosome binding site; other site 630588000503 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 630588000504 30S ribosomal protein S13; Region: bact_S13; TIGR03631 630588000505 30S ribosomal protein S11; Validated; Region: PRK05309 630588000506 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 630588000507 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 630588000508 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 630588000509 RNA binding surface [nucleotide binding]; other site 630588000510 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 630588000511 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 630588000512 alphaNTD homodimer interface [polypeptide binding]; other site 630588000513 alphaNTD - beta interaction site [polypeptide binding]; other site 630588000514 alphaNTD - beta' interaction site [polypeptide binding]; other site 630588000515 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 630588000516 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 630588000517 septum formation inhibitor; Reviewed; Region: minC; PRK04516 630588000518 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 630588000519 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 630588000520 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 630588000521 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 630588000522 Switch I; other site 630588000523 Switch II; other site 630588000524 cell division topological specificity factor MinE; Provisional; Region: PRK13989 630588000525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 630588000526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 630588000527 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 630588000528 dimerization interface [polypeptide binding]; other site 630588000529 Transposase domain (DUF772); Region: DUF772; pfam05598 630588000530 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588000531 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 630588000532 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 630588000533 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 630588000534 HIGH motif; other site 630588000535 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 630588000536 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 630588000537 active site 630588000538 KMSKS motif; other site 630588000539 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 630588000540 tRNA binding surface [nucleotide binding]; other site 630588000541 anticodon binding site; other site 630588000542 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 630588000543 zinc transporter ZupT; Provisional; Region: PRK04201 630588000544 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 630588000545 hydroxyglutarate oxidase; Provisional; Region: PRK11728 630588000546 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 630588000547 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 630588000548 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 630588000549 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 630588000550 active site 630588000551 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 630588000552 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 630588000553 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 630588000554 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 630588000555 trimer interface [polypeptide binding]; other site 630588000556 active site 630588000557 UDP-GlcNAc binding site [chemical binding]; other site 630588000558 lipid binding site [chemical binding]; lipid-binding site 630588000559 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 630588000560 periplasmic chaperone; Provisional; Region: PRK10780 630588000561 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 630588000562 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 630588000563 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 630588000564 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 630588000565 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 630588000566 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 630588000567 Surface antigen; Region: Bac_surface_Ag; pfam01103 630588000568 zinc metallopeptidase RseP; Provisional; Region: PRK10779 630588000569 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 630588000570 active site 630588000571 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 630588000572 protein binding site [polypeptide binding]; other site 630588000573 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 630588000574 protein binding site [polypeptide binding]; other site 630588000575 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 630588000576 putative substrate binding region [chemical binding]; other site 630588000577 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 630588000578 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 630588000579 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 630588000580 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 630588000581 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 630588000582 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 630588000583 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 630588000584 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 630588000585 catalytic residue [active] 630588000586 putative FPP diphosphate binding site; other site 630588000587 putative FPP binding hydrophobic cleft; other site 630588000588 dimer interface [polypeptide binding]; other site 630588000589 putative IPP diphosphate binding site; other site 630588000590 ribosome recycling factor; Reviewed; Region: frr; PRK00083 630588000591 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 630588000592 hinge region; other site 630588000593 Predicted membrane protein [Function unknown]; Region: COG1289 630588000594 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 630588000595 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 630588000596 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 630588000597 S-adenosylmethionine binding site [chemical binding]; other site 630588000598 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 630588000599 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 630588000600 P-loop; other site 630588000601 Magnesium ion binding site [ion binding]; other site 630588000602 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 630588000603 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 630588000604 Magnesium ion binding site [ion binding]; other site 630588000605 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 630588000606 RNA/DNA hybrid binding site [nucleotide binding]; other site 630588000607 active site 630588000608 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 630588000609 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 630588000610 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 630588000611 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 630588000612 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 630588000613 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 630588000614 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 630588000615 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 630588000616 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 630588000617 homodimer interface [polypeptide binding]; other site 630588000618 oligonucleotide binding site [chemical binding]; other site 630588000619 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 630588000620 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 630588000621 RNA binding surface [nucleotide binding]; other site 630588000622 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 630588000623 active site 630588000624 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 630588000625 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 630588000626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 630588000627 dihydrodipicolinate reductase; Provisional; Region: PRK00048 630588000628 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 630588000629 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 630588000630 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 630588000631 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 630588000632 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 630588000633 metal binding site 2 [ion binding]; metal-binding site 630588000634 putative DNA binding helix; other site 630588000635 metal binding site 1 [ion binding]; metal-binding site 630588000636 dimer interface [polypeptide binding]; other site 630588000637 structural Zn2+ binding site [ion binding]; other site 630588000638 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 630588000639 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 630588000640 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 630588000641 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 630588000642 ferredoxin; Provisional; Region: PRK08764 630588000643 Putative Fe-S cluster; Region: FeS; cl17515 630588000644 4Fe-4S binding domain; Region: Fer4; pfam00037 630588000645 4Fe-4S binding domain; Region: Fer4; pfam00037 630588000646 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 630588000647 putative cation:proton antiport protein; Provisional; Region: PRK10669 630588000648 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 630588000649 TrkA-N domain; Region: TrkA_N; pfam02254 630588000650 TrkA-C domain; Region: TrkA_C; pfam02080 630588000652 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 630588000653 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 630588000654 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 630588000655 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 630588000656 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 630588000657 Mg2+ binding site [ion binding]; other site 630588000658 G-X-G motif; other site 630588000659 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 630588000660 anchoring element; other site 630588000661 dimer interface [polypeptide binding]; other site 630588000662 ATP binding site [chemical binding]; other site 630588000663 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 630588000664 active site 630588000665 putative metal-binding site [ion binding]; other site 630588000666 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 630588000667 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 630588000668 Mechanosensitive ion channel; Region: MS_channel; pfam00924 630588000669 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 630588000670 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 630588000671 active site 630588000672 Zn binding site [ion binding]; other site 630588000673 Predicted membrane protein [Function unknown]; Region: COG1971 630588000674 Domain of unknown function DUF; Region: DUF204; pfam02659 630588000675 Domain of unknown function DUF; Region: DUF204; pfam02659 630588000676 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 630588000677 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 630588000678 tetramer interface [polypeptide binding]; other site 630588000679 heme binding pocket [chemical binding]; other site 630588000680 NADPH binding site [chemical binding]; other site 630588000681 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 630588000682 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 630588000683 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 630588000684 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 630588000685 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 630588000686 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 630588000687 putative ADP-binding pocket [chemical binding]; other site 630588000688 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 630588000689 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 630588000690 dimer interface [polypeptide binding]; other site 630588000691 active site 630588000692 acyl carrier protein; Provisional; Region: acpP; PRK00982 630588000693 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 630588000694 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 630588000695 quinone interaction residues [chemical binding]; other site 630588000696 active site 630588000697 catalytic residues [active] 630588000698 FMN binding site [chemical binding]; other site 630588000699 substrate binding site [chemical binding]; other site 630588000700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 630588000701 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 630588000702 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 630588000703 metal binding triad; other site 630588000704 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 630588000705 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 630588000706 metal binding triad; other site 630588000707 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588000708 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588000709 Homeodomain-like domain; Region: HTH_32; pfam13565 630588000710 Integrase core domain; Region: rve; pfam00665 630588000711 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 630588000712 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 630588000713 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 630588000714 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 630588000715 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 630588000716 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 630588000717 DNA helicase II; Region: uvrD; TIGR01075 630588000718 Part of AAA domain; Region: AAA_19; pfam13245 630588000719 Family description; Region: UvrD_C_2; pfam13538 630588000720 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 630588000721 spermidine synthase; Provisional; Region: PRK03612 630588000722 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 630588000723 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 630588000724 S-adenosylmethionine binding site [chemical binding]; other site 630588000725 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 630588000726 NADH dehydrogenase subunit B; Validated; Region: PRK06411 630588000727 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 630588000728 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 630588000729 NADH dehydrogenase subunit D; Validated; Region: PRK06075 630588000730 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 630588000731 NADH dehydrogenase subunit E; Validated; Region: PRK07539 630588000732 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 630588000733 putative dimer interface [polypeptide binding]; other site 630588000734 [2Fe-2S] cluster binding site [ion binding]; other site 630588000735 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 630588000736 SLBB domain; Region: SLBB; pfam10531 630588000737 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 630588000738 NADH dehydrogenase subunit G; Validated; Region: PRK09129 630588000739 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 630588000740 catalytic loop [active] 630588000741 iron binding site [ion binding]; other site 630588000742 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 630588000743 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 630588000744 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 630588000745 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 630588000746 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 630588000747 4Fe-4S binding domain; Region: Fer4; cl02805 630588000748 4Fe-4S binding domain; Region: Fer4; pfam00037 630588000749 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 630588000750 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 630588000751 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 630588000752 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 630588000753 Fic/DOC family; Region: Fic; pfam02661 630588000754 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 630588000755 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 630588000756 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 630588000757 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 630588000758 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 630588000759 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 630588000760 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 630588000761 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 630588000762 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 630588000763 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 630588000764 substrate binding pocket [chemical binding]; other site 630588000765 chain length determination region; other site 630588000766 substrate-Mg2+ binding site; other site 630588000767 catalytic residues [active] 630588000768 aspartate-rich region 1; other site 630588000769 active site lid residues [active] 630588000770 aspartate-rich region 2; other site 630588000771 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 630588000772 GTPase RsgA; Reviewed; Region: PRK00098 630588000773 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 630588000774 RNA binding site [nucleotide binding]; other site 630588000775 homodimer interface [polypeptide binding]; other site 630588000776 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 630588000777 GTPase/Zn-binding domain interface [polypeptide binding]; other site 630588000778 GTP/Mg2+ binding site [chemical binding]; other site 630588000779 G4 box; other site 630588000780 G5 box; other site 630588000781 G1 box; other site 630588000782 Switch I region; other site 630588000783 G2 box; other site 630588000784 G3 box; other site 630588000785 Switch II region; other site 630588000786 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 630588000787 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 630588000788 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 630588000789 Walker A/P-loop; other site 630588000790 ATP binding site [chemical binding]; other site 630588000791 Q-loop/lid; other site 630588000792 ABC transporter signature motif; other site 630588000793 Walker B; other site 630588000794 D-loop; other site 630588000795 H-loop/switch region; other site 630588000796 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 630588000797 RuvA N terminal domain; Region: RuvA_N; pfam01330 630588000798 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 630588000799 Predicted membrane protein [Function unknown]; Region: COG3212 630588000800 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 630588000801 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 630588000802 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 630588000803 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 630588000804 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 630588000805 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 630588000806 TAP-like protein; Region: Abhydrolase_4; pfam08386 630588000807 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 630588000808 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 630588000809 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 630588000810 ATP binding site [chemical binding]; other site 630588000811 putative Mg++ binding site [ion binding]; other site 630588000812 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 630588000813 nucleotide binding region [chemical binding]; other site 630588000814 ATP-binding site [chemical binding]; other site 630588000815 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 630588000816 Helicase and RNase D C-terminal; Region: HRDC; smart00341 630588000817 Helicase and RNase D C-terminal; Region: HRDC; smart00341 630588000818 Helicase and RNase D C-terminal; Region: HRDC; smart00341 630588000819 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 630588000820 active site 630588000821 ribulose/triose binding site [chemical binding]; other site 630588000822 phosphate binding site [ion binding]; other site 630588000823 substrate (anthranilate) binding pocket [chemical binding]; other site 630588000824 product (indole) binding pocket [chemical binding]; other site 630588000825 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 630588000826 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 630588000827 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 630588000828 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 630588000829 catalytic residues [active] 630588000830 hinge region; other site 630588000831 alpha helical domain; other site 630588000832 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 630588000833 Phosphotransferase enzyme family; Region: APH; pfam01636 630588000834 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 630588000835 Organic solvent tolerance protein; Region: OstA_C; pfam04453 630588000837 Exoribonuclease R [Transcription]; Region: VacB; COG0557 630588000838 RNB domain; Region: RNB; pfam00773 630588000839 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 630588000840 adenylosuccinate lyase; Provisional; Region: PRK09285 630588000841 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 630588000842 tetramer interface [polypeptide binding]; other site 630588000843 active site 630588000844 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 630588000845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 630588000846 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 630588000847 putative metal binding site [ion binding]; other site 630588000848 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 630588000849 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 630588000850 DEAD_2; Region: DEAD_2; pfam06733 630588000851 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 630588000852 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 630588000853 DNA photolyase; Region: DNA_photolyase; pfam00875 630588000854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 630588000855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 630588000856 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 630588000857 putative effector binding pocket; other site 630588000858 dimerization interface [polypeptide binding]; other site 630588000859 Predicted membrane protein [Function unknown]; Region: COG2259 630588000860 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 630588000861 dimer interface [polypeptide binding]; other site 630588000862 FMN binding site [chemical binding]; other site 630588000864 Uncharacterized conserved protein [Function unknown]; Region: COG1432 630588000865 LabA_like proteins; Region: LabA_like; cd06167 630588000866 putative metal binding site [ion binding]; other site 630588000867 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 630588000868 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 630588000869 catalytic residues [active] 630588000870 hinge region; other site 630588000871 alpha helical domain; other site 630588000873 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 630588000874 comEA protein; Region: comE; TIGR01259 630588000875 Helix-hairpin-helix motif; Region: HHH; pfam00633 630588000876 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 630588000878 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 630588000879 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 630588000880 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 630588000881 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 630588000882 folate binding site [chemical binding]; other site 630588000883 NADP+ binding site [chemical binding]; other site 630588000884 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 630588000885 putative active site [active] 630588000886 putative metal binding residues [ion binding]; other site 630588000887 signature motif; other site 630588000888 putative dimer interface [polypeptide binding]; other site 630588000889 putative phosphate binding site [ion binding]; other site 630588000890 Predicted membrane protein [Function unknown]; Region: COG1981 630588000892 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 630588000893 binding surface 630588000894 Tetratricopeptide repeat; Region: TPR_16; pfam13432 630588000895 TPR motif; other site 630588000896 Protein of unknown function (DUF560); Region: DUF560; pfam04575 630588000897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 630588000898 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 630588000899 Peptidase family M23; Region: Peptidase_M23; pfam01551 630588000900 hypothetical protein; Provisional; Region: PRK11212 630588000901 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 630588000902 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 630588000903 HlyD family secretion protein; Region: HlyD_3; pfam13437 630588000904 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 630588000905 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 630588000906 putative substrate translocation pore; other site 630588000907 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 630588000908 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 630588000909 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 630588000910 hypothetical protein; Provisional; Region: PRK09126 630588000911 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 630588000912 aspartate-rich region 2; other site 630588000913 substrate-Mg2+ binding site; other site 630588000914 Predicted membrane protein [Function unknown]; Region: COG2707 630588000915 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 630588000916 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 630588000917 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 630588000918 Walker A motif; other site 630588000919 ATP binding site [chemical binding]; other site 630588000920 Walker B motif; other site 630588000921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 630588000922 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 630588000923 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 630588000924 CoA-binding site [chemical binding]; other site 630588000925 ATP-binding [chemical binding]; other site 630588000926 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 630588000927 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 630588000928 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 630588000929 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 630588000930 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 630588000931 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 630588000932 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 630588000933 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 630588000934 active site 630588000935 dimer interface [polypeptide binding]; other site 630588000936 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 630588000937 dimer interface [polypeptide binding]; other site 630588000938 active site 630588000939 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 630588000940 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 630588000941 trimer interface [polypeptide binding]; other site 630588000942 active site 630588000943 substrate binding site [chemical binding]; other site 630588000944 CoA binding site [chemical binding]; other site 630588000945 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 630588000946 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 630588000947 NAD binding site [chemical binding]; other site 630588000948 homotetramer interface [polypeptide binding]; other site 630588000949 homodimer interface [polypeptide binding]; other site 630588000950 substrate binding site [chemical binding]; other site 630588000951 active site 630588000952 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 630588000953 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 630588000954 homodimer interface [polypeptide binding]; other site 630588000955 substrate-cofactor binding pocket; other site 630588000956 catalytic residue [active] 630588000957 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 630588000958 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 630588000959 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 630588000960 TPR motif; other site 630588000961 binding surface 630588000962 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 630588000963 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 630588000964 dimer interface [polypeptide binding]; other site 630588000965 active site 630588000966 metal binding site [ion binding]; metal-binding site 630588000967 glutathione binding site [chemical binding]; other site 630588000968 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 630588000969 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 630588000970 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 630588000971 intracellular septation protein A; Reviewed; Region: PRK00259 630588000972 YciI-like protein; Reviewed; Region: PRK11370 630588000973 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 630588000974 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 630588000975 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 630588000976 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 630588000977 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 630588000978 putative active site [active] 630588000979 dimerization interface [polypeptide binding]; other site 630588000980 putative tRNAtyr binding site [nucleotide binding]; other site 630588000981 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 630588000982 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 630588000983 FMN binding site [chemical binding]; other site 630588000984 active site 630588000985 catalytic residues [active] 630588000986 substrate binding site [chemical binding]; other site 630588000987 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 630588000988 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 630588000989 active site 630588000990 HIGH motif; other site 630588000991 nucleotide binding site [chemical binding]; other site 630588000992 active site 630588000993 KMSKS motif; other site 630588000994 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 630588000995 putative active site [active] 630588000996 transaldolase; Provisional; Region: PRK03903 630588000997 catalytic residue [active] 630588000998 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 630588000999 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 630588001000 putative active site [active] 630588001001 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 630588001002 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 630588001003 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 630588001004 active site 630588001005 motif I; other site 630588001006 motif II; other site 630588001007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 630588001008 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 630588001009 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 630588001010 OstA-like protein; Region: OstA; pfam03968 630588001011 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 630588001012 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 630588001013 Walker A/P-loop; other site 630588001014 ATP binding site [chemical binding]; other site 630588001015 Q-loop/lid; other site 630588001016 ABC transporter signature motif; other site 630588001017 Walker B; other site 630588001018 D-loop; other site 630588001019 H-loop/switch region; other site 630588001020 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 630588001021 Transglycosylase; Region: Transgly; cl17702 630588001022 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 630588001023 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 630588001024 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 630588001025 shikimate binding site; other site 630588001026 NAD(P) binding site [chemical binding]; other site 630588001027 glutamine synthetase; Provisional; Region: glnA; PRK09469 630588001028 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 630588001029 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 630588001030 muropeptide transporter; Reviewed; Region: ampG; PRK11902 630588001031 AmpG-like permease; Region: 2A0125; TIGR00901 630588001032 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 630588001033 GIY-YIG motif/motif A; other site 630588001034 putative active site [active] 630588001035 putative metal binding site [ion binding]; other site 630588001036 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 630588001037 Pretoxin HINT domain; Region: PT-HINT; pfam07591 630588001038 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 630588001039 thioester formation/cholesterol transfer; other site 630588001040 protein-splicing catalytic site; other site 630588001041 Pretoxin HINT domain; Region: PT-HINT; pfam07591 630588001042 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 630588001043 thioester formation/cholesterol transfer; other site 630588001044 protein-splicing catalytic site; other site 630588001045 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 630588001046 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 630588001047 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 630588001048 protein-splicing catalytic site; other site 630588001049 thioester formation/cholesterol transfer; other site 630588001050 Pretoxin HINT domain; Region: PT-HINT; pfam07591 630588001051 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 630588001052 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 630588001053 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 630588001054 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 630588001055 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 630588001056 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 630588001057 FeS/SAM binding site; other site 630588001058 HemN C-terminal domain; Region: HemN_C; pfam06969 630588001059 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 630588001060 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 630588001061 ligand binding site [chemical binding]; other site 630588001062 flexible hinge region; other site 630588001063 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 630588001064 putative switch regulator; other site 630588001065 non-specific DNA interactions [nucleotide binding]; other site 630588001066 DNA binding site [nucleotide binding] 630588001067 sequence specific DNA binding site [nucleotide binding]; other site 630588001068 putative cAMP binding site [chemical binding]; other site 630588001069 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 630588001070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 630588001071 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 630588001072 substrate binding site [chemical binding]; other site 630588001073 dimerization interface [polypeptide binding]; other site 630588001074 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 630588001075 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 630588001076 ligand binding site [chemical binding]; other site 630588001077 thiamine-monophosphate kinase; Region: thiL; TIGR01379 630588001078 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 630588001079 ATP binding site [chemical binding]; other site 630588001080 dimerization interface [polypeptide binding]; other site 630588001081 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 630588001082 tetramer interfaces [polypeptide binding]; other site 630588001083 binuclear metal-binding site [ion binding]; other site 630588001084 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 630588001085 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 630588001086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 630588001087 ABC transporter; Region: ABC_tran_2; pfam12848 630588001088 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 630588001089 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 630588001090 putative substrate translocation pore; other site 630588001091 Major Facilitator Superfamily; Region: MFS_1; pfam07690 630588001092 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 630588001093 active site 630588001094 catalytic residues [active] 630588001095 maltose phosphorylase; Provisional; Region: PRK13807 630588001096 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 630588001097 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 630588001098 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 630588001099 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 630588001100 motif II; other site 630588001101 L-aspartate oxidase; Provisional; Region: PRK06175 630588001102 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 630588001103 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 630588001104 quinolinate synthetase; Provisional; Region: PRK09375 630588001105 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 630588001106 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 630588001107 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 630588001108 dimerization interface [polypeptide binding]; other site 630588001109 active site 630588001110 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 630588001111 dimerization interface [polypeptide binding]; other site 630588001112 putative DNA binding site [nucleotide binding]; other site 630588001113 putative Zn2+ binding site [ion binding]; other site 630588001114 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 630588001115 putative catalytic site [active] 630588001116 putative phosphate binding site [ion binding]; other site 630588001117 active site 630588001118 metal binding site A [ion binding]; metal-binding site 630588001119 DNA binding site [nucleotide binding] 630588001120 putative AP binding site [nucleotide binding]; other site 630588001121 putative metal binding site B [ion binding]; other site 630588001122 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 630588001123 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 630588001124 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 630588001125 Glutamate binding site [chemical binding]; other site 630588001126 NAD binding site [chemical binding]; other site 630588001127 catalytic residues [active] 630588001128 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 630588001129 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 630588001130 Na binding site [ion binding]; other site 630588001131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 630588001132 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 630588001133 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 630588001134 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 630588001135 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 630588001136 cell division protein FtsN; Region: ftsN; TIGR02223 630588001137 Sporulation related domain; Region: SPOR; pfam05036 630588001138 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 630588001139 catalytic residues [active] 630588001140 hinge region; other site 630588001141 alpha helical domain; other site 630588001142 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 630588001143 Uncharacterized conserved protein [Function unknown]; Region: COG1565 630588001144 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 630588001145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 630588001146 MraZ protein; Region: MraZ; pfam02381 630588001147 MraZ protein; Region: MraZ; pfam02381 630588001148 MraW methylase family; Region: Methyltransf_5; cl17771 630588001149 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 630588001150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 630588001151 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 630588001152 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 630588001153 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 630588001154 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 630588001155 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 630588001156 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 630588001157 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 630588001158 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 630588001159 Sulfatase; Region: Sulfatase; pfam00884 630588001160 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 630588001161 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 630588001162 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 630588001163 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 630588001164 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 630588001165 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 630588001166 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 630588001167 Mg++ binding site [ion binding]; other site 630588001168 putative catalytic motif [active] 630588001169 putative substrate binding site [chemical binding]; other site 630588001170 Sel1-like repeats; Region: SEL1; smart00671 630588001171 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 630588001172 Sel1-like repeats; Region: SEL1; smart00671 630588001173 Sel1-like repeats; Region: SEL1; smart00671 630588001174 Sel1-like repeats; Region: SEL1; smart00671 630588001175 Sel1-like repeats; Region: SEL1; smart00671 630588001176 Sel1-like repeats; Region: SEL1; smart00671 630588001177 Sel1-like repeats; Region: SEL1; smart00671 630588001178 Sel1-like repeats; Region: SEL1; smart00671 630588001179 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 630588001180 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 630588001181 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 630588001182 cell division protein FtsW; Region: ftsW; TIGR02614 630588001183 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 630588001184 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 630588001185 active site 630588001186 homodimer interface [polypeptide binding]; other site 630588001187 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 630588001188 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 630588001189 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 630588001190 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 630588001191 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 630588001192 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 630588001193 ATP-grasp domain; Region: ATP-grasp_4; cl17255 630588001194 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 630588001195 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 630588001196 Cell division protein FtsQ; Region: FtsQ; pfam03799 630588001197 cell division protein FtsA; Region: ftsA; TIGR01174 630588001198 Cell division protein FtsA; Region: FtsA; smart00842 630588001199 Cell division protein FtsA; Region: FtsA; pfam14450 630588001200 cell division protein FtsZ; Validated; Region: PRK09330 630588001201 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 630588001202 nucleotide binding site [chemical binding]; other site 630588001203 SulA interaction site; other site 630588001204 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 630588001205 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 630588001206 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 630588001207 tetramer interface [polypeptide binding]; other site 630588001208 active site 630588001209 Mg2+/Mn2+ binding site [ion binding]; other site 630588001210 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 630588001211 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 630588001212 dimer interface [polypeptide binding]; other site 630588001213 active site 630588001214 citrylCoA binding site [chemical binding]; other site 630588001215 oxalacetate/citrate binding site [chemical binding]; other site 630588001216 coenzyme A binding site [chemical binding]; other site 630588001217 catalytic triad [active] 630588001218 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 630588001219 Protein of unknown function (DUF819); Region: DUF819; cl02317 630588001220 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 630588001221 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 630588001222 substrate binding site [chemical binding]; other site 630588001223 ligand binding site [chemical binding]; other site 630588001224 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 630588001225 substrate binding site [chemical binding]; other site 630588001226 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 630588001227 propionate/acetate kinase; Provisional; Region: PRK12379 630588001228 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 630588001229 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 630588001230 Transcriptional regulator; Region: Rrf2; cl17282 630588001231 Rrf2 family protein; Region: rrf2_super; TIGR00738 630588001232 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 630588001233 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 630588001234 prephenate dehydrogenase; Validated; Region: PRK08507 630588001235 Predicted amidohydrolase [General function prediction only]; Region: COG0388 630588001236 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 630588001237 putative active site [active] 630588001238 catalytic triad [active] 630588001239 dimer interface [polypeptide binding]; other site 630588001241 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588001242 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588001243 Homeodomain-like domain; Region: HTH_32; pfam13565 630588001244 Integrase core domain; Region: rve; pfam00665 630588001245 EamA-like transporter family; Region: EamA; pfam00892 630588001246 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 630588001247 EamA-like transporter family; Region: EamA; pfam00892 630588001248 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 630588001249 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 630588001250 putative substrate translocation pore; other site 630588001251 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 630588001252 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 630588001253 Prephenate dehydratase; Region: PDT; pfam00800 630588001254 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 630588001255 putative L-Phe binding site [chemical binding]; other site 630588001256 Recombination protein O N terminal; Region: RecO_N; pfam11967 630588001257 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 630588001258 Recombination protein O C terminal; Region: RecO_C; pfam02565 630588001259 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 630588001260 active site 630588001261 hydrophilic channel; other site 630588001262 dimerization interface [polypeptide binding]; other site 630588001263 catalytic residues [active] 630588001264 active site lid [active] 630588001266 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 630588001267 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 630588001268 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 630588001269 active site 630588001270 8-oxo-dGMP binding site [chemical binding]; other site 630588001271 nudix motif; other site 630588001272 metal binding site [ion binding]; metal-binding site 630588001273 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 630588001274 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 630588001275 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 630588001276 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 630588001277 AMIN domain; Region: AMIN; pfam11741 630588001278 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 630588001279 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 630588001280 active site 630588001281 metal binding site [ion binding]; metal-binding site 630588001282 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 630588001283 glutamate racemase; Provisional; Region: PRK00865 630588001284 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 630588001285 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 630588001286 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 630588001287 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 630588001288 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 630588001289 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 630588001290 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 630588001291 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 630588001292 dimerization interface [polypeptide binding]; other site 630588001293 substrate binding site [chemical binding]; other site 630588001294 active site 630588001295 calcium binding site [ion binding]; other site 630588001296 Uncharacterized conserved protein [Function unknown]; Region: COG2928 630588001297 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 630588001298 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 630588001299 dimer interface [polypeptide binding]; other site 630588001300 anticodon binding site; other site 630588001301 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 630588001302 homodimer interface [polypeptide binding]; other site 630588001303 motif 1; other site 630588001304 active site 630588001305 motif 2; other site 630588001306 GAD domain; Region: GAD; pfam02938 630588001307 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 630588001308 motif 3; other site 630588001309 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 630588001310 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 630588001311 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 630588001312 dimer interface [polypeptide binding]; other site 630588001313 active site 630588001314 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 630588001315 catalytic residues [active] 630588001316 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 630588001317 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 630588001318 agmatinase; Region: agmatinase; TIGR01230 630588001319 oligomer interface [polypeptide binding]; other site 630588001320 putative active site [active] 630588001321 Mn binding site [ion binding]; other site 630588001322 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 630588001323 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 630588001324 transmembrane helices; other site 630588001325 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 630588001326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 630588001327 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 630588001328 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 630588001329 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 630588001330 substrate-cofactor binding pocket; other site 630588001331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588001332 catalytic residue [active] 630588001333 Protein of unknown function (DUF452); Region: DUF452; pfam04301 630588001334 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 630588001335 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 630588001336 S-adenosylmethionine binding site [chemical binding]; other site 630588001337 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 630588001338 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 630588001339 active site 630588001340 phosphorylation site [posttranslational modification] 630588001341 intermolecular recognition site; other site 630588001342 dimerization interface [polypeptide binding]; other site 630588001343 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 630588001344 G1 box; other site 630588001345 GTP/Mg2+ binding site [chemical binding]; other site 630588001346 G2 box; other site 630588001347 Switch I region; other site 630588001348 G3 box; other site 630588001349 Switch II region; other site 630588001350 G4 box; other site 630588001351 G5 box; other site 630588001352 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 630588001353 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 630588001354 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 630588001355 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 630588001356 Replication initiation factor; Region: Rep_trans; pfam02486 630588001357 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588001358 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588001359 Homeodomain-like domain; Region: HTH_32; pfam13565 630588001360 Integrase core domain; Region: rve; pfam00665 630588001361 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 630588001362 haemagglutination activity domain; Region: Haemagg_act; pfam05860 630588001363 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588001364 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 630588001365 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 630588001366 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 630588001367 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 630588001368 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 630588001369 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 630588001370 Initiator Replication protein; Region: Rep_3; pfam01051 630588001371 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 630588001372 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 630588001373 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 630588001374 haemagglutination activity domain; Region: Haemagg_act; pfam05860 630588001375 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 630588001376 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 630588001377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 630588001378 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588001379 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 630588001380 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588001381 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 630588001382 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588001383 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 630588001384 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 630588001385 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 630588001386 ABC transporter signature motif; other site 630588001387 Walker B; other site 630588001388 D-loop; other site 630588001389 H-loop/switch region; other site 630588001390 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 630588001391 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 630588001393 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 630588001394 Ligand Binding Site [chemical binding]; other site 630588001395 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 630588001396 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 630588001397 active site 630588001398 Predicted membrane protein [Function unknown]; Region: COG3759 630588001399 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 630588001400 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 630588001401 FeS/SAM binding site; other site 630588001402 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 630588001403 beta-hexosaminidase; Provisional; Region: PRK05337 630588001404 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 630588001405 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 630588001406 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 630588001407 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 630588001408 protein binding site [polypeptide binding]; other site 630588001409 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 630588001410 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 630588001411 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 630588001412 minor groove reading motif; other site 630588001413 helix-hairpin-helix signature motif; other site 630588001414 substrate binding pocket [chemical binding]; other site 630588001415 active site 630588001416 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 630588001417 Predicted membrane protein [Function unknown]; Region: COG1238 630588001418 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 630588001419 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 630588001420 putative substrate translocation pore; other site 630588001421 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 630588001422 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 630588001423 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 630588001424 Transporter associated domain; Region: CorC_HlyC; smart01091 630588001425 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 630588001426 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 630588001427 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 630588001428 domain interfaces; other site 630588001429 active site 630588001430 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 630588001431 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 630588001432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588001433 homodimer interface [polypeptide binding]; other site 630588001434 catalytic residue [active] 630588001435 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 630588001436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 630588001437 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 630588001438 L-lactate permease; Region: Lactate_perm; cl00701 630588001439 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 630588001440 putative active site [active] 630588001441 putative metal binding site [ion binding]; other site 630588001442 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 630588001443 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 630588001444 Walker A/P-loop; other site 630588001445 ATP binding site [chemical binding]; other site 630588001446 Q-loop/lid; other site 630588001447 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 630588001448 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 630588001449 ABC transporter signature motif; other site 630588001450 Walker B; other site 630588001451 D-loop; other site 630588001452 H-loop/switch region; other site 630588001453 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 630588001454 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 630588001455 NAD binding site [chemical binding]; other site 630588001456 substrate binding site [chemical binding]; other site 630588001457 catalytic Zn binding site [ion binding]; other site 630588001458 tetramer interface [polypeptide binding]; other site 630588001459 structural Zn binding site [ion binding]; other site 630588001460 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 630588001461 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 630588001462 macrolide transporter subunit MacA; Provisional; Region: PRK11578 630588001463 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 630588001464 HlyD family secretion protein; Region: HlyD_3; pfam13437 630588001465 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 630588001466 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 630588001467 Walker A/P-loop; other site 630588001468 ATP binding site [chemical binding]; other site 630588001469 Q-loop/lid; other site 630588001470 ABC transporter signature motif; other site 630588001471 Walker B; other site 630588001472 D-loop; other site 630588001473 H-loop/switch region; other site 630588001474 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 630588001475 FtsX-like permease family; Region: FtsX; pfam02687 630588001476 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 630588001477 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 630588001478 dimerization domain [polypeptide binding]; other site 630588001479 dimer interface [polypeptide binding]; other site 630588001480 catalytic residues [active] 630588001481 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 630588001482 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 630588001483 ATP binding site [chemical binding]; other site 630588001484 putative Mg++ binding site [ion binding]; other site 630588001485 helicase superfamily c-terminal domain; Region: HELICc; smart00490 630588001486 ATP-binding site [chemical binding]; other site 630588001488 Transposase domain (DUF772); Region: DUF772; pfam05598 630588001489 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588001490 DDE superfamily endonuclease; Region: DDE_4; cl17710 630588001491 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 630588001492 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 630588001493 nucleotide binding site [chemical binding]; other site 630588001494 NEF interaction site [polypeptide binding]; other site 630588001495 SBD interface [polypeptide binding]; other site 630588001496 Predicted transcriptional regulator [Transcription]; Region: COG2932 630588001497 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 630588001498 Catalytic site [active] 630588001499 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 630588001501 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 630588001502 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 630588001503 serine acetyltransferase; Provisional; Region: cysE; PRK11132 630588001504 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 630588001505 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 630588001506 trimer interface [polypeptide binding]; other site 630588001507 active site 630588001508 substrate binding site [chemical binding]; other site 630588001509 CoA binding site [chemical binding]; other site 630588001510 GrpE; Region: GrpE; pfam01025 630588001511 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 630588001512 dimer interface [polypeptide binding]; other site 630588001513 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 630588001514 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 630588001515 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 630588001516 ApbE family; Region: ApbE; pfam02424 630588001517 Transposase domain (DUF772); Region: DUF772; pfam05598 630588001518 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588001519 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 630588001520 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588001521 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588001522 Homeodomain-like domain; Region: HTH_32; pfam13565 630588001523 Integrase core domain; Region: rve; pfam00665 630588001524 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 630588001525 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 630588001526 catalytic loop [active] 630588001527 iron binding site [ion binding]; other site 630588001528 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 630588001529 FAD binding pocket [chemical binding]; other site 630588001530 FAD binding motif [chemical binding]; other site 630588001531 phosphate binding motif [ion binding]; other site 630588001532 beta-alpha-beta structure motif; other site 630588001533 NAD binding pocket [chemical binding]; other site 630588001534 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 630588001535 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 630588001536 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 630588001537 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 630588001538 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 630588001539 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 630588001540 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 630588001541 E3 interaction surface; other site 630588001542 lipoyl attachment site [posttranslational modification]; other site 630588001543 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 630588001544 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 630588001545 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 630588001546 transmembrane helices; other site 630588001547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 630588001548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 630588001549 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 630588001550 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 630588001551 putative DNA binding site [nucleotide binding]; other site 630588001552 putative Zn2+ binding site [ion binding]; other site 630588001553 AsnC family; Region: AsnC_trans_reg; pfam01037 630588001554 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 630588001555 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 630588001556 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 630588001557 lipoyl attachment site [posttranslational modification]; other site 630588001558 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 630588001559 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 630588001560 tRNA; other site 630588001561 putative tRNA binding site [nucleotide binding]; other site 630588001562 putative NADP binding site [chemical binding]; other site 630588001563 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 630588001564 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 630588001565 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 630588001566 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 630588001567 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 630588001568 Walker A/P-loop; other site 630588001569 ATP binding site [chemical binding]; other site 630588001570 Q-loop/lid; other site 630588001571 ABC transporter signature motif; other site 630588001572 Walker B; other site 630588001573 D-loop; other site 630588001574 H-loop/switch region; other site 630588001575 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 630588001576 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 630588001577 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 630588001578 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 630588001579 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 630588001580 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 630588001581 putative active site [active] 630588001582 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588001583 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588001584 Homeodomain-like domain; Region: HTH_32; pfam13565 630588001585 Integrase core domain; Region: rve; pfam00665 630588001586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 630588001587 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 630588001588 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 630588001589 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 630588001590 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 630588001591 metal binding site [ion binding]; metal-binding site 630588001592 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 630588001593 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 630588001594 ABC-ATPase subunit interface; other site 630588001595 dimer interface [polypeptide binding]; other site 630588001596 putative PBP binding regions; other site 630588001597 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 630588001598 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 630588001599 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 630588001600 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 630588001601 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 630588001602 RimM N-terminal domain; Region: RimM; pfam01782 630588001603 PRC-barrel domain; Region: PRC; pfam05239 630588001604 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 630588001605 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 630588001606 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 630588001607 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 630588001608 Coenzyme A binding pocket [chemical binding]; other site 630588001609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 630588001610 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 630588001611 dimerization interface [polypeptide binding]; other site 630588001612 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 630588001613 dimer interface [polypeptide binding]; other site 630588001614 phosphorylation site [posttranslational modification] 630588001615 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 630588001616 ATP binding site [chemical binding]; other site 630588001617 Mg2+ binding site [ion binding]; other site 630588001618 G-X-G motif; other site 630588001619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 630588001620 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 630588001621 active site 630588001622 phosphorylation site [posttranslational modification] 630588001623 intermolecular recognition site; other site 630588001624 dimerization interface [polypeptide binding]; other site 630588001625 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 630588001626 DNA binding site [nucleotide binding] 630588001627 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 630588001628 O-Antigen ligase; Region: Wzy_C; pfam04932 630588001629 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 630588001630 Predicted membrane protein [Function unknown]; Region: COG3308 630588001631 Maf-like protein; Region: Maf; pfam02545 630588001632 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 630588001633 active site 630588001634 dimer interface [polypeptide binding]; other site 630588001635 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 630588001636 sec-independent translocase; Provisional; Region: PRK00708 630588001637 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 630588001638 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 630588001639 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 630588001640 nucleotide binding site/active site [active] 630588001641 HIT family signature motif; other site 630588001642 catalytic residue [active] 630588001643 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 630588001644 metal binding site [ion binding]; metal-binding site 630588001645 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 630588001646 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 630588001647 putative NAD(P) binding site [chemical binding]; other site 630588001648 catalytic Zn binding site [ion binding]; other site 630588001649 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 630588001650 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 630588001651 putative active site [active] 630588001652 Zn binding site [ion binding]; other site 630588001653 Preprotein translocase subunit; Region: YajC; pfam02699 630588001654 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 630588001655 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 630588001656 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 630588001657 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 630588001658 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 630588001659 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 630588001660 Protein export membrane protein; Region: SecD_SecF; pfam02355 630588001661 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 630588001662 16S/18S rRNA binding site [nucleotide binding]; other site 630588001663 S13e-L30e interaction site [polypeptide binding]; other site 630588001664 25S rRNA binding site [nucleotide binding]; other site 630588001665 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 630588001666 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 630588001667 Walker A/P-loop; other site 630588001668 ATP binding site [chemical binding]; other site 630588001669 Q-loop/lid; other site 630588001670 ABC transporter signature motif; other site 630588001671 Walker B; other site 630588001672 D-loop; other site 630588001673 H-loop/switch region; other site 630588001674 TOBE domain; Region: TOBE_2; pfam08402 630588001675 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 630588001676 dimer interface [polypeptide binding]; other site 630588001677 conserved gate region; other site 630588001678 putative PBP binding loops; other site 630588001679 ABC-ATPase subunit interface; other site 630588001680 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 630588001681 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 630588001682 dimer interface [polypeptide binding]; other site 630588001683 conserved gate region; other site 630588001684 putative PBP binding loops; other site 630588001685 ABC-ATPase subunit interface; other site 630588001686 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 630588001687 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 630588001688 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 630588001689 transcription termination factor Rho; Provisional; Region: rho; PRK09376 630588001690 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 630588001691 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 630588001692 RNA binding site [nucleotide binding]; other site 630588001693 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 630588001694 multimer interface [polypeptide binding]; other site 630588001695 Walker A motif; other site 630588001696 ATP binding site [chemical binding]; other site 630588001697 Walker B motif; other site 630588001698 phosphoenolpyruvate synthase; Validated; Region: PRK06464 630588001699 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 630588001700 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 630588001701 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 630588001702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 630588001703 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 630588001704 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 630588001705 motif II; other site 630588001706 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 630588001707 dinuclear metal binding motif [ion binding]; other site 630588001708 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 630588001709 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 630588001710 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 630588001711 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 630588001712 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 630588001713 active site 630588001714 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 630588001715 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 630588001716 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 630588001717 trimer interface [polypeptide binding]; other site 630588001718 putative metal binding site [ion binding]; other site 630588001719 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 630588001720 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 630588001721 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 630588001722 G1 box; other site 630588001723 putative GEF interaction site [polypeptide binding]; other site 630588001724 GTP/Mg2+ binding site [chemical binding]; other site 630588001725 Switch I region; other site 630588001726 G2 box; other site 630588001727 G3 box; other site 630588001728 Switch II region; other site 630588001729 G4 box; other site 630588001730 G5 box; other site 630588001731 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 630588001732 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 630588001733 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 630588001734 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 630588001735 substrate binding site [chemical binding]; other site 630588001736 glutamase interaction surface [polypeptide binding]; other site 630588001737 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 630588001738 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 630588001739 catalytic residues [active] 630588001740 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 630588001741 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 630588001742 putative active site [active] 630588001743 oxyanion strand; other site 630588001744 catalytic triad [active] 630588001745 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 630588001746 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 630588001747 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 630588001748 Walker A/P-loop; other site 630588001749 ATP binding site [chemical binding]; other site 630588001750 Q-loop/lid; other site 630588001751 ABC transporter signature motif; other site 630588001752 Walker B; other site 630588001753 D-loop; other site 630588001754 H-loop/switch region; other site 630588001755 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 630588001756 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 630588001757 dimer interface [polypeptide binding]; other site 630588001758 conserved gate region; other site 630588001759 putative PBP binding loops; other site 630588001760 ABC-ATPase subunit interface; other site 630588001761 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 630588001762 dimer interface [polypeptide binding]; other site 630588001763 conserved gate region; other site 630588001764 ABC-ATPase subunit interface; other site 630588001765 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 630588001766 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 630588001767 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588001768 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588001769 Homeodomain-like domain; Region: HTH_32; pfam13565 630588001770 Integrase core domain; Region: rve; pfam00665 630588001771 argininosuccinate lyase; Provisional; Region: PRK00855 630588001772 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 630588001773 active sites [active] 630588001774 tetramer interface [polypeptide binding]; other site 630588001775 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 630588001776 active site 630588001777 tetramer interface; other site 630588001778 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 630588001779 active site 630588001780 dimerization interface [polypeptide binding]; other site 630588001781 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 630588001782 dimer interface [polypeptide binding]; other site 630588001783 substrate binding site [chemical binding]; other site 630588001784 metal binding sites [ion binding]; metal-binding site 630588001785 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 630588001786 nudix motif; other site 630588001787 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 630588001788 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 630588001789 active site 630588001790 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 630588001791 RNAase interaction site [polypeptide binding]; other site 630588001792 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 630588001793 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 630588001794 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 630588001795 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 630588001796 Pretoxin HINT domain; Region: PT-HINT; pfam07591 630588001797 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 630588001798 thioester formation/cholesterol transfer; other site 630588001799 protein-splicing catalytic site; other site 630588001801 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 630588001802 homotrimer interaction site [polypeptide binding]; other site 630588001803 putative active site [active] 630588001804 Opacity family porin protein; Region: Opacity; pfam02462 630588001805 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 630588001806 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 630588001807 FeS/SAM binding site; other site 630588001808 HemN C-terminal domain; Region: HemN_C; pfam06969 630588001809 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 630588001810 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 630588001811 nucleotide binding pocket [chemical binding]; other site 630588001812 K-X-D-G motif; other site 630588001813 catalytic site [active] 630588001814 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 630588001815 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 630588001816 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 630588001817 Dimer interface [polypeptide binding]; other site 630588001818 BRCT sequence motif; other site 630588001819 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 630588001820 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 630588001821 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 630588001822 amidase catalytic site [active] 630588001823 Zn binding residues [ion binding]; other site 630588001824 substrate binding site [chemical binding]; other site 630588001825 YceG-like family; Region: YceG; pfam02618 630588001826 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 630588001827 dimerization interface [polypeptide binding]; other site 630588001828 thymidylate kinase; Validated; Region: tmk; PRK00698 630588001829 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 630588001830 TMP-binding site; other site 630588001831 ATP-binding site [chemical binding]; other site 630588001832 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 630588001833 Malic enzyme, N-terminal domain; Region: malic; pfam00390 630588001834 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 630588001835 putative NAD(P) binding site [chemical binding]; other site 630588001836 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 630588001837 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 630588001838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 630588001839 Uncharacterized conserved protein [Function unknown]; Region: COG2835 630588001840 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 630588001841 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 630588001842 Ligand binding site; other site 630588001843 oligomer interface; other site 630588001844 conjugal transfer ATP-binding protein TraC; Provisional; Region: PRK13721 630588001845 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 630588001846 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 630588001847 substrate binding site [chemical binding]; other site 630588001848 active site 630588001849 catalytic residues [active] 630588001850 heterodimer interface [polypeptide binding]; other site 630588001851 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 630588001852 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 630588001853 CNP1-like family; Region: CNP1; pfam08750 630588001854 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 630588001855 CPxP motif; other site 630588001856 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 630588001857 active site 630588001858 substrate binding pocket [chemical binding]; other site 630588001859 dimer interface [polypeptide binding]; other site 630588001860 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 630588001861 putative RNA binding site [nucleotide binding]; other site 630588001862 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 630588001863 homopentamer interface [polypeptide binding]; other site 630588001864 active site 630588001865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 630588001866 ribonuclease III; Reviewed; Region: rnc; PRK00102 630588001867 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 630588001868 dimerization interface [polypeptide binding]; other site 630588001869 active site 630588001870 metal binding site [ion binding]; metal-binding site 630588001871 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 630588001872 dsRNA binding site [nucleotide binding]; other site 630588001873 GTPase Era; Reviewed; Region: era; PRK00089 630588001874 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 630588001875 G1 box; other site 630588001876 GTP/Mg2+ binding site [chemical binding]; other site 630588001877 Switch I region; other site 630588001878 G2 box; other site 630588001879 Switch II region; other site 630588001880 G3 box; other site 630588001881 G4 box; other site 630588001882 G5 box; other site 630588001883 KH domain; Region: KH_2; pfam07650 630588001884 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 630588001885 active site 630588001886 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 630588001887 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 630588001888 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 630588001889 amidophosphoribosyltransferase; Provisional; Region: PRK09246 630588001890 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 630588001891 active site 630588001892 tetramer interface [polypeptide binding]; other site 630588001893 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 630588001894 active site 630588001895 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 630588001896 Colicin V production protein; Region: Colicin_V; pfam02674 630588001897 cell division protein FtsN; Region: ftsN; TIGR02223 630588001898 Sporulation related domain; Region: SPOR; pfam05036 630588001899 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 630588001900 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 630588001901 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 630588001902 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 630588001903 Walker A/P-loop; other site 630588001904 ATP binding site [chemical binding]; other site 630588001905 Q-loop/lid; other site 630588001906 ABC transporter signature motif; other site 630588001907 Walker B; other site 630588001908 D-loop; other site 630588001909 H-loop/switch region; other site 630588001910 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 630588001911 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 630588001912 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 630588001913 putative active site [active] 630588001914 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 630588001915 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 630588001916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588001917 catalytic residue [active] 630588001918 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 630588001919 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 630588001920 Autotransporter beta-domain; Region: Autotransporter; pfam03797 630588001921 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 630588001922 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 630588001923 Competence protein; Region: Competence; pfam03772 630588001924 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 630588001925 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 630588001926 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 630588001927 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 630588001928 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 630588001929 RNA binding surface [nucleotide binding]; other site 630588001930 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 630588001931 active site 630588001932 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 630588001933 Sodium Bile acid symporter family; Region: SBF; pfam01758 630588001934 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 630588001935 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 630588001936 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 630588001937 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 630588001938 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 630588001939 Predicted membrane protein/domain [Function unknown]; Region: COG1714 630588001940 hypothetical protein; Provisional; Region: PRK11820 630588001941 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 630588001942 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 630588001943 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 630588001944 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 630588001945 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 630588001946 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 630588001947 DNA binding residues [nucleotide binding] 630588001948 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 630588001949 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 630588001950 putative active site [active] 630588001951 catalytic triad [active] 630588001952 putative dimer interface [polypeptide binding]; other site 630588001953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 630588001954 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588001955 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588001956 Homeodomain-like domain; Region: HTH_32; pfam13565 630588001957 Integrase core domain; Region: rve; pfam00665 630588001958 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 630588001959 Cytochrome c; Region: Cytochrom_C; pfam00034 630588001960 ferrochelatase; Reviewed; Region: hemH; PRK00035 630588001961 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 630588001962 C-terminal domain interface [polypeptide binding]; other site 630588001963 active site 630588001964 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 630588001965 active site 630588001966 N-terminal domain interface [polypeptide binding]; other site 630588001967 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 630588001968 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 630588001969 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 630588001970 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 630588001971 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 630588001972 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 630588001973 active site 630588001974 dimer interface [polypeptide binding]; other site 630588001975 motif 1; other site 630588001976 motif 2; other site 630588001977 motif 3; other site 630588001978 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 630588001979 anticodon binding site; other site 630588001980 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 630588001981 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 630588001982 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 630588001983 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 630588001984 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 630588001985 23S rRNA binding site [nucleotide binding]; other site 630588001986 L21 binding site [polypeptide binding]; other site 630588001987 L13 binding site [polypeptide binding]; other site 630588001988 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 630588001989 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 630588001990 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 630588001991 dimer interface [polypeptide binding]; other site 630588001992 motif 1; other site 630588001993 active site 630588001994 motif 2; other site 630588001995 motif 3; other site 630588001996 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 630588001997 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 630588001998 cofactor binding site; other site 630588001999 DNA binding site [nucleotide binding] 630588002000 substrate interaction site [chemical binding]; other site 630588002001 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 630588002002 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 630588002003 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 630588002004 DNA methylase; Region: N6_N4_Mtase; cl17433 630588002005 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 630588002006 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 630588002007 putative tRNA-binding site [nucleotide binding]; other site 630588002008 B3/4 domain; Region: B3_4; pfam03483 630588002009 tRNA synthetase B5 domain; Region: B5; smart00874 630588002010 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 630588002011 dimer interface [polypeptide binding]; other site 630588002012 motif 1; other site 630588002013 motif 3; other site 630588002014 motif 2; other site 630588002015 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 630588002016 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 630588002017 IHF - DNA interface [nucleotide binding]; other site 630588002018 IHF dimer interface [polypeptide binding]; other site 630588002019 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 630588002020 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 630588002021 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 630588002022 inhibitor-cofactor binding pocket; inhibition site 630588002023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588002024 catalytic residue [active] 630588002025 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 630588002026 AAA domain; Region: AAA_26; pfam13500 630588002027 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 630588002028 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 630588002029 UbiA prenyltransferase family; Region: UbiA; pfam01040 630588002030 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 630588002031 active site 630588002032 phosphorylation site [posttranslational modification] 630588002033 HPr kinase/phosphorylase; Provisional; Region: PRK05428 630588002034 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 630588002035 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 630588002036 Hpr binding site; other site 630588002037 active site 630588002038 homohexamer subunit interaction site [polypeptide binding]; other site 630588002039 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 630588002040 AAA domain; Region: AAA_33; pfam13671 630588002042 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 630588002043 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 630588002044 Walker A/P-loop; other site 630588002045 ATP binding site [chemical binding]; other site 630588002046 Q-loop/lid; other site 630588002047 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 630588002048 ABC transporter signature motif; other site 630588002049 Walker B; other site 630588002050 D-loop; other site 630588002051 H-loop/switch region; other site 630588002052 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 630588002053 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 630588002054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 630588002055 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 630588002056 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 630588002057 S-adenosylmethionine binding site [chemical binding]; other site 630588002058 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 630588002059 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 630588002060 catalytic center binding site [active] 630588002061 ATP binding site [chemical binding]; other site 630588002062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 630588002063 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 630588002064 S-adenosylmethionine binding site [chemical binding]; other site 630588002065 bacterial Hfq-like; Region: Hfq; cd01716 630588002066 hexamer interface [polypeptide binding]; other site 630588002067 Sm1 motif; other site 630588002068 RNA binding site [nucleotide binding]; other site 630588002069 Sm2 motif; other site 630588002070 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 630588002071 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 630588002072 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 630588002073 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 630588002074 catalytic triad [active] 630588002075 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 630588002076 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 630588002077 active site 630588002078 Int/Topo IB signature motif; other site 630588002079 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 630588002080 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 630588002081 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 630588002082 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 630588002083 NADP binding site [chemical binding]; other site 630588002084 active site 630588002085 putative substrate binding site [chemical binding]; other site 630588002086 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 630588002087 ATP binding site [chemical binding]; other site 630588002088 active site 630588002089 substrate binding site [chemical binding]; other site 630588002090 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 630588002091 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 630588002092 RNase E interface [polypeptide binding]; other site 630588002093 trimer interface [polypeptide binding]; other site 630588002094 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 630588002095 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 630588002096 RNase E interface [polypeptide binding]; other site 630588002097 trimer interface [polypeptide binding]; other site 630588002098 active site 630588002099 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 630588002100 putative nucleic acid binding region [nucleotide binding]; other site 630588002101 G-X-X-G motif; other site 630588002102 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 630588002103 RNA binding site [nucleotide binding]; other site 630588002104 domain interface; other site 630588002105 Uncharacterized conserved protein [Function unknown]; Region: COG2836 630588002106 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 630588002107 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 630588002108 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 630588002109 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 630588002110 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 630588002111 dimer interface [polypeptide binding]; other site 630588002112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588002113 catalytic residue [active] 630588002114 EamA-like transporter family; Region: EamA; pfam00892 630588002115 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 630588002116 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 630588002117 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 630588002118 Catalytic site [active] 630588002119 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 630588002120 GTP-binding protein LepA; Provisional; Region: PRK05433 630588002121 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 630588002122 G1 box; other site 630588002123 putative GEF interaction site [polypeptide binding]; other site 630588002124 GTP/Mg2+ binding site [chemical binding]; other site 630588002125 Switch I region; other site 630588002126 G2 box; other site 630588002127 G3 box; other site 630588002128 Switch II region; other site 630588002129 G4 box; other site 630588002130 G5 box; other site 630588002131 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 630588002132 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 630588002133 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 630588002134 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 630588002135 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 630588002136 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 630588002137 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 630588002138 Walker A motif; other site 630588002139 ATP binding site [chemical binding]; other site 630588002140 Walker B motif; other site 630588002141 DNA polymerase III subunit delta'; Validated; Region: PRK08699 630588002142 DNA polymerase III subunit delta'; Validated; Region: PRK08485 630588002143 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 630588002144 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 630588002145 active site 630588002146 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 630588002147 putative GSH binding site [chemical binding]; other site 630588002148 catalytic residues [active] 630588002149 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 630588002150 active site 630588002151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 630588002152 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 630588002153 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 630588002154 active site 630588002155 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 630588002156 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 630588002157 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 630588002158 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 630588002159 substrate binding site [chemical binding]; other site 630588002160 active site 630588002161 DNA repair protein RadA; Provisional; Region: PRK11823 630588002162 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 630588002163 Walker A motif/ATP binding site; other site 630588002164 ATP binding site [chemical binding]; other site 630588002165 Walker B motif; other site 630588002166 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 630588002167 Uncharacterized conserved protein [Function unknown]; Region: COG3439 630588002168 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 630588002169 active site residue [active] 630588002170 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 630588002171 Part of AAA domain; Region: AAA_19; pfam13245 630588002172 Family description; Region: UvrD_C_2; pfam13538 630588002173 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 630588002174 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 630588002175 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 630588002176 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 630588002177 substrate binding pocket [chemical binding]; other site 630588002178 membrane-bound complex binding site; other site 630588002179 hinge residues; other site 630588002180 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 630588002181 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 630588002182 dimer interface [polypeptide binding]; other site 630588002183 conserved gate region; other site 630588002184 putative PBP binding loops; other site 630588002185 ABC-ATPase subunit interface; other site 630588002186 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 630588002187 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 630588002188 Walker A/P-loop; other site 630588002189 ATP binding site [chemical binding]; other site 630588002190 Q-loop/lid; other site 630588002191 ABC transporter signature motif; other site 630588002192 Walker B; other site 630588002193 D-loop; other site 630588002194 H-loop/switch region; other site 630588002195 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 630588002196 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 630588002197 active site 630588002198 substrate binding site [chemical binding]; other site 630588002199 metal binding site [ion binding]; metal-binding site 630588002200 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 630588002201 active site 630588002202 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 630588002203 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 630588002204 VanZ like family; Region: VanZ; cl01971 630588002205 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 630588002206 putative active site [active] 630588002207 catalytic residue [active] 630588002208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 630588002209 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 630588002210 putative coenzyme Q binding site [chemical binding]; other site 630588002211 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 630588002212 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 630588002213 Walker A motif; other site 630588002214 ATP binding site [chemical binding]; other site 630588002215 Walker B motif; other site 630588002216 arginine finger; other site 630588002217 Peptidase family M41; Region: Peptidase_M41; pfam01434 630588002218 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 630588002219 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 630588002220 S-adenosylmethionine binding site [chemical binding]; other site 630588002221 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 630588002222 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 630588002223 dimer interface [polypeptide binding]; other site 630588002224 active site 630588002225 aspartate-rich active site metal binding site; other site 630588002226 allosteric magnesium binding site [ion binding]; other site 630588002227 Schiff base residues; other site 630588002228 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 630588002229 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 630588002230 homodimer interface [polypeptide binding]; other site 630588002231 substrate-cofactor binding pocket; other site 630588002232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588002233 catalytic residue [active] 630588002234 putative GTP cyclohydrolase; Provisional; Region: PRK13674 630588002235 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 630588002236 dimer interface [polypeptide binding]; other site 630588002237 FMN binding site [chemical binding]; other site 630588002238 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 630588002239 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 630588002240 RNA binding surface [nucleotide binding]; other site 630588002241 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 630588002242 active site 630588002243 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 630588002244 ATP-NAD kinase; Region: NAD_kinase; pfam01513 630588002245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 630588002246 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 630588002247 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 630588002248 putative NAD(P) binding site [chemical binding]; other site 630588002249 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 630588002250 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 630588002251 Bacterial transcriptional repressor; Region: TetR; pfam13972 630588002252 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 630588002253 FAD binding domain; Region: FAD_binding_4; pfam01565 630588002254 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 630588002255 multidrug efflux protein; Reviewed; Region: PRK01766 630588002256 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 630588002257 cation binding site [ion binding]; other site 630588002258 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 630588002259 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 630588002260 dimer interface [polypeptide binding]; other site 630588002261 motif 1; other site 630588002262 active site 630588002263 motif 2; other site 630588002264 motif 3; other site 630588002265 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 630588002266 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 630588002267 GDP-binding site [chemical binding]; other site 630588002268 ACT binding site; other site 630588002269 IMP binding site; other site 630588002270 heat shock protein HtpX; Provisional; Region: PRK05457 630588002271 adenylate kinase; Reviewed; Region: adk; PRK00279 630588002272 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 630588002273 AMP-binding site [chemical binding]; other site 630588002274 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 630588002275 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 630588002276 active site 630588002277 dimer interface [polypeptide binding]; other site 630588002278 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 630588002279 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 630588002280 putative ribose interaction site [chemical binding]; other site 630588002281 putative ADP binding site [chemical binding]; other site 630588002282 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 630588002283 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 630588002284 cofactor binding site; other site 630588002285 DNA binding site [nucleotide binding] 630588002286 substrate interaction site [chemical binding]; other site 630588002287 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 630588002289 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 630588002290 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 630588002291 NADP binding site [chemical binding]; other site 630588002292 homopentamer interface [polypeptide binding]; other site 630588002293 substrate binding site [chemical binding]; other site 630588002294 active site 630588002295 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 630588002296 HsdM N-terminal domain; Region: HsdM_N; pfam12161 630588002297 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 630588002298 S-adenosylmethionine binding site [chemical binding]; other site 630588002300 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 630588002301 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 630588002302 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 630588002303 ATP binding site [chemical binding]; other site 630588002304 putative Mg++ binding site [ion binding]; other site 630588002305 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 630588002306 Clp amino terminal domain; Region: Clp_N; pfam02861 630588002307 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 630588002308 Walker A motif; other site 630588002309 ATP binding site [chemical binding]; other site 630588002310 Walker B motif; other site 630588002311 arginine finger; other site 630588002312 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 630588002313 Walker A motif; other site 630588002314 ATP binding site [chemical binding]; other site 630588002315 Walker B motif; other site 630588002316 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 630588002317 Uncharacterized conserved protein [Function unknown]; Region: COG2127 630588002318 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 630588002319 DNA-binding site [nucleotide binding]; DNA binding site 630588002320 RNA-binding motif; other site 630588002321 peptidase PmbA; Provisional; Region: PRK11040 630588002322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 630588002323 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 630588002324 DHH family; Region: DHH; pfam01368 630588002325 DHHA1 domain; Region: DHHA1; pfam02272 630588002326 poly(A) polymerase; Region: pcnB; TIGR01942 630588002327 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 630588002328 active site 630588002329 NTP binding site [chemical binding]; other site 630588002330 metal binding triad [ion binding]; metal-binding site 630588002331 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 630588002332 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 630588002333 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 630588002334 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 630588002335 PhoH-like protein; Region: PhoH; pfam02562 630588002336 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 630588002337 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 630588002338 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 630588002339 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 630588002340 trimer interface [polypeptide binding]; other site 630588002341 active site 630588002342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 630588002343 MORN repeat; Region: MORN; cl14787 630588002344 Putative exonuclease, RdgC; Region: RdgC; cl01122 630588002345 GTP-binding protein Der; Reviewed; Region: PRK00093 630588002346 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 630588002347 G1 box; other site 630588002348 GTP/Mg2+ binding site [chemical binding]; other site 630588002349 Switch I region; other site 630588002350 G2 box; other site 630588002351 Switch II region; other site 630588002352 G3 box; other site 630588002353 G4 box; other site 630588002354 G5 box; other site 630588002355 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 630588002356 G1 box; other site 630588002357 GTP/Mg2+ binding site [chemical binding]; other site 630588002358 Switch I region; other site 630588002359 G2 box; other site 630588002360 G3 box; other site 630588002361 Switch II region; other site 630588002362 G4 box; other site 630588002363 G5 box; other site 630588002364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 630588002365 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 630588002366 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 630588002367 dimer interface [polypeptide binding]; other site 630588002368 motif 1; other site 630588002369 active site 630588002370 motif 2; other site 630588002371 motif 3; other site 630588002372 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 630588002373 anticodon binding site; other site 630588002374 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 630588002375 putative active site [active] 630588002376 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 630588002377 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 630588002378 probable active site [active] 630588002379 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 630588002380 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 630588002381 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 630588002382 S-adenosylmethionine binding site [chemical binding]; other site 630588002383 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 630588002384 oligomerization interface [polypeptide binding]; other site 630588002385 active site 630588002386 metal binding site [ion binding]; metal-binding site 630588002387 pantoate--beta-alanine ligase; Region: panC; TIGR00018 630588002388 Pantoate-beta-alanine ligase; Region: PanC; cd00560 630588002389 active site 630588002390 ATP-binding site [chemical binding]; other site 630588002391 pantoate-binding site; other site 630588002392 HXXH motif; other site 630588002393 TPR repeat; Region: TPR_11; pfam13414 630588002394 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 630588002395 binding surface 630588002396 TPR motif; other site 630588002397 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 630588002398 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 630588002399 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 630588002400 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 630588002401 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 630588002402 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 630588002403 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 630588002404 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 630588002405 active site 630588002406 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 630588002407 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 630588002408 5S rRNA interface [nucleotide binding]; other site 630588002409 CTC domain interface [polypeptide binding]; other site 630588002410 L16 interface [polypeptide binding]; other site 630588002411 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 630588002412 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 630588002413 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 630588002414 threonine dehydratase; Reviewed; Region: PRK09224 630588002415 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 630588002416 tetramer interface [polypeptide binding]; other site 630588002417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588002418 catalytic residue [active] 630588002419 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 630588002420 putative Ile/Val binding site [chemical binding]; other site 630588002421 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 630588002422 putative Ile/Val binding site [chemical binding]; other site 630588002423 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 630588002424 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 630588002425 Walker A/P-loop; other site 630588002426 ATP binding site [chemical binding]; other site 630588002427 Q-loop/lid; other site 630588002428 ABC transporter signature motif; other site 630588002429 Walker B; other site 630588002430 D-loop; other site 630588002431 H-loop/switch region; other site 630588002432 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 630588002433 dimer interface [polypeptide binding]; other site 630588002434 conserved gate region; other site 630588002435 putative PBP binding loops; other site 630588002436 ABC-ATPase subunit interface; other site 630588002437 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 630588002438 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 630588002439 dimer interface [polypeptide binding]; other site 630588002440 conserved gate region; other site 630588002441 putative PBP binding loops; other site 630588002442 ABC-ATPase subunit interface; other site 630588002443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 630588002444 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 630588002445 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 630588002446 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 630588002447 replicative DNA helicase; Region: DnaB; TIGR00665 630588002448 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 630588002449 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 630588002450 Walker A motif; other site 630588002451 ATP binding site [chemical binding]; other site 630588002452 Walker B motif; other site 630588002453 DNA binding loops [nucleotide binding] 630588002454 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 630588002455 Type II transport protein GspH; Region: GspH; pfam12019 630588002456 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 630588002457 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 630588002458 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 630588002459 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 630588002460 PilX N-terminal; Region: PilX_N; pfam14341 630588002461 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 630588002462 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 630588002463 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 630588002464 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 630588002465 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 630588002466 trimer interface [polypeptide binding]; other site 630588002467 active site 630588002468 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 630588002469 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 630588002470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588002471 homodimer interface [polypeptide binding]; other site 630588002472 catalytic residue [active] 630588002473 hypothetical protein; Validated; Region: PRK02101 630588002475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 630588002477 KilA-N domain; Region: KilA-N; pfam04383 630588002478 Predicted helicase [General function prediction only]; Region: COG4889 630588002479 Uncharacterized conserved protein [Function unknown]; Region: COG5532 630588002480 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 630588002481 non-specific DNA binding site [nucleotide binding]; other site 630588002482 Predicted transcriptional regulator [Transcription]; Region: COG2932 630588002483 salt bridge; other site 630588002484 sequence-specific DNA binding site [nucleotide binding]; other site 630588002485 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 630588002486 Catalytic site [active] 630588002487 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588002488 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588002489 Homeodomain-like domain; Region: HTH_32; pfam13565 630588002490 Integrase core domain; Region: rve; pfam00665 630588002491 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 630588002492 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 630588002493 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 630588002494 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 630588002495 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 630588002496 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 630588002497 Cytochrome c556 [Energy production and conversion]; Region: COG3909 630588002498 malonic semialdehyde reductase; Provisional; Region: PRK10538 630588002499 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 630588002500 putative NAD(P) binding site [chemical binding]; other site 630588002501 homotetramer interface [polypeptide binding]; other site 630588002502 homodimer interface [polypeptide binding]; other site 630588002503 active site 630588002504 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 630588002505 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 630588002506 Replication initiation factor; Region: Rep_trans; pfam02486 630588002507 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 630588002508 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 630588002509 Zonular occludens toxin (Zot); Region: Zot; cl17485 630588002510 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 630588002511 Transposase; Region: DEDD_Tnp_IS110; pfam01548 630588002512 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 630588002513 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 630588002514 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 630588002515 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 630588002516 Uncharacterized small protein [Function unknown]; Region: COG2879 630588002517 carbon starvation protein A; Provisional; Region: PRK15015 630588002518 Carbon starvation protein CstA; Region: CstA; pfam02554 630588002519 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 630588002520 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 630588002521 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 630588002522 succinic semialdehyde dehydrogenase; Region: PLN02278 630588002523 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 630588002524 tetramerization interface [polypeptide binding]; other site 630588002525 NAD(P) binding site [chemical binding]; other site 630588002526 catalytic residues [active] 630588002527 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 630588002528 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 630588002529 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 630588002530 Transporter associated domain; Region: CorC_HlyC; smart01091 630588002531 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 630588002532 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 630588002533 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 630588002534 Peptidase family M23; Region: Peptidase_M23; pfam01551 630588002535 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 630588002536 recombination regulator RecX; Reviewed; Region: recX; PRK00117 630588002537 phosphoglycolate phosphatase; Provisional; Region: PRK13222 630588002538 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 630588002539 motif II; other site 630588002540 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 630588002541 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 630588002542 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 630588002543 NAD(P) binding site [chemical binding]; other site 630588002544 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 630588002545 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 630588002546 active site 1 [active] 630588002547 dimer interface [polypeptide binding]; other site 630588002548 hexamer interface [polypeptide binding]; other site 630588002549 active site 2 [active] 630588002550 aminotransferase AlaT; Validated; Region: PRK09265 630588002551 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 630588002552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588002553 homodimer interface [polypeptide binding]; other site 630588002554 catalytic residue [active] 630588002556 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 630588002557 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 630588002558 active site 630588002559 HIGH motif; other site 630588002560 dimer interface [polypeptide binding]; other site 630588002561 KMSKS motif; other site 630588002562 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 630588002563 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 630588002564 Protein of unknown function (DUF560); Region: DUF560; pfam04575 630588002566 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 630588002567 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 630588002568 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 630588002569 N-acetyl-D-glucosamine binding site [chemical binding]; other site 630588002570 catalytic residue [active] 630588002571 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 630588002572 Major Facilitator Superfamily; Region: MFS_1; pfam07690 630588002573 putative substrate translocation pore; other site 630588002574 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 630588002575 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 630588002576 dimer interface [polypeptide binding]; other site 630588002577 ssDNA binding site [nucleotide binding]; other site 630588002578 tetramer (dimer of dimers) interface [polypeptide binding]; other site 630588002579 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 630588002580 EamA-like transporter family; Region: EamA; pfam00892 630588002581 fumarate hydratase; Reviewed; Region: fumC; PRK00485 630588002582 Class II fumarases; Region: Fumarase_classII; cd01362 630588002583 active site 630588002584 tetramer interface [polypeptide binding]; other site 630588002585 transketolase; Reviewed; Region: PRK12753 630588002586 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 630588002587 TPP-binding site [chemical binding]; other site 630588002588 dimer interface [polypeptide binding]; other site 630588002589 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 630588002590 PYR/PP interface [polypeptide binding]; other site 630588002591 dimer interface [polypeptide binding]; other site 630588002592 TPP binding site [chemical binding]; other site 630588002593 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 630588002594 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 630588002595 4Fe-4S binding domain; Region: Fer4_5; pfam12801 630588002596 4Fe-4S binding domain; Region: Fer4_3; pfam12798 630588002597 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 630588002598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 630588002599 FixH; Region: FixH; pfam05751 630588002600 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 630588002601 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 630588002602 FMN binding site [chemical binding]; other site 630588002603 substrate binding site [chemical binding]; other site 630588002604 putative catalytic residue [active] 630588002605 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 630588002606 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 630588002607 active site 630588002608 catalytic site [active] 630588002609 substrate binding site [chemical binding]; other site 630588002610 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 630588002611 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 630588002612 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 630588002613 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 630588002614 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 630588002615 cofactor binding site; other site 630588002616 DNA binding site [nucleotide binding] 630588002617 substrate interaction site [chemical binding]; other site 630588002618 TIGR02594 family protein; Region: TIGR02594 630588002619 Protein of unknown function (DUF754); Region: DUF754; pfam05449 630588002620 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 630588002621 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 630588002622 terminase endonuclease subunit; Provisional; Region: M; PHA02537 630588002623 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 630588002624 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 630588002625 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 630588002626 terminase ATPase subunit; Provisional; Region: P; PHA02535 630588002627 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 630588002628 large terminase protein; Provisional; Region: 17; PHA02533 630588002629 Phage-related protein [Function unknown]; Region: COG4695; cl01923 630588002630 Phage portal protein; Region: Phage_portal; pfam04860 630588002631 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 630588002632 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 630588002633 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 630588002634 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 630588002635 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 630588002636 sequence-specific DNA binding site [nucleotide binding]; other site 630588002637 salt bridge; other site 630588002638 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 630588002639 Catalytic site [active] 630588002640 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 630588002641 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 630588002642 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 630588002643 Phage tail tube protein FII; Region: Phage_tube; cl01390 630588002644 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 630588002645 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 630588002646 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 630588002647 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 630588002648 non-specific DNA binding site [nucleotide binding]; other site 630588002649 salt bridge; other site 630588002650 sequence-specific DNA binding site [nucleotide binding]; other site 630588002651 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 630588002652 Phage Tail Collar Domain; Region: Collar; pfam07484 630588002654 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 630588002655 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 630588002656 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 630588002657 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 630588002658 active site 630588002659 DNA binding site [nucleotide binding] 630588002660 Int/Topo IB signature motif; other site 630588002661 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 630588002662 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 630588002663 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 630588002664 non-specific DNA binding site [nucleotide binding]; other site 630588002665 salt bridge; other site 630588002666 sequence-specific DNA binding site [nucleotide binding]; other site 630588002667 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 630588002668 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 630588002669 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 630588002670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 630588002671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 630588002672 HTH-like domain; Region: HTH_21; pfam13276 630588002673 Integrase core domain; Region: rve; pfam00665 630588002674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 630588002675 Smr domain; Region: Smr; pfam01713 630588002676 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 630588002677 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 630588002678 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 630588002679 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 630588002680 Coenzyme A binding pocket [chemical binding]; other site 630588002681 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 630588002682 XdhC Rossmann domain; Region: XdhC_C; pfam13478 630588002683 ATP-grasp domain; Region: ATP-grasp; pfam02222 630588002684 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 630588002685 anthranilate synthase component I; Provisional; Region: PRK13565 630588002686 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 630588002687 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 630588002688 ABC transporter ATPase component; Reviewed; Region: PRK11147 630588002689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 630588002690 Walker A/P-loop; other site 630588002691 ATP binding site [chemical binding]; other site 630588002692 Q-loop/lid; other site 630588002693 ABC transporter signature motif; other site 630588002694 Walker B; other site 630588002695 D-loop; other site 630588002696 H-loop/switch region; other site 630588002697 ABC transporter; Region: ABC_tran_2; pfam12848 630588002698 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 630588002699 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 630588002700 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 630588002701 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 630588002702 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 630588002703 dimer interface [polypeptide binding]; other site 630588002704 active site 630588002705 glycine-pyridoxal phosphate binding site [chemical binding]; other site 630588002706 folate binding site [chemical binding]; other site 630588002707 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 630588002708 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 630588002709 Glutaredoxin-related protein 630588002710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 630588002711 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 630588002712 AMP binding site [chemical binding]; other site 630588002713 metal binding site [ion binding]; metal-binding site 630588002714 active site 630588002715 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 630588002716 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 630588002717 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 630588002718 active site 630588002719 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 630588002720 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 630588002721 dimer interface [polypeptide binding]; other site 630588002722 ADP-ribose binding site [chemical binding]; other site 630588002723 active site 630588002724 nudix motif; other site 630588002725 metal binding site [ion binding]; metal-binding site 630588002726 camphor resistance protein CrcB; Provisional; Region: PRK14230 630588002727 Predicted membrane protein [Function unknown]; Region: COG3235 630588002728 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 630588002729 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 630588002730 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 630588002731 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 630588002732 putative catalytic cysteine [active] 630588002733 glutamate 5-kinase; Region: proB; TIGR01027 630588002734 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 630588002735 nucleotide binding site [chemical binding]; other site 630588002736 homotetrameric interface [polypeptide binding]; other site 630588002737 putative phosphate binding site [ion binding]; other site 630588002738 putative allosteric binding site; other site 630588002739 PUA domain; Region: PUA; pfam01472 630588002740 2-isopropylmalate synthase; Validated; Region: PRK00915 630588002741 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 630588002742 active site 630588002743 catalytic residues [active] 630588002744 metal binding site [ion binding]; metal-binding site 630588002745 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 630588002746 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 630588002747 yecA family protein; Region: ygfB_yecA; TIGR02292 630588002748 SEC-C motif; Region: SEC-C; pfam02810 630588002749 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 630588002750 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 630588002751 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 630588002752 putative active site [active] 630588002753 Zn binding site [ion binding]; other site 630588002754 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 630588002755 feedback inhibition sensing region; other site 630588002756 homohexameric interface [polypeptide binding]; other site 630588002757 nucleotide binding site [chemical binding]; other site 630588002758 N-acetyl-L-glutamate binding site [chemical binding]; other site 630588002759 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 630588002760 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 630588002761 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 630588002762 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 630588002763 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 630588002764 ABC transporter; Region: ABC_tran; pfam00005 630588002765 Predicted transcriptional regulator [Transcription]; Region: COG2932 630588002766 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 630588002767 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 630588002768 Catalytic site [active] 630588002770 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 630588002771 Integrase core domain; Region: rve; pfam00665 630588002772 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 630588002773 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 630588002774 AAA domain; Region: AAA_22; pfam13401 630588002775 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 630588002776 Mor transcription activator family; Region: Mor; cl02360 630588002777 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 630588002778 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 630588002779 active site 630588002780 metal binding site [ion binding]; metal-binding site 630588002781 Uncharacterized conserved protein [Function unknown]; Region: COG3422 630588002782 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 630588002783 phage uncharacterized protein (putative large terminase), C-terminal domain; Region: psiM2_ORF9; TIGR01630 630588002784 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 630588002785 Protein of unknown function (DUF935); Region: DUF935; pfam06074 630588002786 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 630588002787 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 630588002788 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 630588002789 Mu-like prophage I protein [General function prediction only]; Region: COG4388 630588002790 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 630588002791 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 630588002792 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 630588002793 Mu-like prophage protein gp45 [Function unknown]; Region: COG4384 630588002794 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 630588002795 Mu-like prophage protein gp46 [Function unknown]; Region: COG4381 630588002796 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 630588002797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 630588002798 Phage Tail Collar Domain; Region: Collar; pfam07484 630588002799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 630588002800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 630588002802 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 630588002803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 630588002804 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 630588002805 short chain dehydrogenase; Provisional; Region: PRK08703 630588002806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 630588002807 NAD(P) binding site [chemical binding]; other site 630588002808 active site 630588002809 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 630588002810 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 630588002811 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 630588002812 active site lid residues [active] 630588002813 substrate binding pocket [chemical binding]; other site 630588002814 catalytic residues [active] 630588002815 substrate-Mg2+ binding site; other site 630588002816 aspartate-rich region 1; other site 630588002817 aspartate-rich region 2; other site 630588002818 chaperone protein HscA; Provisional; Region: hscA; PRK05183 630588002819 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 630588002820 nucleotide binding site [chemical binding]; other site 630588002821 putative NEF/HSP70 interaction site [polypeptide binding]; other site 630588002822 SBD interface [polypeptide binding]; other site 630588002823 T5orf172 domain; Region: T5orf172; pfam10544 630588002824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 630588002825 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 630588002826 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 630588002827 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 630588002828 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 630588002829 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 630588002830 catalytic loop [active] 630588002831 iron binding site [ion binding]; other site 630588002832 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 630588002833 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 630588002834 RNA binding surface [nucleotide binding]; other site 630588002835 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 630588002836 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 630588002837 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 630588002838 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 630588002839 Ligand Binding Site [chemical binding]; other site 630588002840 TilS substrate binding domain; Region: TilS; pfam09179 630588002841 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 630588002842 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 630588002843 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 630588002844 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 630588002845 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 630588002846 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 630588002847 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 630588002848 biotin synthase; Region: bioB; TIGR00433 630588002849 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 630588002850 FeS/SAM binding site; other site 630588002851 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 630588002852 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 630588002853 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 630588002854 sulfite reductase subunit beta; Provisional; Region: PRK13504 630588002855 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 630588002856 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 630588002857 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 630588002858 Flavodoxin; Region: Flavodoxin_1; pfam00258 630588002859 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 630588002860 FAD binding pocket [chemical binding]; other site 630588002861 FAD binding motif [chemical binding]; other site 630588002862 catalytic residues [active] 630588002863 NAD binding pocket [chemical binding]; other site 630588002864 phosphate binding motif [ion binding]; other site 630588002865 beta-alpha-beta structure motif; other site 630588002866 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 630588002867 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 630588002868 CysD dimerization site [polypeptide binding]; other site 630588002869 G1 box; other site 630588002870 putative GEF interaction site [polypeptide binding]; other site 630588002871 GTP/Mg2+ binding site [chemical binding]; other site 630588002872 Switch I region; other site 630588002873 G2 box; other site 630588002874 G3 box; other site 630588002875 Switch II region; other site 630588002876 G4 box; other site 630588002877 G5 box; other site 630588002878 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 630588002879 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 630588002880 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 630588002881 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 630588002882 Active Sites [active] 630588002883 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 630588002884 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 630588002885 Active Sites [active] 630588002886 siroheme synthase; Provisional; Region: cysG; PRK10637 630588002887 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 630588002888 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 630588002889 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 630588002890 active site 630588002891 SAM binding site [chemical binding]; other site 630588002892 homodimer interface [polypeptide binding]; other site 630588002893 Cytochrome b [Energy production and conversion]; Region: COG3658 630588002894 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 630588002895 putative substrate binding site [chemical binding]; other site 630588002896 putative ATP binding site [chemical binding]; other site 630588002897 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 630588002898 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 630588002899 G1 box; other site 630588002900 putative GEF interaction site [polypeptide binding]; other site 630588002901 GTP/Mg2+ binding site [chemical binding]; other site 630588002902 Switch I region; other site 630588002903 G2 box; other site 630588002904 G3 box; other site 630588002905 Switch II region; other site 630588002906 G4 box; other site 630588002907 G5 box; other site 630588002908 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 630588002909 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 630588002910 ribonuclease R; Region: RNase_R; TIGR02063 630588002911 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 630588002912 RNB domain; Region: RNB; pfam00773 630588002913 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 630588002914 RNA binding site [nucleotide binding]; other site 630588002915 SPRY domain; Region: SPRY; cl02614 630588002916 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 630588002917 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 630588002918 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 630588002919 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 630588002920 active site 630588002921 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 630588002922 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 630588002923 metal binding triad; other site 630588002924 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 630588002925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 630588002926 Zn2+ binding site [ion binding]; other site 630588002927 Mg2+ binding site [ion binding]; other site 630588002928 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 630588002929 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 630588002930 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 630588002931 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 630588002932 non-specific DNA binding site [nucleotide binding]; other site 630588002933 salt bridge; other site 630588002934 sequence-specific DNA binding site [nucleotide binding]; other site 630588002935 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 630588002936 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 630588002937 heme binding site [chemical binding]; other site 630588002938 ferroxidase pore; other site 630588002939 ferroxidase diiron center [ion binding]; other site 630588002940 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 630588002941 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 630588002942 heme binding site [chemical binding]; other site 630588002943 ferroxidase pore; other site 630588002944 ferroxidase diiron center [ion binding]; other site 630588002945 lipoyl synthase; Provisional; Region: PRK05481 630588002946 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 630588002947 FeS/SAM binding site; other site 630588002948 lipoate-protein ligase B; Provisional; Region: PRK14342 630588002949 Uncharacterized conserved protein [Function unknown]; Region: COG2921 630588002950 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 630588002951 Domain of unknown function DUF20; Region: UPF0118; pfam01594 630588002952 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 630588002953 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 630588002954 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 630588002955 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 630588002956 ligand binding site [chemical binding]; other site 630588002957 active site 630588002958 UGI interface [polypeptide binding]; other site 630588002959 catalytic site [active] 630588002961 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 630588002962 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 630588002963 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 630588002964 ABC transporter; Region: ABC_tran_2; pfam12848 630588002965 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 630588002966 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 630588002967 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 630588002968 homoserine dehydrogenase; Provisional; Region: PRK06349 630588002969 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 630588002970 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 630588002971 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 630588002972 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 630588002973 IHF dimer interface [polypeptide binding]; other site 630588002974 IHF - DNA interface [nucleotide binding]; other site 630588002975 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 630588002976 Found in ATP-dependent protease La (LON); Region: LON; smart00464 630588002977 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 630588002978 Walker A motif; other site 630588002979 ATP binding site [chemical binding]; other site 630588002980 Walker B motif; other site 630588002981 arginine finger; other site 630588002982 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 630588002983 Methyltransferase domain; Region: Methyltransf_23; pfam13489 630588002984 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 630588002985 S-adenosylmethionine binding site [chemical binding]; other site 630588002986 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 630588002987 AAA domain; Region: AAA_30; pfam13604 630588002988 Family description; Region: UvrD_C_2; pfam13538 630588002989 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 630588002990 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 630588002991 Walker A/P-loop; other site 630588002992 ATP binding site [chemical binding]; other site 630588002993 Q-loop/lid; other site 630588002994 ABC transporter signature motif; other site 630588002995 Walker B; other site 630588002996 D-loop; other site 630588002997 H-loop/switch region; other site 630588002998 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 630588002999 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 630588003000 FtsX-like permease family; Region: FtsX; pfam02687 630588003001 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 630588003002 RecR protein; Region: RecR; pfam02132 630588003003 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 630588003004 putative active site [active] 630588003005 putative metal-binding site [ion binding]; other site 630588003006 tetramer interface [polypeptide binding]; other site 630588003007 SurA N-terminal domain; Region: SurA_N_3; cl07813 630588003008 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 630588003009 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 630588003010 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 630588003011 ArsC family; Region: ArsC; pfam03960 630588003012 putative catalytic residues [active] 630588003013 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 630588003014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 630588003015 Walker A/P-loop; other site 630588003016 ATP binding site [chemical binding]; other site 630588003017 ABC transporter signature motif; other site 630588003018 Walker B; other site 630588003019 D-loop; other site 630588003020 H-loop/switch region; other site 630588003021 ABC transporter; Region: ABC_tran_2; pfam12848 630588003022 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 630588003023 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 630588003024 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 630588003025 active site 630588003026 NTP binding site [chemical binding]; other site 630588003027 metal binding triad [ion binding]; metal-binding site 630588003028 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 630588003029 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 630588003030 Zn2+ binding site [ion binding]; other site 630588003031 Mg2+ binding site [ion binding]; other site 630588003032 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 630588003033 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 630588003034 Walker A motif; other site 630588003035 ATP binding site [chemical binding]; other site 630588003036 Walker B motif; other site 630588003037 arginine finger; other site 630588003038 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 630588003039 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 630588003040 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 630588003041 substrate binding site [chemical binding]; other site 630588003042 hexamer interface [polypeptide binding]; other site 630588003043 metal binding site [ion binding]; metal-binding site 630588003044 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]; Region: CpxP; COG3678 630588003045 dimer interface [polypeptide binding]; other site 630588003046 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 630588003047 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 630588003048 Walker A motif; other site 630588003049 ATP binding site [chemical binding]; other site 630588003050 Walker B motif; other site 630588003051 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 630588003052 Lumazine binding domain; Region: Lum_binding; pfam00677 630588003053 Lumazine binding domain; Region: Lum_binding; pfam00677 630588003054 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 630588003055 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 630588003056 GTP binding site; other site 630588003057 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 630588003058 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 630588003059 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 630588003060 dimerization interface [polypeptide binding]; other site 630588003061 GAF domain; Region: GAF_3; pfam13492 630588003062 Histidine kinase; Region: HisKA_3; pfam07730 630588003063 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 630588003064 ATP binding site [chemical binding]; other site 630588003065 Mg2+ binding site [ion binding]; other site 630588003066 G-X-G motif; other site 630588003067 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 630588003068 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 630588003069 active site 630588003070 phosphorylation site [posttranslational modification] 630588003071 intermolecular recognition site; other site 630588003072 dimerization interface [polypeptide binding]; other site 630588003073 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 630588003074 DNA binding residues [nucleotide binding] 630588003075 dimerization interface [polypeptide binding]; other site 630588003076 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 630588003077 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 630588003078 dimerization interface [polypeptide binding]; other site 630588003079 putative ATP binding site [chemical binding]; other site 630588003080 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 630588003081 dimerization interface [polypeptide binding]; other site 630588003082 active site 630588003083 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 630588003084 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 630588003085 active site 630588003086 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 630588003087 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 630588003088 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 630588003089 dimerization interface [polypeptide binding]; other site 630588003091 recombination factor protein RarA; Reviewed; Region: PRK13342 630588003092 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 630588003093 Walker A motif; other site 630588003094 ATP binding site [chemical binding]; other site 630588003095 Walker B motif; other site 630588003096 arginine finger; other site 630588003097 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 630588003098 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 630588003099 Helix-turn-helix domain; Region: HTH_38; pfam13936 630588003100 Homeodomain-like domain; Region: HTH_32; pfam13565 630588003101 Integrase core domain; Region: rve; pfam00665 630588003102 Transcriptional regulator [Transcription]; Region: LysR; COG0583 630588003103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 630588003104 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 630588003105 dimerization interface [polypeptide binding]; other site 630588003106 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 630588003107 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 630588003108 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 630588003109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588003110 catalytic residue [active] 630588003111 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 630588003112 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 630588003113 FAD binding pocket [chemical binding]; other site 630588003114 FAD binding motif [chemical binding]; other site 630588003115 phosphate binding motif [ion binding]; other site 630588003116 beta-alpha-beta structure motif; other site 630588003117 NAD binding pocket [chemical binding]; other site 630588003118 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 630588003119 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 630588003120 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 630588003121 metal-binding site [ion binding] 630588003122 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 630588003123 Soluble P-type ATPase [General function prediction only]; Region: COG4087 630588003124 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 630588003125 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 630588003126 HflX GTPase family; Region: HflX; cd01878 630588003127 G1 box; other site 630588003128 GTP/Mg2+ binding site [chemical binding]; other site 630588003129 Switch I region; other site 630588003130 G2 box; other site 630588003131 G3 box; other site 630588003132 Switch II region; other site 630588003133 G4 box; other site 630588003134 G5 box; other site 630588003135 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 630588003136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 630588003137 hypothetical protein; Reviewed; Region: PRK00024 630588003138 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 630588003139 MPN+ (JAMM) motif; other site 630588003140 Zinc-binding site [ion binding]; other site 630588003141 Glutamate-cysteine ligase; Region: GshA; pfam08886 630588003142 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 630588003143 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 630588003144 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 630588003145 substrate binding site [chemical binding]; other site 630588003146 ligand binding site [chemical binding]; other site 630588003147 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 630588003148 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 630588003149 substrate binding site [chemical binding]; other site 630588003152 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 630588003153 tartrate dehydrogenase; Region: TTC; TIGR02089 630588003154 Uncharacterized conserved protein [Function unknown]; Region: COG2353 630588003155 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 630588003156 Aspartase; Region: Aspartase; cd01357 630588003157 active sites [active] 630588003158 tetramer interface [polypeptide binding]; other site 630588003159 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 630588003160 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 630588003161 HSP70 interaction site [polypeptide binding]; other site 630588003162 Predicted membrane protein [Function unknown]; Region: COG3671 630588003163 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 630588003164 putative deacylase active site [active] 630588003165 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 630588003166 homotrimer interaction site [polypeptide binding]; other site 630588003167 putative active site [active] 630588003168 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 630588003169 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 630588003170 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 630588003171 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 630588003172 Ligand Binding Site [chemical binding]; other site 630588003173 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 630588003174 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 630588003175 DNA methylase; Region: N6_N4_Mtase; pfam01555 630588003176 DNA methylase; Region: N6_N4_Mtase; pfam01555 630588003177 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 630588003178 substrate binding site [chemical binding]; other site 630588003179 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 630588003180 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 630588003181 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 630588003182 Uncharacterized conserved protein [Function unknown]; Region: COG2361 630588003183 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 630588003184 active site 630588003185 NTP binding site [chemical binding]; other site 630588003186 metal binding triad [ion binding]; metal-binding site 630588003187 antibiotic binding site [chemical binding]; other site 630588003188 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 630588003189 metal binding site 2 [ion binding]; metal-binding site 630588003190 putative DNA binding helix; other site 630588003191 metal binding site 1 [ion binding]; metal-binding site 630588003192 dimer interface [polypeptide binding]; other site 630588003193 structural Zn2+ binding site [ion binding]; other site 630588003194 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 630588003195 Low molecular weight phosphatase family; Region: LMWPc; cd00115 630588003196 active site 630588003197 glycerate kinase; Region: TIGR00045 630588003198 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 630588003199 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 630588003200 S-adenosylmethionine binding site [chemical binding]; other site 630588003201 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 630588003202 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 630588003203 metal-binding site [ion binding] 630588003204 putative arabinose transporter; Provisional; Region: PRK03545 630588003205 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 630588003206 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 630588003207 active site 630588003208 catalytic triad [active] 630588003209 oxyanion hole [active] 630588003210 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 630588003211 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 630588003212 active site 630588003213 oxyanion hole [active] 630588003214 catalytic triad [active] 630588003215 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 630588003216 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 630588003217 acyl-activating enzyme (AAE) consensus motif; other site 630588003218 putative AMP binding site [chemical binding]; other site 630588003219 putative active site [active] 630588003220 putative CoA binding site [chemical binding]; other site 630588003221 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 630588003222 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 630588003223 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 630588003224 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 630588003225 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 630588003226 N-acetyl-D-glucosamine binding site [chemical binding]; other site 630588003227 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 630588003228 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 630588003229 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 630588003230 active site 630588003231 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 630588003232 DEAD-like helicases superfamily; Region: DEXDc; smart00487 630588003233 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 630588003234 ATP binding site [chemical binding]; other site 630588003235 putative Mg++ binding site [ion binding]; other site 630588003236 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 630588003237 nucleotide binding region [chemical binding]; other site 630588003238 ATP-binding site [chemical binding]; other site 630588003239 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 630588003240 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 630588003241 tetramerization interface [polypeptide binding]; other site 630588003242 active site 630588003243 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 630588003244 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 630588003245 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 630588003246 enolase; Provisional; Region: eno; PRK00077 630588003247 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 630588003248 dimer interface [polypeptide binding]; other site 630588003249 metal binding site [ion binding]; metal-binding site 630588003250 substrate binding pocket [chemical binding]; other site 630588003251 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 630588003252 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 630588003253 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 630588003254 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 630588003255 catalytic loop [active] 630588003256 iron binding site [ion binding]; other site 630588003257 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 630588003258 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 630588003259 dimer interface [polypeptide binding]; other site 630588003260 putative radical transfer pathway; other site 630588003261 diiron center [ion binding]; other site 630588003262 tyrosyl radical; other site 630588003263 N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; Region: EcoRII_N; cd10016 630588003264 DNA binding site [nucleotide binding] 630588003265 EcoRII C terminal; Region: EcoRII-C; pfam09019 630588003266 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 630588003267 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 630588003268 cofactor binding site; other site 630588003269 DNA binding site [nucleotide binding] 630588003270 substrate interaction site [chemical binding]; other site 630588003271 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 630588003272 ATP cone domain; Region: ATP-cone; pfam03477 630588003273 Class I ribonucleotide reductase; Region: RNR_I; cd01679 630588003274 active site 630588003275 dimer interface [polypeptide binding]; other site 630588003276 catalytic residues [active] 630588003277 effector binding site; other site 630588003278 R2 peptide binding site; other site 630588003279 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 630588003280 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 630588003281 putative acyl-acceptor binding pocket; other site 630588003282 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 630588003283 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 630588003284 DNA binding site [nucleotide binding] 630588003285 catalytic residue [active] 630588003286 H2TH interface [polypeptide binding]; other site 630588003287 putative catalytic residues [active] 630588003288 turnover-facilitating residue; other site 630588003289 intercalation triad [nucleotide binding]; other site 630588003290 8OG recognition residue [nucleotide binding]; other site 630588003291 putative reading head residues; other site 630588003292 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 630588003293 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 630588003294 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 630588003295 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 630588003296 N-acetyl-D-glucosamine binding site [chemical binding]; other site 630588003297 catalytic residue [active] 630588003298 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 630588003299 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 630588003300 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 630588003301 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 630588003302 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 630588003303 RNA binding surface [nucleotide binding]; other site 630588003304 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 630588003305 active site 630588003306 uracil binding [chemical binding]; other site 630588003308 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 630588003309 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 630588003310 CMP-binding site; other site 630588003311 The sites determining sugar specificity; other site 630588003312 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 630588003313 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 630588003314 RNA binding site [nucleotide binding]; other site 630588003315 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 630588003316 RNA binding site [nucleotide binding]; other site 630588003317 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 630588003318 RNA binding site [nucleotide binding]; other site 630588003319 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 630588003320 RNA binding site [nucleotide binding]; other site 630588003321 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 630588003322 RNA binding site [nucleotide binding]; other site 630588003323 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 630588003324 RNA binding site [nucleotide binding]; other site 630588003325 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 630588003326 IHF dimer interface [polypeptide binding]; other site 630588003327 IHF - DNA interface [nucleotide binding]; other site 630588003328 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 630588003329 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 630588003330 DNA binding residues [nucleotide binding] 630588003331 putative dimer interface [polypeptide binding]; other site 630588003332 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 630588003333 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 630588003334 substrate binding site [chemical binding]; other site 630588003335 catalytic Zn binding site [ion binding]; other site 630588003336 NAD binding site [chemical binding]; other site 630588003337 structural Zn binding site [ion binding]; other site 630588003338 dimer interface [polypeptide binding]; other site 630588003339 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 630588003340 S-formylglutathione hydrolase; Region: PLN02442 630588003341 Predicted ATPase [General function prediction only]; Region: COG1485 630588003342 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 630588003343 active site 630588003344 multimer interface [polypeptide binding]; other site 630588003345 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 630588003346 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 630588003347 FeS/SAM binding site; other site 630588003348 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 630588003349 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 630588003350 binding surface 630588003351 TPR motif; other site 630588003352 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 630588003353 TPR motif; other site 630588003354 binding surface 630588003355 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 630588003356 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 630588003357 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 630588003358 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 630588003359 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 630588003360 oligomer interface [polypeptide binding]; other site 630588003361 active site residues [active] 630588003362 trigger factor; Provisional; Region: tig; PRK01490 630588003363 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 630588003364 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 630588003365 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 630588003366 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 630588003367 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 630588003368 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 630588003369 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 630588003371 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 630588003372 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 630588003373 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 630588003374 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 630588003375 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 630588003376 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 630588003377 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 630588003378 Primosomal replication protein N [DNA replication, recombination, and repair]; Region: PriB; COG2965 630588003379 generic binding surface I; other site 630588003380 generic binding surface II; other site 630588003381 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 630588003382 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 630588003383 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 630588003384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 630588003385 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 630588003386 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 630588003387 metal-binding site [ion binding] 630588003388 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 630588003389 Soluble P-type ATPase [General function prediction only]; Region: COG4087 630588003390 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 630588003391 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 630588003392 GIY-YIG motif/motif A; other site 630588003393 active site 630588003394 catalytic site [active] 630588003395 putative DNA binding site [nucleotide binding]; other site 630588003396 metal binding site [ion binding]; metal-binding site 630588003397 UvrB/uvrC motif; Region: UVR; pfam02151 630588003398 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 630588003399 Helix-hairpin-helix motif; Region: HHH; pfam00633 630588003400 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 630588003401 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 630588003402 Sel1-like repeats; Region: SEL1; smart00671 630588003403 Sel1-like repeats; Region: SEL1; smart00671 630588003404 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 630588003405 S-adenosylmethionine binding site [chemical binding]; other site 630588003406 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 630588003407 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 630588003408 excinuclease ABC subunit B; Provisional; Region: PRK05298 630588003409 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 630588003410 ATP-binding site [chemical binding]; other site 630588003411 ATP binding site [chemical binding]; other site 630588003412 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 630588003413 nucleotide binding region [chemical binding]; other site 630588003414 ATP-binding site [chemical binding]; other site 630588003415 Ultra-violet resistance protein B; Region: UvrB; pfam12344 630588003416 UvrB/uvrC motif; Region: UVR; pfam02151 630588003417 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 630588003418 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 630588003419 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 630588003420 protein binding site [polypeptide binding]; other site 630588003421 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 630588003422 Catalytic dyad [active] 630588003423 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 630588003424 Peptidase family M23; Region: Peptidase_M23; pfam01551 630588003425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 630588003426 CreA protein; Region: CreA; pfam05981 630588003427 Putative transcriptional regulator [Transcription]; Region: COG1678 630588003428 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 630588003429 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 630588003430 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 630588003431 prolyl-tRNA synthetase; Provisional; Region: PRK09194 630588003432 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 630588003433 dimer interface [polypeptide binding]; other site 630588003434 motif 1; other site 630588003435 active site 630588003436 motif 2; other site 630588003437 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 630588003438 putative deacylase active site [active] 630588003439 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 630588003440 active site 630588003441 motif 3; other site 630588003442 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 630588003443 anticodon binding site; other site 630588003444 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 630588003445 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 630588003446 dimer interface [polypeptide binding]; other site 630588003447 TPP-binding site [chemical binding]; other site 630588003448 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 630588003449 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 630588003450 E3 interaction surface; other site 630588003451 lipoyl attachment site [posttranslational modification]; other site 630588003452 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 630588003453 E3 interaction surface; other site 630588003454 lipoyl attachment site [posttranslational modification]; other site 630588003455 e3 binding domain; Region: E3_binding; pfam02817 630588003456 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 630588003457 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 630588003458 E3 interaction surface; other site 630588003459 lipoyl attachment site [posttranslational modification]; other site 630588003460 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 630588003461 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 630588003462 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 630588003463 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 630588003464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 630588003465 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 630588003466 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 630588003467 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 630588003468 N-terminal plug; other site 630588003469 ligand-binding site [chemical binding]; other site 630588003470 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 630588003471 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 630588003472 active site 630588003473 dimerization interface [polypeptide binding]; other site 630588003474 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 630588003475 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 630588003476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 630588003477 16S rRNA methyltransferase B; Provisional; Region: PRK10901 630588003478 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 630588003479 S-adenosylmethionine binding site [chemical binding]; other site 630588003480 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 630588003481 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 630588003482 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 630588003483 NAD(P) binding site [chemical binding]; other site 630588003484 catalytic residues [active] 630588003485 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 630588003486 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 630588003487 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 630588003488 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 630588003489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 630588003490 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 630588003491 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 630588003492 GatB domain; Region: GatB_Yqey; smart00845 630588003493 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 630588003494 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 630588003495 catalytic loop [active] 630588003496 iron binding site [ion binding]; other site 630588003497 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 630588003498 FAD binding pocket [chemical binding]; other site 630588003499 FAD binding motif [chemical binding]; other site 630588003500 phosphate binding motif [ion binding]; other site 630588003501 beta-alpha-beta structure motif; other site 630588003502 NAD binding pocket [chemical binding]; other site 630588003503 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 630588003504 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 630588003505 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 630588003506 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 630588003507 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 630588003508 RNA binding surface [nucleotide binding]; other site 630588003509 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 630588003510 probable active site [active] 630588003511 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 630588003512 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 630588003513 putative substrate translocation pore; other site 630588003514 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 630588003515 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 630588003516 generic binding surface II; other site 630588003517 generic binding surface I; other site 630588003518 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 630588003519 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 630588003520 homodimer interface [polypeptide binding]; other site 630588003521 NAD binding pocket [chemical binding]; other site 630588003522 ATP binding pocket [chemical binding]; other site 630588003523 Mg binding site [ion binding]; other site 630588003524 active-site loop [active] 630588003525 Hemerythrin-like domain; Region: Hr-like; cd12108 630588003526 Fe binding site [ion binding]; other site 630588003527 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 630588003528 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 630588003529 catalytic residues [active] 630588003530 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 630588003531 S-adenosylmethionine binding site [chemical binding]; other site 630588003532 helicase 45; Provisional; Region: PTZ00424 630588003533 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 630588003534 ATP binding site [chemical binding]; other site 630588003535 Mg++ binding site [ion binding]; other site 630588003536 motif III; other site 630588003537 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 630588003538 nucleotide binding region [chemical binding]; other site 630588003539 ATP-binding site [chemical binding]; other site 630588003540 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 630588003541 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 630588003542 inhibitor-cofactor binding pocket; inhibition site 630588003543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588003544 catalytic residue [active] 630588003545 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 630588003546 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 630588003547 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 630588003548 Walker A motif; other site 630588003549 ATP binding site [chemical binding]; other site 630588003550 Walker B motif; other site 630588003551 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 630588003552 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 630588003553 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 630588003554 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 630588003555 RNA binding site [nucleotide binding]; other site 630588003556 active site 630588003557 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 630588003558 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 630588003559 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 630588003560 DNA methylase; Region: N6_N4_Mtase; pfam01555 630588003561 DNA methylase; Region: N6_N4_Mtase; pfam01555 630588003562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 630588003563 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 630588003564 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 630588003565 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 630588003566 phosphate binding site [ion binding]; other site 630588003567 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 630588003568 Rrf2 family protein; Region: rrf2_super; TIGR00738 630588003569 cysteine desulfurase; Provisional; Region: PRK14012 630588003570 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 630588003571 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 630588003572 catalytic residue [active] 630588003573 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 630588003574 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 630588003575 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 630588003576 trimerization site [polypeptide binding]; other site 630588003577 active site 630588003578 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 630588003579 co-chaperone HscB; Provisional; Region: hscB; PRK03578 630588003580 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 630588003581 HSP70 interaction site [polypeptide binding]; other site 630588003582 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 630588003583 DNA gyrase subunit A; Validated; Region: PRK05560 630588003584 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 630588003585 CAP-like domain; other site 630588003586 active site 630588003587 primary dimer interface [polypeptide binding]; other site 630588003588 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 630588003589 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 630588003590 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 630588003591 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 630588003592 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 630588003593 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 630588003594 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 630588003595 active site 630588003596 dimer interface [polypeptide binding]; other site 630588003597 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 630588003598 dimer interface [polypeptide binding]; other site 630588003599 active site 630588003600 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 630588003601 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 630588003602 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 630588003603 putative active site [active] 630588003604 glucokinase; Provisional; Region: glk; PRK00292 630588003605 glucokinase, proteobacterial type; Region: glk; TIGR00749 630588003606 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 630588003607 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 630588003608 putative active site [active] 630588003609 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 630588003610 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 630588003611 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 630588003612 phosphogluconate dehydratase; Validated; Region: PRK09054 630588003613 6-phosphogluconate dehydratase; Region: edd; TIGR01196 630588003614 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 630588003615 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 630588003616 active site 630588003617 intersubunit interface [polypeptide binding]; other site 630588003618 catalytic residue [active] 630588003620 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 630588003621 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 630588003622 minor groove reading motif; other site 630588003623 helix-hairpin-helix signature motif; other site 630588003624 substrate binding pocket [chemical binding]; other site 630588003625 active site 630588003626 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 630588003627 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 630588003628 DNA binding and oxoG recognition site [nucleotide binding] 630588003629 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 630588003630 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 630588003631 E-class dimer interface [polypeptide binding]; other site 630588003632 P-class dimer interface [polypeptide binding]; other site 630588003633 active site 630588003634 Cu2+ binding site [ion binding]; other site 630588003635 Zn2+ binding site [ion binding]; other site 630588003636 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 630588003637 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 630588003638 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 630588003639 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 630588003640 Walker A/P-loop; other site 630588003641 ATP binding site [chemical binding]; other site 630588003642 Q-loop/lid; other site 630588003643 ABC transporter signature motif; other site 630588003644 Walker B; other site 630588003645 D-loop; other site 630588003646 H-loop/switch region; other site 630588003647 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 630588003648 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 630588003649 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 630588003650 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 630588003651 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 630588003652 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 630588003653 aminopeptidase N; Provisional; Region: pepN; PRK14015 630588003654 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 630588003655 active site 630588003656 Zn binding site [ion binding]; other site 630588003657 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 630588003658 active site 630588003659 catalytic site [active] 630588003660 substrate binding site [chemical binding]; other site 630588003661 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 630588003662 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 630588003663 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 630588003664 putative acyl-acceptor binding pocket; other site 630588003665 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 630588003666 active site 630588003667 putative DNA-binding cleft [nucleotide binding]; other site 630588003668 dimer interface [polypeptide binding]; other site 630588003669 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 630588003670 DNA-binding protein Fis; Provisional; Region: PRK01905 630588003671 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 630588003672 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 630588003673 FMN binding site [chemical binding]; other site 630588003674 active site 630588003675 catalytic residues [active] 630588003676 substrate binding site [chemical binding]; other site 630588003677 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 630588003678 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 630588003679 ATP binding site [chemical binding]; other site 630588003680 Mg++ binding site [ion binding]; other site 630588003681 motif III; other site 630588003682 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 630588003683 nucleotide binding region [chemical binding]; other site 630588003684 ATP-binding site [chemical binding]; other site 630588003685 Fic family protein [Function unknown]; Region: COG3177 630588003686 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 630588003687 Fic/DOC family; Region: Fic; pfam02661 630588003689 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 630588003690 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 630588003691 dimer interface [polypeptide binding]; other site 630588003692 putative anticodon binding site; other site 630588003693 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 630588003694 motif 1; other site 630588003695 active site 630588003696 motif 2; other site 630588003697 motif 3; other site 630588003698 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 630588003699 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 630588003700 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 630588003701 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 630588003702 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 630588003703 active site 630588003704 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 630588003705 eyelet of channel; other site 630588003706 trimer interface [polypeptide binding]; other site 630588003707 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 630588003708 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 630588003709 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 630588003710 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 630588003711 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 630588003712 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 630588003713 hinge; other site 630588003714 active site 630588003715 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 630588003716 NlpC/P60 family; Region: NLPC_P60; pfam00877 630588003717 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 630588003718 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 630588003719 putative active site [active] 630588003720 catalytic site [active] 630588003721 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 630588003722 putative active site [active] 630588003723 catalytic site [active] 630588003724 putative transporter; Provisional; Region: PRK10504 630588003725 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 630588003726 putative substrate translocation pore; other site 630588003727 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 630588003728 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 630588003729 Cysteine-rich domain; Region: CCG; pfam02754 630588003730 Cysteine-rich domain; Region: CCG; pfam02754 630588003731 Uncharacterized conserved protein [Function unknown]; Region: COG1556 630588003732 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 630588003733 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 630588003734 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 630588003735 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 630588003736 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 630588003737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 630588003738 Tetratricopeptide repeat; Region: TPR_6; pfam13174 630588003739 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 630588003740 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 630588003741 S-adenosylmethionine binding site [chemical binding]; other site 630588003742 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 630588003743 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 630588003744 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 630588003745 ATP binding site [chemical binding]; other site 630588003746 Mg2+ binding site [ion binding]; other site 630588003747 G-X-G motif; other site 630588003748 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 630588003749 ATP binding site [chemical binding]; other site 630588003750 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 630588003751 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 630588003752 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 630588003753 Walker A motif; other site 630588003754 ATP binding site [chemical binding]; other site 630588003755 Walker B motif; other site 630588003756 arginine finger; other site 630588003757 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 630588003758 hypothetical protein; Validated; Region: PRK00153 630588003759 recombinase A; Provisional; Region: recA; PRK09354 630588003760 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 630588003761 hexamer interface [polypeptide binding]; other site 630588003762 Walker A motif; other site 630588003763 ATP binding site [chemical binding]; other site 630588003764 Walker B motif; other site 630588003765 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 630588003766 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 630588003767 active site 630588003768 catalytic residue [active] 630588003769 dimer interface [polypeptide binding]; other site 630588003770 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 630588003771 Family description; Region: UvrD_C_2; pfam13538 630588003772 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 630588003773 active site 630588003774 DNA polymerase IV; Validated; Region: PRK02406 630588003775 DNA binding site [nucleotide binding] 630588003776 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 630588003777 Transposase domain (DUF772); Region: DUF772; pfam05598 630588003778 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588003779 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 630588003780 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 630588003781 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 630588003782 FAD binding pocket [chemical binding]; other site 630588003783 FAD binding motif [chemical binding]; other site 630588003784 phosphate binding motif [ion binding]; other site 630588003785 beta-alpha-beta structure motif; other site 630588003786 NAD binding pocket [chemical binding]; other site 630588003787 integrase; Provisional; Region: PRK09692 630588003788 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 630588003789 active site 630588003790 Int/Topo IB signature motif; other site 630588003791 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 630588003792 non-specific DNA binding site [nucleotide binding]; other site 630588003793 salt bridge; other site 630588003794 sequence-specific DNA binding site [nucleotide binding]; other site 630588003795 Transposase domain (DUF772); Region: DUF772; pfam05598 630588003796 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588003797 DDE superfamily endonuclease; Region: DDE_4; cl17710 630588003798 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 630588003799 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 630588003800 FMN binding site [chemical binding]; other site 630588003801 active site 630588003802 catalytic residues [active] 630588003803 substrate binding site [chemical binding]; other site 630588003804 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 630588003805 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 630588003806 FAD binding domain; Region: FAD_binding_4; pfam01565 630588003807 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 630588003808 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 630588003809 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 630588003810 Cysteine-rich domain; Region: CCG; pfam02754 630588003811 Cysteine-rich domain; Region: CCG; pfam02754 630588003812 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 630588003813 D-lactate dehydrogenase; Provisional; Region: PRK11183 630588003814 FAD binding domain; Region: FAD_binding_4; pfam01565 630588003815 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 630588003816 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 630588003817 Uncharacterized conserved protein [Function unknown]; Region: COG2128 630588003818 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 630588003819 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 630588003820 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 630588003821 active site 630588003822 Rubredoxin [Energy production and conversion]; Region: COG1773 630588003823 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 630588003824 iron binding site [ion binding]; other site 630588003825 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 630588003826 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 630588003827 YadA-like C-terminal region; Region: YadA; pfam03895 630588003828 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 630588003829 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 630588003830 active site 630588003831 metal binding site [ion binding]; metal-binding site 630588003832 Mor transcription activator family; Region: Mor; cl02360 630588003833 Mu-like prophage protein gp16 [Function unknown]; Region: COG4382 630588003834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 630588003835 Transposase; Region: DEDD_Tnp_IS110; pfam01548 630588003836 B-Box C-terminal domain; Region: BBC; smart00502 630588003837 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 630588003838 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 630588003839 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 630588003840 purine monophosphate binding site [chemical binding]; other site 630588003841 dimer interface [polypeptide binding]; other site 630588003842 putative catalytic residues [active] 630588003843 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 630588003844 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 630588003845 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 630588003846 putative ion selectivity filter; other site 630588003847 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 630588003848 putative pore gating glutamate residue; other site 630588003849 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 630588003850 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 630588003851 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 630588003852 motif II; other site 630588003853 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 630588003854 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 630588003855 ligand binding site [chemical binding]; other site 630588003856 homodimer interface [polypeptide binding]; other site 630588003857 NAD(P) binding site [chemical binding]; other site 630588003858 trimer interface B [polypeptide binding]; other site 630588003859 trimer interface A [polypeptide binding]; other site 630588003860 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 630588003861 MAPEG family; Region: MAPEG; cl09190 630588003862 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 630588003863 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 630588003864 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 630588003865 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 630588003866 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 630588003868 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 630588003869 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 630588003870 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 630588003871 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 630588003872 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 630588003873 glutamine binding [chemical binding]; other site 630588003874 catalytic triad [active] 630588003875 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 630588003876 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 630588003877 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 630588003878 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 630588003879 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 630588003880 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 630588003881 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 630588003882 Predicted transcriptional regulator [Transcription]; Region: COG2378 630588003883 WYL domain; Region: WYL; pfam13280 630588003884 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 630588003885 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 630588003886 CoA binding domain; Region: CoA_binding; smart00881 630588003887 CoA-ligase; Region: Ligase_CoA; pfam00549 630588003888 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 630588003889 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 630588003890 CoA-ligase; Region: Ligase_CoA; pfam00549 630588003891 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 630588003892 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 630588003893 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 630588003894 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 630588003895 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 630588003896 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 630588003897 E3 interaction surface; other site 630588003898 lipoyl attachment site [posttranslational modification]; other site 630588003899 e3 binding domain; Region: E3_binding; pfam02817 630588003900 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 630588003901 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 630588003902 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 630588003903 TPP-binding site [chemical binding]; other site 630588003904 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 630588003905 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 630588003906 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 630588003907 dimer interface [polypeptide binding]; other site 630588003908 active site 630588003909 citrylCoA binding site [chemical binding]; other site 630588003910 NADH binding [chemical binding]; other site 630588003911 cationic pore residues; other site 630588003912 oxalacetate/citrate binding site [chemical binding]; other site 630588003913 coenzyme A binding site [chemical binding]; other site 630588003914 catalytic triad [active] 630588003915 Uncharacterized conserved protein [Function unknown]; Region: COG2938 630588003916 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 630588003917 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 630588003918 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 630588003919 L-aspartate oxidase; Provisional; Region: PRK06175 630588003920 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 630588003921 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 630588003922 SdhC subunit interface [polypeptide binding]; other site 630588003923 proximal heme binding site [chemical binding]; other site 630588003924 cardiolipin binding site; other site 630588003925 Iron-sulfur protein interface; other site 630588003926 proximal quinone binding site [chemical binding]; other site 630588003927 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 630588003928 Iron-sulfur protein interface; other site 630588003929 proximal quinone binding site [chemical binding]; other site 630588003930 SdhD (CybS) interface [polypeptide binding]; other site 630588003931 proximal heme binding site [chemical binding]; other site 630588003932 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 630588003933 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 630588003934 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 630588003935 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 630588003936 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 630588003937 catalytic triad [active] 630588003938 dimer interface [polypeptide binding]; other site 630588003939 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 630588003940 GSH binding site [chemical binding]; other site 630588003941 catalytic residues [active] 630588003942 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 630588003943 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 630588003944 THF binding site; other site 630588003945 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 630588003946 substrate binding site [chemical binding]; other site 630588003947 THF binding site; other site 630588003948 zinc-binding site [ion binding]; other site 630588003949 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 630588003950 FAD binding site [chemical binding]; other site 630588003951 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 630588003952 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 630588003953 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 630588003954 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 630588003955 Methyltransferase domain; Region: Methyltransf_23; pfam13489 630588003956 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 630588003957 S-adenosylmethionine binding site [chemical binding]; other site 630588003958 elongation factor P; Validated; Region: PRK00529 630588003959 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 630588003960 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 630588003961 RNA binding site [nucleotide binding]; other site 630588003962 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 630588003963 RNA binding site [nucleotide binding]; other site 630588003964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 630588003965 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 630588003966 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 630588003967 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 630588003968 TfoX N-terminal domain; Region: TfoX_N; cl17592 630588003969 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 630588003970 nucleoside/Zn binding site; other site 630588003971 dimer interface [polypeptide binding]; other site 630588003972 catalytic motif [active] 630588003973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 630588003974 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 630588003975 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 630588003976 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 630588003977 xanthine permease; Region: pbuX; TIGR03173 630588003978 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 630588003979 dihydrodipicolinate synthase; Region: dapA; TIGR00674 630588003980 dimer interface [polypeptide binding]; other site 630588003981 active site 630588003982 catalytic residue [active] 630588003983 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 630588003984 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 630588003985 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 630588003987 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 630588003988 Transposase; Region: DEDD_Tnp_IS110; pfam01548 630588003989 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 630588003990 Zonular occludens toxin (Zot); Region: Zot; cl17485 630588003991 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 630588003992 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 630588003993 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 630588003994 Replication initiation factor; Region: Rep_trans; pfam02486 630588003995 aspartate kinase; Reviewed; Region: PRK06635 630588003996 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 630588003997 putative nucleotide binding site [chemical binding]; other site 630588003998 putative catalytic residues [active] 630588003999 putative Mg ion binding site [ion binding]; other site 630588004000 putative aspartate binding site [chemical binding]; other site 630588004001 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 630588004002 putative allosteric regulatory site; other site 630588004003 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 630588004004 ribonuclease PH; Reviewed; Region: rph; PRK00173 630588004005 Ribonuclease PH; Region: RNase_PH_bact; cd11362 630588004006 hexamer interface [polypeptide binding]; other site 630588004007 active site 630588004008 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 630588004009 Ligand Binding Site [chemical binding]; other site 630588004010 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 630588004011 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 630588004012 putative ATP binding site [chemical binding]; other site 630588004013 putative substrate interface [chemical binding]; other site 630588004014 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 630588004015 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 630588004016 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 630588004017 active site 630588004018 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 630588004019 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 630588004020 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 630588004021 active site 630588004022 HIGH motif; other site 630588004023 KMSK motif region; other site 630588004024 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 630588004025 tRNA binding surface [nucleotide binding]; other site 630588004026 anticodon binding site; other site 630588004027 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 630588004028 Sulfatase; Region: Sulfatase; cl17466 630588004029 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 630588004030 dimer interface [polypeptide binding]; other site 630588004031 conserved gate region; other site 630588004032 putative PBP binding loops; other site 630588004033 ABC-ATPase subunit interface; other site 630588004034 Staphylococcal nuclease homologues; Region: SNc; smart00318 630588004035 Catalytic site; other site 630588004036 Staphylococcal nuclease homologue; Region: SNase; pfam00565 630588004037 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 630588004038 tetramer (dimer of dimers) interface [polypeptide binding]; other site 630588004039 active site 630588004040 dimer interface [polypeptide binding]; other site 630588004041 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 630588004042 homotrimer interaction site [polypeptide binding]; other site 630588004043 zinc binding site [ion binding]; other site 630588004044 CDP-binding sites; other site 630588004045 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 630588004046 substrate binding site; other site 630588004047 dimer interface; other site 630588004048 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 630588004049 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 630588004050 active site 630588004051 catalytic site [active] 630588004052 substrate binding site [chemical binding]; other site 630588004053 Major Facilitator Superfamily; Region: MFS_1; pfam07690 630588004054 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 630588004055 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 630588004056 propionate/acetate kinase; Provisional; Region: PRK12379 630588004057 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 630588004058 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 630588004059 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 630588004060 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 630588004061 DsbD alpha interface [polypeptide binding]; other site 630588004062 catalytic residues [active] 630588004063 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 630588004064 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 630588004065 active site lid residues [active] 630588004066 substrate binding pocket [chemical binding]; other site 630588004067 catalytic residues [active] 630588004068 substrate-Mg2+ binding site; other site 630588004069 aspartate-rich region 1; other site 630588004070 aspartate-rich region 2; other site 630588004071 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 630588004072 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 630588004073 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 630588004074 FAD binding domain; Region: FAD_binding_4; pfam01565 630588004076 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 630588004077 SmpB-tmRNA interface; other site 630588004078 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 630588004079 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 630588004080 putative active site [active] 630588004081 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 630588004082 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 630588004083 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 630588004084 DNA binding site [nucleotide binding] 630588004085 active site 630588004086 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 630588004087 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 630588004088 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 630588004089 metal binding site [ion binding]; metal-binding site 630588004090 dimer interface [polypeptide binding]; other site 630588004091 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 630588004092 Hemerythrin-like domain; Region: Hr-like; cd12108 630588004093 Fe binding site [ion binding]; other site 630588004094 Azurin [Energy production and conversion]; Region: COG3241 630588004095 Protein of unknown function (DUF721); Region: DUF721; pfam05258 630588004096 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 630588004097 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 630588004098 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 630588004099 SEC-C motif; Region: SEC-C; pfam02810 630588004100 DNA primase; Validated; Region: dnaG; PRK05667 630588004101 CHC2 zinc finger; Region: zf-CHC2; pfam01807 630588004102 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 630588004103 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 630588004104 active site 630588004105 metal binding site [ion binding]; metal-binding site 630588004106 interdomain interaction site; other site 630588004107 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 630588004108 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 630588004109 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 630588004110 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 630588004111 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 630588004112 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 630588004113 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 630588004114 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 630588004115 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 630588004116 DNA binding residues [nucleotide binding] 630588004117 Transposase domain (DUF772); Region: DUF772; pfam05598 630588004118 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588004119 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 630588004120 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 630588004121 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 630588004122 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 630588004123 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 630588004124 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 630588004125 CTP synthetase; Validated; Region: pyrG; PRK05380 630588004126 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 630588004127 Catalytic site [active] 630588004128 active site 630588004129 UTP binding site [chemical binding]; other site 630588004130 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 630588004131 active site 630588004132 putative oxyanion hole; other site 630588004133 catalytic triad [active] 630588004134 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 630588004135 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 630588004136 acyl-activating enzyme (AAE) consensus motif; other site 630588004137 putative AMP binding site [chemical binding]; other site 630588004138 putative active site [active] 630588004139 putative CoA binding site [chemical binding]; other site 630588004140 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 630588004141 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 630588004142 Ligand Binding Site [chemical binding]; other site 630588004143 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 630588004144 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 630588004145 glutathione synthetase; Provisional; Region: PRK05246 630588004146 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 630588004147 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 630588004148 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 630588004149 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 630588004150 active site 630588004151 HIGH motif; other site 630588004152 nucleotide binding site [chemical binding]; other site 630588004153 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 630588004154 KMSKS motif; other site 630588004155 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 630588004156 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 630588004157 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 630588004158 putative DNA binding site [nucleotide binding]; other site 630588004159 putative Zn2+ binding site [ion binding]; other site 630588004160 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 630588004161 Predicted membrane protein [Function unknown]; Region: COG2431 630588004162 Transcriptional regulators [Transcription]; Region: GntR; COG1802 630588004163 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 630588004164 DNA-binding site [nucleotide binding]; DNA binding site 630588004165 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 630588004166 OsmC-like protein; Region: OsmC; cl00767 630588004167 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 630588004168 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 630588004169 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 630588004170 active site 630588004171 substrate binding site [chemical binding]; other site 630588004172 cosubstrate binding site; other site 630588004173 catalytic site [active] 630588004174 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 630588004175 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 630588004176 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 630588004177 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 630588004178 multifunctional aminopeptidase A; Provisional; Region: PRK00913 630588004179 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 630588004180 interface (dimer of trimers) [polypeptide binding]; other site 630588004181 Substrate-binding/catalytic site; other site 630588004182 Zn-binding sites [ion binding]; other site 630588004183 Predicted permeases [General function prediction only]; Region: COG0795 630588004184 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 630588004185 Predicted permeases [General function prediction only]; Region: COG0795 630588004186 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 630588004187 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 630588004188 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 630588004189 substrate binding site [chemical binding]; other site 630588004190 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 630588004191 substrate binding site [chemical binding]; other site 630588004192 ligand binding site [chemical binding]; other site 630588004193 ornithine carbamoyltransferase; Validated; Region: PRK02102 630588004194 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 630588004195 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 630588004196 ketol-acid reductoisomerase; Provisional; Region: PRK05479 630588004197 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 630588004198 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 630588004199 Uncharacterized conserved protein [Function unknown]; Region: COG1359 630588004200 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 630588004201 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 630588004202 putative valine binding site [chemical binding]; other site 630588004203 dimer interface [polypeptide binding]; other site 630588004204 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 630588004205 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 630588004206 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 630588004207 PYR/PP interface [polypeptide binding]; other site 630588004208 dimer interface [polypeptide binding]; other site 630588004209 TPP binding site [chemical binding]; other site 630588004210 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 630588004211 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 630588004212 TPP-binding site [chemical binding]; other site 630588004213 dimer interface [polypeptide binding]; other site 630588004214 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 630588004215 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 630588004216 Cu(I) binding site [ion binding]; other site 630588004217 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 630588004218 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 630588004219 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 630588004220 GIY-YIG motif/motif A; other site 630588004221 putative active site [active] 630588004222 putative metal binding site [ion binding]; other site 630588004223 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 630588004224 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 630588004225 NAD binding site [chemical binding]; other site 630588004226 dimerization interface [polypeptide binding]; other site 630588004227 product binding site; other site 630588004228 substrate binding site [chemical binding]; other site 630588004229 zinc binding site [ion binding]; other site 630588004230 catalytic residues [active] 630588004231 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 630588004232 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 630588004233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588004234 homodimer interface [polypeptide binding]; other site 630588004235 catalytic residue [active] 630588004236 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 630588004237 putative active site pocket [active] 630588004238 4-fold oligomerization interface [polypeptide binding]; other site 630588004239 metal binding residues [ion binding]; metal-binding site 630588004240 3-fold/trimer interface [polypeptide binding]; other site 630588004241 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 630588004242 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 630588004243 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 630588004244 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 630588004245 putative inner membrane peptidase; Provisional; Region: PRK11778 630588004246 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 630588004247 tandem repeat interface [polypeptide binding]; other site 630588004248 oligomer interface [polypeptide binding]; other site 630588004249 active site residues [active] 630588004250 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 630588004251 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 630588004252 Cupin; Region: Cupin_6; pfam12852 630588004253 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 630588004254 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 630588004255 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 630588004256 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 630588004257 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 630588004258 EamA-like transporter family; Region: EamA; pfam00892 630588004259 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 630588004260 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 630588004261 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 630588004262 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 630588004263 motif 1; other site 630588004264 active site 630588004265 motif 2; other site 630588004266 motif 3; other site 630588004267 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 630588004268 DHHA1 domain; Region: DHHA1; pfam02272 630588004269 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 630588004270 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 630588004271 cofactor binding site; other site 630588004272 DNA binding site [nucleotide binding] 630588004273 substrate interaction site [chemical binding]; other site 630588004274 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 630588004275 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 630588004276 gating phenylalanine in ion channel; other site 630588004277 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 630588004278 catalytic core [active] 630588004279 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 630588004280 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 630588004281 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 630588004282 CAP-like domain; other site 630588004283 active site 630588004284 primary dimer interface [polypeptide binding]; other site 630588004286 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 630588004287 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 630588004288 active site 630588004289 phosphorylation site [posttranslational modification] 630588004290 intermolecular recognition site; other site 630588004291 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 630588004292 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 630588004293 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 630588004294 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 630588004295 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 630588004296 homodimer interface [polypeptide binding]; other site 630588004297 substrate-cofactor binding pocket; other site 630588004298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588004299 catalytic residue [active] 630588004300 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 630588004301 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 630588004302 substrate binding pocket [chemical binding]; other site 630588004303 membrane-bound complex binding site; other site 630588004304 hinge residues; other site 630588004305 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 630588004306 Fumarase C-terminus; Region: Fumerase_C; pfam05683 630588004307 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 630588004308 TrkA-N domain; Region: TrkA_N; pfam02254 630588004309 TrkA-C domain; Region: TrkA_C; pfam02080 630588004310 TrkA-N domain; Region: TrkA_N; pfam02254 630588004311 TrkA-C domain; Region: TrkA_C; pfam02080 630588004312 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 630588004313 dimer interface [polypeptide binding]; other site 630588004314 substrate binding site [chemical binding]; other site 630588004315 ATP binding site [chemical binding]; other site 630588004316 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 630588004317 tellurite resistance protein TehB; Provisional; Region: PRK12335 630588004318 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 630588004319 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 630588004320 RNA/DNA hybrid binding site [nucleotide binding]; other site 630588004321 active site 630588004322 HIT domain; Region: HIT; pfam01230 630588004323 HIT family signature motif; other site 630588004324 catalytic residue [active] 630588004325 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 630588004326 dimer interface [polypeptide binding]; other site 630588004327 catalytic triad [active] 630588004328 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 630588004329 catalytic residues [active] 630588004330 dimer interface [polypeptide binding]; other site 630588004331 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 630588004332 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 630588004333 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 630588004334 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 630588004335 Multicopper oxidase; Region: Cu-oxidase; pfam00394 630588004336 Uncharacterized conserved protein [Function unknown]; Region: COG1262 630588004337 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 630588004338 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 630588004339 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 630588004340 putative FMN binding site [chemical binding]; other site 630588004341 putative metal dependent hydrolase; Provisional; Region: PRK11598 630588004342 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 630588004343 Sulfatase; Region: Sulfatase; pfam00884 630588004344 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 630588004345 homodimer interface [polypeptide binding]; other site 630588004346 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 630588004347 substrate-cofactor binding pocket; other site 630588004348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588004349 catalytic residue [active] 630588004350 ribosome maturation protein RimP; Reviewed; Region: PRK00092 630588004351 Sm and related proteins; Region: Sm_like; cl00259 630588004352 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 630588004353 putative oligomer interface [polypeptide binding]; other site 630588004354 putative RNA binding site [nucleotide binding]; other site 630588004355 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 630588004356 NusA N-terminal domain; Region: NusA_N; pfam08529 630588004357 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 630588004358 RNA binding site [nucleotide binding]; other site 630588004359 homodimer interface [polypeptide binding]; other site 630588004360 NusA-like KH domain; Region: KH_5; pfam13184 630588004361 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 630588004362 G-X-X-G motif; other site 630588004363 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 630588004364 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 630588004365 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 630588004366 translation initiation factor IF-2; Region: IF-2; TIGR00487 630588004367 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 630588004368 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 630588004369 G1 box; other site 630588004370 putative GEF interaction site [polypeptide binding]; other site 630588004371 GTP/Mg2+ binding site [chemical binding]; other site 630588004372 Switch I region; other site 630588004373 G2 box; other site 630588004374 G3 box; other site 630588004375 Switch II region; other site 630588004376 G4 box; other site 630588004377 G5 box; other site 630588004378 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 630588004379 Translation-initiation factor 2; Region: IF-2; pfam11987 630588004380 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 630588004381 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 630588004382 G1 box; other site 630588004383 GTP/Mg2+ binding site [chemical binding]; other site 630588004384 G2 box; other site 630588004385 Switch I region; other site 630588004386 G3 box; other site 630588004387 Switch II region; other site 630588004388 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 630588004389 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 630588004390 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 630588004391 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 630588004392 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 630588004393 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 630588004394 hypothetical protein; Validated; Region: PRK00110 630588004395 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 630588004396 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 630588004397 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 630588004398 putative DNA binding site [nucleotide binding]; other site 630588004399 putative Zn2+ binding site [ion binding]; other site 630588004400 AsnC family; Region: AsnC_trans_reg; pfam01037 630588004401 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 630588004402 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 630588004403 active site 630588004404 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 630588004405 substrate binding site [chemical binding]; other site 630588004406 catalytic residues [active] 630588004407 dimer interface [polypeptide binding]; other site 630588004408 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 630588004409 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 630588004410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 630588004411 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 630588004412 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 630588004413 S-adenosylmethionine binding site [chemical binding]; other site 630588004414 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 630588004415 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 630588004416 comEA protein; Region: comE; TIGR01259 630588004417 Helix-hairpin-helix motif; Region: HHH; pfam00633 630588004418 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 630588004419 Flavoprotein; Region: Flavoprotein; pfam02441 630588004420 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 630588004421 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 630588004422 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 630588004423 Zn2+ binding site [ion binding]; other site 630588004424 Mg2+ binding site [ion binding]; other site 630588004425 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 630588004426 synthetase active site [active] 630588004427 NTP binding site [chemical binding]; other site 630588004428 metal binding site [ion binding]; metal-binding site 630588004429 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 630588004430 ACT domain; Region: ACT_4; pfam13291 630588004431 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 630588004432 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 630588004433 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 630588004434 catalytic site [active] 630588004435 G-X2-G-X-G-K; other site 630588004436 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 630588004437 active site 630588004438 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 630588004439 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 630588004440 active site 630588004441 motif I; other site 630588004442 motif II; other site 630588004443 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 630588004444 putative protease; Provisional; Region: PRK15452 630588004445 Peptidase family U32; Region: Peptidase_U32; pfam01136 630588004446 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 630588004447 putative active site [active] 630588004448 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 630588004449 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 630588004450 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 630588004451 N-terminal plug; other site 630588004452 ligand-binding site [chemical binding]; other site 630588004453 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 630588004454 heme binding pocket [chemical binding]; other site 630588004455 heme ligand [chemical binding]; other site 630588004456 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 630588004457 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 630588004458 Paraquat-inducible protein A; Region: PqiA; pfam04403 630588004459 Paraquat-inducible protein A; Region: PqiA; pfam04403 630588004460 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 630588004461 mce related protein; Region: MCE; pfam02470 630588004462 mce related protein; Region: MCE; pfam02470 630588004463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 630588004464 Protein of unknown function (DUF330); Region: DUF330; pfam03886 630588004465 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 630588004466 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 630588004467 active site 630588004468 catalytic triad [active] 630588004469 oxyanion hole [active] 630588004470 switch loop; other site 630588004472 glycine dehydrogenase; Provisional; Region: PRK05367 630588004473 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 630588004474 tetramer interface [polypeptide binding]; other site 630588004475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588004476 catalytic residue [active] 630588004477 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 630588004478 tetramer interface [polypeptide binding]; other site 630588004479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588004480 catalytic residue [active] 630588004481 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 630588004482 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 630588004483 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 630588004484 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 630588004485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588004486 homodimer interface [polypeptide binding]; other site 630588004487 catalytic residue [active] 630588004488 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 630588004489 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 630588004490 S-adenosylmethionine binding site [chemical binding]; other site 630588004491 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 630588004492 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 630588004493 Tetramer interface [polypeptide binding]; other site 630588004494 active site 630588004495 FMN-binding site [chemical binding]; other site 630588004496 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 630588004497 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 630588004498 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 630588004499 ATP binding site [chemical binding]; other site 630588004500 Mg2+ binding site [ion binding]; other site 630588004501 G-X-G motif; other site 630588004502 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 630588004503 anchoring element; other site 630588004504 dimer interface [polypeptide binding]; other site 630588004505 ATP binding site [chemical binding]; other site 630588004506 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 630588004507 active site 630588004508 metal binding site [ion binding]; metal-binding site 630588004509 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 630588004510 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 630588004511 putative active site [active] 630588004512 Ap4A binding site [chemical binding]; other site 630588004513 nudix motif; other site 630588004514 putative metal binding site [ion binding]; other site 630588004515 seryl-tRNA synthetase; Provisional; Region: PRK05431 630588004516 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 630588004517 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 630588004518 dimer interface [polypeptide binding]; other site 630588004519 active site 630588004520 motif 1; other site 630588004521 motif 2; other site 630588004522 motif 3; other site 630588004523 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 630588004524 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 630588004525 putative ligand binding site [chemical binding]; other site 630588004526 putative NAD binding site [chemical binding]; other site 630588004527 catalytic site [active] 630588004528 peptide chain release factor 1; Validated; Region: prfA; PRK00591 630588004529 This domain is found in peptide chain release factors; Region: PCRF; smart00937 630588004530 RF-1 domain; Region: RF-1; pfam00472 630588004531 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 630588004532 active site 630588004533 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 630588004534 active site 630588004535 homodimer interface [polypeptide binding]; other site 630588004536 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 630588004537 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 630588004538 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 630588004539 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 630588004540 active site 630588004541 substrate binding site [chemical binding]; other site 630588004542 metal binding site [ion binding]; metal-binding site 630588004543 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 630588004544 dihydropteroate synthase; Region: DHPS; TIGR01496 630588004545 substrate binding pocket [chemical binding]; other site 630588004546 dimer interface [polypeptide binding]; other site 630588004547 inhibitor binding site; inhibition site 630588004548 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 630588004549 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 630588004550 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 630588004551 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 630588004552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 630588004553 Predicted membrane protein [Function unknown]; Region: COG4648 630588004554 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 630588004555 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 630588004556 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 630588004557 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 630588004558 dimer interface [polypeptide binding]; other site 630588004559 active site 630588004560 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 630588004561 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 630588004562 putative metal binding site; other site 630588004563 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 630588004564 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 630588004565 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 630588004566 Na2 binding site [ion binding]; other site 630588004567 putative substrate binding site 1 [chemical binding]; other site 630588004568 Na binding site 1 [ion binding]; other site 630588004569 putative substrate binding site 2 [chemical binding]; other site 630588004570 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 630588004571 ApbE family; Region: ApbE; pfam02424 630588004572 thymidylate synthase; Reviewed; Region: thyA; PRK01827 630588004573 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 630588004574 dimerization interface [polypeptide binding]; other site 630588004575 active site 630588004576 glutamate dehydrogenase; Provisional; Region: PRK09414 630588004577 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 630588004578 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 630588004579 NAD(P) binding site [chemical binding]; other site 630588004580 Transcriptional regulators [Transcription]; Region: FadR; COG2186 630588004581 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 630588004582 DNA-binding site [nucleotide binding]; DNA binding site 630588004583 FCD domain; Region: FCD; pfam07729 630588004584 L-lactate permease; Region: Lactate_perm; cl00701 630588004585 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 630588004586 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 630588004587 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 630588004588 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 630588004589 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 630588004590 HlyD family secretion protein; Region: HlyD_3; pfam13437 630588004591 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 630588004592 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 630588004593 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 630588004594 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 630588004595 AbgT putative transporter family; Region: ABG_transport; pfam03806 630588004596 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 630588004597 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 630588004598 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 630588004599 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 630588004600 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 630588004602 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 630588004603 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 630588004604 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 630588004605 Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]; Region: CcoQ; COG4736 630588004606 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 630588004607 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 630588004608 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 630588004609 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 630588004610 Low-spin heme binding site [chemical binding]; other site 630588004611 Putative water exit pathway; other site 630588004612 Binuclear center (active site) [active] 630588004613 Putative proton exit pathway; other site 630588004614 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 630588004615 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 630588004616 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 630588004617 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 630588004618 protein binding site [polypeptide binding]; other site 630588004619 TIGR01244 family protein; Region: TIGR01244 630588004620 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 630588004621 TolR protein; Region: tolR; TIGR02801 630588004622 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 630588004623 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 630588004624 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 630588004625 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 630588004626 Peptidase family M50; Region: Peptidase_M50; pfam02163 630588004627 active site 630588004628 putative substrate binding region [chemical binding]; other site 630588004629 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 630588004630 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 630588004631 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 630588004632 C-terminal domain interface [polypeptide binding]; other site 630588004633 GSH binding site (G-site) [chemical binding]; other site 630588004634 catalytic residues [active] 630588004635 putative dimer interface [polypeptide binding]; other site 630588004636 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 630588004637 N-terminal domain interface [polypeptide binding]; other site 630588004638 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 630588004639 HD domain; Region: HD_4; pfam13328 630588004640 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 630588004641 synthetase active site [active] 630588004642 NTP binding site [chemical binding]; other site 630588004643 metal binding site [ion binding]; metal-binding site 630588004644 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 630588004645 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 630588004646 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 630588004647 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 630588004648 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 630588004649 HlyD family secretion protein; Region: HlyD_3; pfam13437 630588004650 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 630588004652 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 630588004653 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 630588004654 Zonular occludens toxin (Zot); Region: Zot; pfam05707 630588004655 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 630588004656 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 630588004657 Transposase; Region: DEDD_Tnp_IS110; pfam01548 630588004658 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 630588004659 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 630588004660 Fic family protein [Function unknown]; Region: COG3177 630588004661 Fic/DOC family; Region: Fic; pfam02661 630588004662 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 630588004663 HipA N-terminal domain; Region: Couple_hipA; pfam13657 630588004664 HipA-like N-terminal domain; Region: HipA_N; pfam07805 630588004665 HipA-like C-terminal domain; Region: HipA_C; pfam07804 630588004666 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 630588004667 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 630588004668 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 630588004669 ACP:hemolysin acyltransferase (hemolysin-activating protein) [Posttranslational modification, protein turnover, chaperones]; Region: HlyC; COG2994 630588004670 Transposase domain (DUF772); Region: DUF772; pfam05598 630588004671 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588004672 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 630588004673 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 630588004674 haemagglutination activity domain; Region: Haemagg_act; pfam05860 630588004675 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588004676 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 630588004677 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 630588004678 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 630588004679 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588004680 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 630588004681 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588004682 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 630588004683 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588004684 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 630588004685 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588004686 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 630588004687 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 630588004688 haemagglutination activity domain; Region: Haemagg_act; pfam05860 630588004689 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 630588004690 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 630588004691 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 630588004692 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 630588004693 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 630588004695 Uncharacterized conserved protein [Function unknown]; Region: COG2850 630588004696 Cupin-like domain; Region: Cupin_8; pfam13621 630588004697 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 630588004698 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 630588004699 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 630588004700 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 630588004701 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 630588004702 generic binding surface II; other site 630588004703 ssDNA binding site; other site 630588004704 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 630588004705 ATP binding site [chemical binding]; other site 630588004706 putative Mg++ binding site [ion binding]; other site 630588004707 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 630588004708 nucleotide binding region [chemical binding]; other site 630588004709 ATP-binding site [chemical binding]; other site 630588004710 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 630588004711 SecA binding site; other site 630588004712 Preprotein binding site; other site 630588004713 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 630588004714 GSH binding site [chemical binding]; other site 630588004715 catalytic residues [active] 630588004716 ribonuclease G; Provisional; Region: PRK11712 630588004717 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 630588004718 homodimer interface [polypeptide binding]; other site 630588004719 oligonucleotide binding site [chemical binding]; other site 630588004720 sensor protein QseC; Provisional; Region: PRK10337 630588004721 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 630588004722 dimer interface [polypeptide binding]; other site 630588004723 phosphorylation site [posttranslational modification] 630588004724 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 630588004725 ATP binding site [chemical binding]; other site 630588004726 Mg2+ binding site [ion binding]; other site 630588004727 G-X-G motif; other site 630588004728 cheY-homologous receiver domain; Region: REC; smart00448 630588004729 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 630588004730 Citrate transporter; Region: CitMHS; pfam03600 630588004731 Predicted flavoprotein [General function prediction only]; Region: COG0431 630588004732 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 630588004733 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 630588004734 S-adenosylmethionine synthetase; Validated; Region: PRK05250 630588004735 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 630588004736 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 630588004737 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 630588004738 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 630588004739 putative acyl-acceptor binding pocket; other site 630588004740 UGMP family protein; Validated; Region: PRK09604 630588004741 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 630588004742 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 630588004743 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 630588004744 ResB-like family; Region: ResB; pfam05140 630588004745 Cytochrome c553 [Energy production and conversion]; Region: COG2863 630588004746 Cytochrome c; Region: Cytochrom_C; cl11414 630588004747 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 630588004748 G1 box; other site 630588004749 GTP/Mg2+ binding site [chemical binding]; other site 630588004750 Switch I region; other site 630588004751 G2 box; other site 630588004752 G3 box; other site 630588004753 Switch II region; other site 630588004754 G4 box; other site 630588004755 G5 box; other site 630588004756 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 630588004757 Transglycosylase; Region: Transgly; pfam00912 630588004758 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 630588004759 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 630588004760 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 630588004761 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 630588004762 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 630588004763 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 630588004764 Pilus assembly protein, PilP; Region: PilP; pfam04351 630588004765 AMIN domain; Region: AMIN; pfam11741 630588004766 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 630588004767 Secretin and TonB N terminus short domain; Region: STN; pfam07660 630588004768 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 630588004769 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 630588004770 shikimate kinase; Reviewed; Region: aroK; PRK00131 630588004771 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 630588004772 ADP binding site [chemical binding]; other site 630588004773 magnesium binding site [ion binding]; other site 630588004774 putative shikimate binding site; other site 630588004775 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 630588004776 active site 630588004777 dimer interface [polypeptide binding]; other site 630588004778 metal binding site [ion binding]; metal-binding site 630588004779 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 630588004780 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 630588004781 putative active site [active] 630588004782 putative dimer interface [polypeptide binding]; other site 630588004783 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 630588004784 ATP cone domain; Region: ATP-cone; pfam03477 630588004785 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 630588004786 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 630588004787 catalytic motif [active] 630588004788 Zn binding site [ion binding]; other site 630588004789 RibD C-terminal domain; Region: RibD_C; cl17279 630588004790 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 630588004791 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 630588004792 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 630588004793 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 630588004794 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 630588004795 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 630588004796 Bacterial sugar transferase; Region: Bac_transf; pfam02397 630588004797 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 630588004798 ATP-grasp domain; Region: ATP-grasp_4; cl17255 630588004799 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 630588004800 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 630588004801 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 630588004802 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 630588004803 inhibitor-cofactor binding pocket; inhibition site 630588004804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588004805 catalytic residue [active] 630588004806 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 630588004807 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 630588004808 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 630588004809 NAD(P) binding site [chemical binding]; other site 630588004810 homodimer interface [polypeptide binding]; other site 630588004811 substrate binding site [chemical binding]; other site 630588004812 active site 630588004813 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]; Region: COG3977 630588004814 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 630588004815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588004816 homodimer interface [polypeptide binding]; other site 630588004817 catalytic residue [active] 630588004818 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 630588004819 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 630588004820 active site 630588004821 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 630588004822 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 630588004823 RNA binding surface [nucleotide binding]; other site 630588004824 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 630588004825 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 630588004826 putative active site [active] 630588004827 putative PHP Thumb interface [polypeptide binding]; other site 630588004828 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 630588004829 generic binding surface II; other site 630588004830 generic binding surface I; other site 630588004831 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 630588004832 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 630588004833 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 630588004834 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 630588004835 N-terminal plug; other site 630588004836 ligand-binding site [chemical binding]; other site 630588004837 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 630588004838 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 630588004839 motif II; other site 630588004840 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 630588004841 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 630588004842 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 630588004843 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 630588004844 lipoprotein signal peptidase; Provisional; Region: PRK14787 630588004845 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 630588004846 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 630588004847 active site 630588004848 HIGH motif; other site 630588004849 nucleotide binding site [chemical binding]; other site 630588004850 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 630588004851 active site 630588004852 KMSKS motif; other site 630588004853 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 630588004854 tRNA binding surface [nucleotide binding]; other site 630588004855 anticodon binding site; other site 630588004856 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 630588004857 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 630588004858 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 630588004859 active site 630588004860 Riboflavin kinase; Region: Flavokinase; smart00904 630588004861 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 630588004862 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 630588004863 active site 630588004864 HIGH motif; other site 630588004865 dimer interface [polypeptide binding]; other site 630588004866 KMSKS motif; other site 630588004867 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 630588004868 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 630588004869 catalytic triad [active] 630588004870 GTP-binding protein YchF; Reviewed; Region: PRK09601 630588004871 YchF GTPase; Region: YchF; cd01900 630588004872 G1 box; other site 630588004873 GTP/Mg2+ binding site [chemical binding]; other site 630588004874 Switch I region; other site 630588004875 G2 box; other site 630588004876 Switch II region; other site 630588004877 G3 box; other site 630588004878 G4 box; other site 630588004879 G5 box; other site 630588004880 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 630588004881 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 630588004882 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 630588004883 Potassium binding sites [ion binding]; other site 630588004884 Cesium cation binding sites [ion binding]; other site 630588004885 Predicted membrane protein [Function unknown]; Region: COG2510 630588004886 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 630588004887 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 630588004888 Substrate binding site; other site 630588004889 metal-binding site 630588004890 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 630588004891 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 630588004892 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 630588004893 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 630588004894 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 630588004895 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 630588004896 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 630588004898 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 630588004899 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 630588004900 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 630588004901 catalytic site [active] 630588004902 subunit interface [polypeptide binding]; other site 630588004903 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 630588004904 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 630588004905 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 630588004906 putative active site [active] 630588004907 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 630588004908 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 630588004909 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 630588004910 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 630588004911 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 630588004912 ATP-grasp domain; Region: ATP-grasp_4; cl17255 630588004913 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 630588004914 IMP binding site; other site 630588004915 dimer interface [polypeptide binding]; other site 630588004916 interdomain contacts; other site 630588004917 partial ornithine binding site; other site 630588004918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 630588004919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 630588004920 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 630588004921 putative effector binding pocket; other site 630588004922 dimerization interface [polypeptide binding]; other site 630588004923 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 630588004924 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 630588004925 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 630588004926 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 630588004927 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 630588004928 carboxyltransferase (CT) interaction site; other site 630588004929 biotinylation site [posttranslational modification]; other site 630588004930 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 630588004931 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 630588004932 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 630588004933 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 630588004934 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 630588004935 DNA methylase; Region: N6_N4_Mtase; cl17433 630588004936 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 630588004937 S-adenosylmethionine binding site [chemical binding]; other site 630588004938 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 630588004939 catalytic site [active] 630588004940 putative active site [active] 630588004941 putative substrate binding site [chemical binding]; other site 630588004942 dimer interface [polypeptide binding]; other site 630588004943 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 630588004944 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 630588004945 inhibitor-cofactor binding pocket; inhibition site 630588004946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588004947 catalytic residue [active] 630588004948 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 630588004949 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 630588004950 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 630588004951 FeS/SAM binding site; other site 630588004952 TRAM domain; Region: TRAM; pfam01938 630588004953 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 630588004954 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 630588004955 TPP-binding site; other site 630588004956 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 630588004957 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 630588004958 PYR/PP interface [polypeptide binding]; other site 630588004959 dimer interface [polypeptide binding]; other site 630588004960 TPP binding site [chemical binding]; other site 630588004961 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 630588004962 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 630588004963 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 630588004964 active site 630588004965 Int/Topo IB signature motif; other site 630588004966 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 630588004967 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 630588004968 intersubunit interface [polypeptide binding]; other site 630588004969 active site 630588004970 zinc binding site [ion binding]; other site 630588004971 Na+ binding site [ion binding]; other site 630588004972 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 630588004973 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 630588004974 Glycoprotease family; Region: Peptidase_M22; pfam00814 630588004975 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 630588004976 Coenzyme A binding pocket [chemical binding]; other site 630588004977 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 630588004978 active site 630588004979 Fe-S cluster binding site [ion binding]; other site 630588004980 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 630588004981 active site 630588004982 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 630588004983 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 630588004984 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 630588004985 putative feedback inhibition sensing region; other site 630588004986 putative nucleotide binding site [chemical binding]; other site 630588004987 putative substrate binding site [chemical binding]; other site 630588004988 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 630588004989 Coenzyme A binding pocket [chemical binding]; other site 630588004990 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 630588004991 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 630588004992 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 630588004993 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 630588004994 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 630588004995 putative ligand binding residues [chemical binding]; other site 630588004996 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 630588004997 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 630588004998 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 630588004999 N-terminal plug; other site 630588005000 ligand-binding site [chemical binding]; other site 630588005001 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 630588005002 active site residue [active] 630588005003 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 630588005004 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 630588005005 S-adenosylmethionine binding site [chemical binding]; other site 630588005006 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 630588005007 triosephosphate isomerase; Provisional; Region: PRK14567 630588005008 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 630588005009 substrate binding site [chemical binding]; other site 630588005010 dimer interface [polypeptide binding]; other site 630588005011 catalytic triad [active] 630588005012 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 630588005013 Predicted transcriptional regulator [Transcription]; Region: COG2944 630588005014 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 630588005015 non-specific DNA binding site [nucleotide binding]; other site 630588005016 salt bridge; other site 630588005017 sequence-specific DNA binding site [nucleotide binding]; other site 630588005018 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 630588005019 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 630588005020 Dam-replacing family; Region: DRP; pfam06044 630588005021 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 630588005022 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 630588005023 HIGH motif; other site 630588005024 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 630588005025 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 630588005026 active site 630588005027 KMSKS motif; other site 630588005028 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 630588005029 tRNA binding surface [nucleotide binding]; other site 630588005030 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 630588005031 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 630588005032 polyphosphate kinase; Provisional; Region: PRK05443 630588005033 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 630588005034 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 630588005035 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 630588005036 putative domain interface [polypeptide binding]; other site 630588005037 putative active site [active] 630588005038 catalytic site [active] 630588005039 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 630588005040 putative domain interface [polypeptide binding]; other site 630588005041 putative active site [active] 630588005042 catalytic site [active] 630588005043 DNA polymerase III subunit beta; Validated; Region: PRK05643 630588005044 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 630588005045 putative DNA binding surface [nucleotide binding]; other site 630588005046 dimer interface [polypeptide binding]; other site 630588005047 beta-clamp/clamp loader binding surface; other site 630588005048 beta-clamp/translesion DNA polymerase binding surface; other site 630588005049 DnaA N-terminal domain; Region: DnaA_N; pfam11638 630588005050 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 630588005051 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 630588005052 Walker A motif; other site 630588005053 ATP binding site [chemical binding]; other site 630588005054 Walker B motif; other site 630588005055 arginine finger; other site 630588005056 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 630588005057 DnaA box-binding interface [nucleotide binding]; other site 630588005058 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 630588005059 ribonuclease P; Reviewed; Region: rnpA; PRK04390 630588005060 hypothetical protein; Provisional; Region: PRK14373 630588005061 membrane protein insertase; Provisional; Region: PRK01318 630588005062 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 630588005063 Predicted methyltransferases [General function prediction only]; Region: COG0313 630588005064 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 630588005065 putative SAM binding site [chemical binding]; other site 630588005066 homodimer interface [polypeptide binding]; other site 630588005067 Maf-like protein; Region: Maf; pfam02545 630588005068 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 630588005069 active site 630588005070 dimer interface [polypeptide binding]; other site 630588005071 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 630588005072 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 630588005073 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 630588005074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 630588005075 active site 630588005076 putative phosphate acyltransferase; Provisional; Region: PRK05331 630588005077 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 630588005078 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 630588005079 dimer interface [polypeptide binding]; other site 630588005080 active site 630588005081 CoA binding pocket [chemical binding]; other site 630588005082 Predicted membrane protein [Function unknown]; Region: COG3326 630588005083 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 630588005084 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 630588005085 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 630588005086 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 630588005087 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 630588005088 Walker A/P-loop; other site 630588005089 ATP binding site [chemical binding]; other site 630588005090 Q-loop/lid; other site 630588005091 ABC transporter signature motif; other site 630588005092 Walker B; other site 630588005093 D-loop; other site 630588005094 H-loop/switch region; other site 630588005095 GMP synthase; Reviewed; Region: guaA; PRK00074 630588005096 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 630588005097 AMP/PPi binding site [chemical binding]; other site 630588005098 candidate oxyanion hole; other site 630588005099 catalytic triad [active] 630588005100 potential glutamine specificity residues [chemical binding]; other site 630588005101 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 630588005102 ATP Binding subdomain [chemical binding]; other site 630588005103 Ligand Binding sites [chemical binding]; other site 630588005104 Dimerization subdomain; other site 630588005105 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 630588005106 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 630588005107 NAD(P) binding site [chemical binding]; other site 630588005108 homotetramer interface [polypeptide binding]; other site 630588005109 homodimer interface [polypeptide binding]; other site 630588005110 active site 630588005111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 630588005112 Transposase domain (DUF772); Region: DUF772; pfam05598 630588005113 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588005114 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 630588005115 hypothetical protein; Provisional; Region: PRK01752 630588005116 SEC-C motif; Region: SEC-C; pfam02810 630588005117 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 630588005118 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 630588005119 active site 630588005120 RNA methyltransferase, RsmE family; Region: TIGR00046 630588005121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 630588005122 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 630588005123 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 630588005124 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 630588005125 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 630588005126 active site 630588005127 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 630588005128 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 630588005129 Ligand binding site; other site 630588005130 metal-binding site 630588005131 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 630588005132 active site 630588005133 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 630588005134 DALR anticodon binding domain; Region: DALR_1; pfam05746 630588005135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3171 630588005136 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 630588005137 dimer interface [polypeptide binding]; other site 630588005138 motif 1; other site 630588005139 active site 630588005140 motif 2; other site 630588005141 motif 3; other site 630588005142 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 630588005143 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 630588005144 gamma subunit interface [polypeptide binding]; other site 630588005145 epsilon subunit interface [polypeptide binding]; other site 630588005146 LBP interface [polypeptide binding]; other site 630588005147 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 630588005148 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 630588005149 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 630588005150 alpha subunit interaction interface [polypeptide binding]; other site 630588005151 Walker A motif; other site 630588005152 ATP binding site [chemical binding]; other site 630588005153 Walker B motif; other site 630588005154 inhibitor binding site; inhibition site 630588005155 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 630588005156 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 630588005157 core domain interface [polypeptide binding]; other site 630588005158 delta subunit interface [polypeptide binding]; other site 630588005159 epsilon subunit interface [polypeptide binding]; other site 630588005160 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 630588005161 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 630588005162 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 630588005163 beta subunit interaction interface [polypeptide binding]; other site 630588005164 Walker A motif; other site 630588005165 ATP binding site [chemical binding]; other site 630588005166 Walker B motif; other site 630588005167 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 630588005168 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 630588005169 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 630588005170 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 630588005171 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 630588005172 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 630588005173 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 630588005174 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 630588005175 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 630588005176 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 630588005177 ParB-like nuclease domain; Region: ParBc; pfam02195 630588005178 KorB domain; Region: KorB; pfam08535 630588005179 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 630588005180 Flavoprotein; Region: Flavoprotein; pfam02441 630588005181 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 630588005182 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 630588005183 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 630588005184 dimer interface [polypeptide binding]; other site 630588005185 conserved gate region; other site 630588005186 ABC-ATPase subunit interface; other site 630588005187 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 630588005188 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 630588005189 Walker A/P-loop; other site 630588005190 ATP binding site [chemical binding]; other site 630588005191 Q-loop/lid; other site 630588005192 ABC transporter signature motif; other site 630588005193 Walker B; other site 630588005194 D-loop; other site 630588005195 H-loop/switch region; other site 630588005196 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 630588005197 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 630588005198 N-acetyl-D-glucosamine binding site [chemical binding]; other site 630588005199 catalytic residue [active] 630588005200 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 630588005201 Uncharacterized conserved protein [Function unknown]; Region: COG1610 630588005202 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 630588005203 stringent starvation protein A; Provisional; Region: sspA; PRK09481 630588005204 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 630588005205 C-terminal domain interface [polypeptide binding]; other site 630588005206 putative GSH binding site (G-site) [chemical binding]; other site 630588005207 dimer interface [polypeptide binding]; other site 630588005208 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 630588005209 dimer interface [polypeptide binding]; other site 630588005210 N-terminal domain interface [polypeptide binding]; other site 630588005211 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 630588005212 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 630588005213 Cadmium resistance transporter; Region: Cad; pfam03596 630588005214 ribosomal protein L31; Region: L31; TIGR00105 630588005215 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 630588005216 putative trimer interface [polypeptide binding]; other site 630588005217 putative CoA binding site [chemical binding]; other site 630588005218 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 630588005219 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 630588005220 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 630588005221 catalytic residues [active] 630588005222 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 630588005223 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 630588005224 anti sigma factor interaction site; other site 630588005225 regulatory phosphorylation site [posttranslational modification]; other site 630588005226 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 630588005227 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 630588005228 mce related protein; Region: MCE; pfam02470 630588005229 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 630588005230 Permease; Region: Permease; pfam02405 630588005231 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 630588005232 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 630588005233 Walker A/P-loop; other site 630588005234 ATP binding site [chemical binding]; other site 630588005235 Q-loop/lid; other site 630588005236 ABC transporter signature motif; other site 630588005237 Walker B; other site 630588005238 D-loop; other site 630588005239 H-loop/switch region; other site 630588005241 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 630588005242 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 630588005243 NAD binding site [chemical binding]; other site 630588005244 catalytic residues [active] 630588005245 substrate binding site [chemical binding]; other site 630588005247 aminodeoxychorismate synthase; Provisional; Region: PRK07508 630588005248 chorismate binding enzyme; Region: Chorismate_bind; cl10555 630588005249 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 630588005250 homodimer interface [polypeptide binding]; other site 630588005251 substrate-cofactor binding pocket; other site 630588005252 Aminotransferase class IV; Region: Aminotran_4; pfam01063 630588005253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 630588005254 catalytic residue [active] 630588005255 Protein of unknown function (DUF560); Region: DUF560; pfam04575 630588005256 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 630588005257 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 630588005258 N-terminal plug; other site 630588005259 ligand-binding site [chemical binding]; other site 630588005260 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 630588005261 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 630588005262 ring oligomerisation interface [polypeptide binding]; other site 630588005263 ATP/Mg binding site [chemical binding]; other site 630588005264 stacking interactions; other site 630588005265 hinge regions; other site 630588005266 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 630588005267 oligomerisation interface [polypeptide binding]; other site 630588005268 mobile loop; other site 630588005269 roof hairpin; other site 630588005270 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 630588005271 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 630588005272 Na2 binding site [ion binding]; other site 630588005273 putative substrate binding site 1 [chemical binding]; other site 630588005274 Na binding site 1 [ion binding]; other site 630588005275 putative substrate binding site 2 [chemical binding]; other site 630588005276 diaminopimelate decarboxylase; Region: lysA; TIGR01048 630588005277 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 630588005278 active site 630588005279 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 630588005280 substrate binding site [chemical binding]; other site 630588005281 catalytic residues [active] 630588005282 dimer interface [polypeptide binding]; other site 630588005283 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 630588005284 putative iron binding site [ion binding]; other site 630588005285 conserved hypothetical integral membrane protein; Region: TIGR00698 630588005286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 630588005287 S-ribosylhomocysteinase; Provisional; Region: PRK02260 630588005288 DNA polymerase I; Provisional; Region: PRK05755 630588005289 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 630588005290 active site 630588005291 metal binding site 1 [ion binding]; metal-binding site 630588005292 putative 5' ssDNA interaction site; other site 630588005293 metal binding site 3; metal-binding site 630588005294 metal binding site 2 [ion binding]; metal-binding site 630588005295 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 630588005296 putative DNA binding site [nucleotide binding]; other site 630588005297 putative metal binding site [ion binding]; other site 630588005298 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 630588005299 active site 630588005300 catalytic site [active] 630588005301 substrate binding site [chemical binding]; other site 630588005302 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 630588005303 active site 630588005304 DNA binding site [nucleotide binding] 630588005305 catalytic site [active] 630588005306 Fic/DOC family; Region: Fic; pfam02661 630588005307 Transposase domain (DUF772); Region: DUF772; pfam05598 630588005308 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588005309 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 630588005310 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 630588005311 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 630588005312 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 630588005313 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 630588005314 Autotransporter beta-domain; Region: Autotransporter; pfam03797 630588005315 Predicted membrane protein [Function unknown]; Region: COG5346 630588005316 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 630588005317 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 630588005318 trmE is a tRNA modification GTPase; Region: trmE; cd04164 630588005319 G1 box; other site 630588005320 GTP/Mg2+ binding site [chemical binding]; other site 630588005321 Switch I region; other site 630588005322 G2 box; other site 630588005323 Switch II region; other site 630588005324 G3 box; other site 630588005325 G4 box; other site 630588005326 G5 box; other site 630588005327 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 630588005328 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 630588005329 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 630588005330 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 630588005331 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 630588005332 putative ligand binding residues [chemical binding]; other site 630588005333 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 630588005334 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 630588005335 ABC-ATPase subunit interface; other site 630588005336 dimer interface [polypeptide binding]; other site 630588005337 putative PBP binding regions; other site 630588005338 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 630588005339 ABC-ATPase subunit interface; other site 630588005340 dimer interface [polypeptide binding]; other site 630588005341 putative PBP binding regions; other site 630588005342 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 630588005343 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 630588005344 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 630588005345 Walker A/P-loop; other site 630588005346 ATP binding site [chemical binding]; other site 630588005347 Q-loop/lid; other site 630588005348 ABC transporter signature motif; other site 630588005349 Walker B; other site 630588005350 D-loop; other site 630588005351 H-loop/switch region; other site 630588005352 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 630588005353 Nitrogen regulatory protein P-II; Region: P-II; smart00938 630588005354 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 630588005355 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 630588005356 dimerization interface [polypeptide binding]; other site 630588005357 ATP binding site [chemical binding]; other site 630588005358 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 630588005359 dimerization interface [polypeptide binding]; other site 630588005360 ATP binding site [chemical binding]; other site 630588005361 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 630588005362 putative active site [active] 630588005363 catalytic triad [active] 630588005364 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 630588005365 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 630588005366 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 630588005367 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 630588005368 Autotransporter beta-domain; Region: Autotransporter; pfam03797 630588005369 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 630588005370 MgtE intracellular N domain; Region: MgtE_N; smart00924 630588005371 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 630588005372 Divalent cation transporter; Region: MgtE; pfam01769 630588005373 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 630588005374 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 630588005375 dimerization interface [polypeptide binding]; other site 630588005376 domain crossover interface; other site 630588005377 redox-dependent activation switch; other site 630588005378 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 630588005379 NlpC/P60 family; Region: NLPC_P60; pfam00877 630588005380 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 630588005381 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 630588005382 heterotetramer interface [polypeptide binding]; other site 630588005383 active site pocket [active] 630588005384 cleavage site 630588005385 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 630588005386 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 630588005387 putative ion selectivity filter; other site 630588005388 putative pore gating glutamate residue; other site 630588005389 putative H+/Cl- coupling transport residue; other site 630588005390 DEAD-like helicases superfamily; Region: DEXDc; smart00487 630588005391 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 630588005392 ATP binding site [chemical binding]; other site 630588005393 putative Mg++ binding site [ion binding]; other site 630588005394 nucleotide binding region [chemical binding]; other site 630588005395 helicase superfamily c-terminal domain; Region: HELICc; smart00490 630588005396 ATP-binding site [chemical binding]; other site 630588005397 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 630588005398 Sulfatase; Region: Sulfatase; pfam00884 630588005399 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 630588005400 Helicase associated domain (HA2); Region: HA2; pfam04408 630588005401 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 630588005402 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 630588005403 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 630588005404 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 630588005405 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 630588005406 Walker A motif; other site 630588005407 ATP binding site [chemical binding]; other site 630588005408 Walker B motif; other site 630588005409 arginine finger; other site 630588005410 hypothetical protein; Provisional; Region: yieM; PRK10997 630588005411 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 630588005412 metal ion-dependent adhesion site (MIDAS); other site 630588005413 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 630588005414 comEA protein; Region: comE; TIGR01259 630588005415 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 630588005416 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 630588005417 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 630588005418 active site 630588005419 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 630588005420 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 630588005421 active site 630588005422 (T/H)XGH motif; other site 630588005423 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 630588005424 YccA-like proteins; Region: YccA_like; cd10433 630588005425 oxidative damage protection protein; Provisional; Region: PRK05408 630588005426 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 630588005427 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 630588005428 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 630588005429 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 630588005430 active site 630588005431 (T/H)XGH motif; other site 630588005432 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 630588005433 active site clefts [active] 630588005434 zinc binding site [ion binding]; other site 630588005435 dimer interface [polypeptide binding]; other site 630588005436 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 630588005437 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 630588005438 dimer interface [polypeptide binding]; other site 630588005439 conserved gate region; other site 630588005440 ABC-ATPase subunit interface; other site 630588005441 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 630588005442 ABC-ATPase subunit interface; other site 630588005443 putative PBP binding loops; other site 630588005444 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 630588005445 fructuronate transporter; Provisional; Region: PRK10034; cl15264 630588005446 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 630588005447 ATP-binding site [chemical binding]; other site 630588005448 Gluconate-6-phosphate binding site [chemical binding]; other site 630588005449 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 630588005450 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 630588005451 putative active site [active] 630588005452 putative substrate binding site [chemical binding]; other site 630588005453 ATP binding site [chemical binding]; other site 630588005454 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 630588005455 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 630588005456 S-adenosylmethionine binding site [chemical binding]; other site 630588005457 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 630588005458 aromatic amino acid transport protein; Region: araaP; TIGR00837 630588005459 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 630588005460 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 630588005461 active site 630588005462 motif I; other site 630588005463 motif II; other site 630588005464 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 630588005465 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 630588005466 putative acyl-acceptor binding pocket; other site 630588005467 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 630588005468 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 630588005469 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 630588005470 dimerization interface 3.5A [polypeptide binding]; other site 630588005471 active site 630588005472 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 630588005473 PemK-like protein; Region: PemK; pfam02452 630588005474 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 630588005475 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 630588005476 trimer interface [polypeptide binding]; other site 630588005477 eyelet of channel; other site 630588005478 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 630588005479 ThiC-associated domain; Region: ThiC-associated; pfam13667 630588005480 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 630588005481 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 630588005482 nudix motif; other site 630588005483 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 630588005484 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 630588005485 Walker A/P-loop; other site 630588005486 ATP binding site [chemical binding]; other site 630588005487 Q-loop/lid; other site 630588005488 ABC transporter signature motif; other site 630588005489 Walker B; other site 630588005490 D-loop; other site 630588005491 H-loop/switch region; other site 630588005492 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 630588005493 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 630588005494 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 630588005495 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 630588005496 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 630588005497 dimerization domain swap beta strand [polypeptide binding]; other site 630588005498 regulatory protein interface [polypeptide binding]; other site 630588005499 active site 630588005500 regulatory phosphorylation site [posttranslational modification]; other site 630588005501 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 630588005502 active pocket/dimerization site; other site 630588005503 active site 630588005504 phosphorylation site [posttranslational modification] 630588005505 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 630588005506 active site 630588005507 DNA ligase; Provisional; Region: PRK09125 630588005508 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 630588005509 DNA binding site [nucleotide binding] 630588005510 active site 630588005511 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 630588005512 DNA binding site [nucleotide binding] 630588005513 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 630588005514 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 630588005515 RmuC family; Region: RmuC; pfam02646 630588005516 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 630588005517 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 630588005518 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 630588005519 Qi binding site; other site 630588005520 intrachain domain interface; other site 630588005521 interchain domain interface [polypeptide binding]; other site 630588005522 heme bH binding site [chemical binding]; other site 630588005523 heme bL binding site [chemical binding]; other site 630588005524 Qo binding site; other site 630588005525 interchain domain interface [polypeptide binding]; other site 630588005526 intrachain domain interface; other site 630588005527 Qi binding site; other site 630588005528 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 630588005529 Qo binding site; other site 630588005530 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 630588005531 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 630588005532 [2Fe-2S] cluster binding site [ion binding]; other site 630588005533 Uncharacterized conserved protein [Function unknown]; Region: COG0327 630588005534 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 630588005535 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 630588005536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 630588005537 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 630588005538 putative dimerization interface [polypeptide binding]; other site 630588005539 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 630588005540 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 630588005541 23S rRNA interface [nucleotide binding]; other site 630588005542 L3 interface [polypeptide binding]; other site 630588005543 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 630588005544 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 630588005545 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 630588005546 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 630588005547 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 630588005548 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 630588005549 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 630588005550 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 630588005551 ATP binding site [chemical binding]; other site 630588005552 substrate interface [chemical binding]; other site 630588005553 hypothetical protein; Provisional; Region: PRK04325 630588005554 Predicted permease [General function prediction only]; Region: COG2056 630588005555 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 630588005556 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 630588005557 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 630588005558 S-adenosylmethionine binding site [chemical binding]; other site 630588005559 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional; Region: PRK14966 630588005560 protease TldD; Provisional; Region: tldD; PRK10735 630588005561 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 630588005562 Na binding site [ion binding]; other site 630588005563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 630588005564 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 630588005565 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 630588005566 thiamine phosphate binding site [chemical binding]; other site 630588005567 active site 630588005568 pyrophosphate binding site [ion binding]; other site 630588005569 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 630588005570 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 630588005571 putative NAD(P) binding site [chemical binding]; other site 630588005572 dimer interface [polypeptide binding]; other site 630588005573 Predicted transcriptional regulators [Transcription]; Region: COG1733 630588005574 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 630588005575 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 630588005576 thiS-thiF/thiG interaction site; other site 630588005577 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 630588005578 ThiS interaction site; other site 630588005579 putative active site [active] 630588005580 tetramer interface [polypeptide binding]; other site 630588005582 Sporulation related domain; Region: SPOR; pfam05036 630588005583 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 630588005584 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 630588005585 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 630588005586 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 630588005587 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 630588005588 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 630588005589 active site 630588005590 HIGH motif; other site 630588005591 nucleotide binding site [chemical binding]; other site 630588005592 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 630588005593 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 630588005594 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 630588005595 homodimer interface [polypeptide binding]; other site 630588005596 NADP binding site [chemical binding]; other site 630588005597 substrate binding site [chemical binding]; other site 630588005598 RDD family; Region: RDD; pfam06271 630588005599 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 630588005600 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 630588005601 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 630588005602 putative active site [active] 630588005603 putative catalytic site [active] 630588005604 putative DNA binding site [nucleotide binding]; other site 630588005605 putative phosphate binding site [ion binding]; other site 630588005606 metal binding site A [ion binding]; metal-binding site 630588005607 putative AP binding site [nucleotide binding]; other site 630588005608 putative metal binding site B [ion binding]; other site 630588005609 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 630588005610 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 630588005611 active site 630588005612 HIGH motif; other site 630588005613 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 630588005614 KMSKS motif; other site 630588005615 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 630588005616 tRNA binding surface [nucleotide binding]; other site 630588005617 anticodon binding site; other site 630588005618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 630588005619 AAA domain; Region: AAA_21; pfam13304 630588005620 Walker A/P-loop; other site 630588005621 ATP binding site [chemical binding]; other site 630588005622 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 630588005623 ABC transporter signature motif; other site 630588005624 Walker B; other site 630588005625 D-loop; other site 630588005626 H-loop/switch region; other site 630588005627 GTPase CgtA; Reviewed; Region: obgE; PRK12299 630588005628 GTP1/OBG; Region: GTP1_OBG; pfam01018 630588005629 Obg GTPase; Region: Obg; cd01898 630588005630 G1 box; other site 630588005631 GTP/Mg2+ binding site [chemical binding]; other site 630588005632 Switch I region; other site 630588005633 G2 box; other site 630588005634 G3 box; other site 630588005635 Switch II region; other site 630588005636 G4 box; other site 630588005637 G5 box; other site 630588005638 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 630588005639 Predicted methyltransferases [General function prediction only]; Region: COG0313 630588005640 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 630588005641 putative SAM binding site [chemical binding]; other site 630588005642 putative homodimer interface [polypeptide binding]; other site 630588005643 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 630588005644 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 630588005645 dimer interface [polypeptide binding]; other site 630588005646 active site 630588005647 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 630588005648 BON domain; Region: BON; pfam04972 630588005649 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 630588005650 active site 630588005651 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 630588005652 non-specific DNA binding site [nucleotide binding]; other site 630588005653 salt bridge; other site 630588005654 sequence-specific DNA binding site [nucleotide binding]; other site 630588005655 malate:quinone oxidoreductase; Validated; Region: PRK05257 630588005656 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 630588005657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 630588005658 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 630588005659 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 630588005660 rRNA interaction site [nucleotide binding]; other site 630588005661 S8 interaction site; other site 630588005662 putative laminin-1 binding site; other site 630588005663 elongation factor Ts; Provisional; Region: tsf; PRK09377 630588005664 UBA/TS-N domain; Region: UBA; pfam00627 630588005665 Elongation factor TS; Region: EF_TS; pfam00889 630588005666 Elongation factor TS; Region: EF_TS; pfam00889 630588005667 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 630588005668 putative nucleotide binding site [chemical binding]; other site 630588005669 uridine monophosphate binding site [chemical binding]; other site 630588005670 homohexameric interface [polypeptide binding]; other site 630588005672 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 630588005673 MafB alternative C terminus 630588005674 Pyocin large subunit [General function prediction only]; Region: COG5529 630588005675 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 630588005676 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 630588005677 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 630588005678 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 630588005679 tandem repeat interface [polypeptide binding]; other site 630588005680 oligomer interface [polypeptide binding]; other site 630588005681 active site residues [active] 630588005682 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 630588005683 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 630588005684 putative MPT binding site; other site 630588005685 argininosuccinate synthase; Validated; Region: PRK05370 630588005686 argininosuccinate synthase; Provisional; Region: PRK13820 630588005687 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 630588005688 serine/threonine transporter SstT; Provisional; Region: PRK13628 630588005689 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 630588005690 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 630588005691 Surface antigen; Region: Bac_surface_Ag; pfam01103 630588005692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 630588005693 Family of unknown function (DUF490); Region: DUF490; pfam04357 630588005694 Family of unknown function (DUF490); Region: DUF490; pfam04357 630588005695 Family of unknown function (DUF490); Region: DUF490; pfam04357 630588005696 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 630588005697 POT family; Region: PTR2; cl17359 630588005698 peptide chain release factor 2; Validated; Region: prfB; PRK00578 630588005699 This domain is found in peptide chain release factors; Region: PCRF; smart00937 630588005700 RF-1 domain; Region: RF-1; pfam00472 630588005701 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 630588005702 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 630588005703 active site 630588005704 nucleophile elbow; other site 630588005705 Predicted membrane protein [Function unknown]; Region: COG2259 630588005706 Protein of unknown function (DUF692); Region: DUF692; pfam05114 630588005707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 630588005708 RNA polymerase sigma factor; Provisional; Region: PRK12532 630588005709 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 630588005710 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 630588005711 DNA binding residues [nucleotide binding] 630588005712 Transposase domain (DUF772); Region: DUF772; pfam05598 630588005713 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 630588005714 DDE superfamily endonuclease; Region: DDE_4; cl17710 630588005715 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 630588005716 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 630588005717 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 630588005718 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 630588005719 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 630588005720 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 630588005721 Uncharacterized conserved protein [Function unknown]; Region: COG1739 630588005722 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 630588005723 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 630588005724 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 630588005725 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 630588005726 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 630588005727 Ligand binding site [chemical binding]; other site 630588005728 Electron transfer flavoprotein domain; Region: ETF; pfam01012 630588005729 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 630588005730 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 630588005731 putative active site [active] 630588005732 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 630588005733 Isochorismatase family; Region: Isochorismatase; pfam00857 630588005734 catalytic triad [active] 630588005735 metal binding site [ion binding]; metal-binding site 630588005736 conserved cis-peptide bond; other site 630588005737 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 630588005738 homodimer interaction site [polypeptide binding]; other site 630588005739 cofactor binding site; other site 630588005740 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 630588005741 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 630588005742 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 630588005743 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 630588005744 MutS domain I; Region: MutS_I; pfam01624 630588005745 MutS domain II; Region: MutS_II; pfam05188 630588005746 MutS domain III; Region: MutS_III; pfam05192 630588005747 MutS domain V; Region: MutS_V; pfam00488 630588005748 Walker A/P-loop; other site 630588005749 ATP binding site [chemical binding]; other site 630588005750 Q-loop/lid; other site 630588005751 ABC transporter signature motif; other site 630588005752 Walker B; other site 630588005753 D-loop; other site 630588005754 H-loop/switch region; other site