-- dump date 20140619_163451 -- class Genbank::misc_feature -- table misc_feature_note -- id note 909420000001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 909420000002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909420000003 Coenzyme A binding pocket [chemical binding]; other site 909420000004 AAA domain; Region: AAA_13; pfam13166 909420000005 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 909420000006 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 909420000007 active site 909420000008 HIGH motif; other site 909420000009 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 909420000010 active site 909420000011 KMSKS motif; other site 909420000012 Uncharacterized conserved protein [Function unknown]; Region: COG1434 909420000013 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 909420000014 putative active site [active] 909420000015 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 909420000016 ArsC family; Region: ArsC; pfam03960 909420000017 catalytic residues [active] 909420000018 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 909420000019 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 909420000020 catalytic residues [active] 909420000021 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 909420000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909420000023 Walker A/P-loop; other site 909420000024 ATP binding site [chemical binding]; other site 909420000025 Q-loop/lid; other site 909420000026 ABC transporter signature motif; other site 909420000027 Walker B; other site 909420000028 D-loop; other site 909420000029 H-loop/switch region; other site 909420000030 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 909420000031 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 909420000032 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 909420000033 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 909420000034 Phosphoglycerate kinase; Region: PGK; pfam00162 909420000035 substrate binding site [chemical binding]; other site 909420000036 hinge regions; other site 909420000037 ADP binding site [chemical binding]; other site 909420000038 catalytic site [active] 909420000039 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 909420000040 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 909420000041 hinge; other site 909420000042 active site 909420000043 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 909420000044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 909420000045 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 909420000046 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 909420000047 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 909420000048 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 909420000049 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 909420000050 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 909420000051 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 909420000052 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 909420000053 Pilin (bacterial filament); Region: Pilin; pfam00114 909420000054 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420000055 Pilin (bacterial filament); Region: Pilin; pfam00114 909420000056 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420000057 Pilin (bacterial filament); Region: Pilin; pfam00114 909420000058 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420000059 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420000060 Pilin (bacterial filament); Region: Pilin; pfam00114 909420000061 Pilin (bacterial filament); Region: Pilin; pfam00114 909420000062 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420000063 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420000064 Pilin (bacterial filament); Region: Pilin; pfam00114 909420000065 Pilin (bacterial filament); Region: Pilin; pfam00114 909420000066 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420000067 Pilin (bacterial filament); Region: Pilin; pfam00114 909420000068 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420000069 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420000070 Pilin (bacterial filament); Region: Pilin; pfam00114 909420000071 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 909420000072 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 909420000073 Predicted membrane protein [Function unknown]; Region: COG3205 909420000074 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 909420000075 glycerate dehydrogenase; Provisional; Region: PRK06487 909420000076 putative ligand binding site [chemical binding]; other site 909420000077 putative NAD binding site [chemical binding]; other site 909420000078 catalytic site [active] 909420000079 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 909420000080 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 909420000081 active site 909420000082 HIGH motif; other site 909420000083 KMSKS motif; other site 909420000084 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 909420000085 tRNA binding surface [nucleotide binding]; other site 909420000086 anticodon binding site; other site 909420000087 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 909420000088 dimer interface [polypeptide binding]; other site 909420000089 putative tRNA-binding site [nucleotide binding]; other site 909420000090 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 909420000091 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 909420000092 glutaminase active site [active] 909420000093 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 909420000094 dimer interface [polypeptide binding]; other site 909420000095 active site 909420000096 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 909420000097 dimer interface [polypeptide binding]; other site 909420000098 active site 909420000099 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 909420000100 MltA specific insert domain; Region: MltA; pfam03562 909420000101 3D domain; Region: 3D; pfam06725 909420000102 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 909420000103 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 909420000104 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 909420000105 Imelysin; Region: Peptidase_M75; pfam09375 909420000106 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 909420000107 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 909420000108 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 909420000109 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 909420000110 PhnA protein; Region: PhnA; pfam03831 909420000111 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 909420000112 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 909420000113 Substrate binding site; other site 909420000114 Mg++ binding site; other site 909420000115 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 909420000116 active site 909420000117 substrate binding site [chemical binding]; other site 909420000118 CoA binding site [chemical binding]; other site 909420000119 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 909420000120 ABC transporter periplasmic binding protein, thiB subfamily; Region: sfuA; TIGR01254 909420000121 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 909420000122 Conserved TM helix; Region: TM_helix; pfam05552 909420000123 Mechanosensitive ion channel; Region: MS_channel; pfam00924 909420000124 Competence-damaged protein; Region: CinA; pfam02464 909420000125 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 909420000126 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 909420000127 catalytic residues [active] 909420000128 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 909420000129 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 909420000130 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 909420000131 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 909420000132 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 909420000133 P loop; other site 909420000134 GTP binding site [chemical binding]; other site 909420000135 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 909420000136 GIY-YIG motif/motif A; other site 909420000137 putative active site [active] 909420000138 putative metal binding site [ion binding]; other site 909420000139 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 909420000140 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 909420000141 TIGR01666 family membrane protein; Region: YCCS 909420000142 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 909420000143 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 909420000144 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 909420000145 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 909420000146 Walker A motif; other site 909420000147 ATP binding site [chemical binding]; other site 909420000148 Walker B motif; other site 909420000149 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 909420000150 SPOC domain; Region: SPOC; pfam07744 909420000151 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 909420000152 Walker A motif; other site 909420000153 ATP binding site [chemical binding]; other site 909420000154 Walker B motif; other site 909420000155 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 909420000156 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 909420000157 catalytic residue [active] 909420000158 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 909420000159 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 909420000160 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 909420000161 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 909420000162 chaperone protein DnaJ; Provisional; Region: PRK10767 909420000163 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 909420000164 HSP70 interaction site [polypeptide binding]; other site 909420000165 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 909420000166 substrate binding site [polypeptide binding]; other site 909420000167 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 909420000168 Zn binding sites [ion binding]; other site 909420000169 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 909420000170 dimer interface [polypeptide binding]; other site 909420000171 Predicted membrane protein [Function unknown]; Region: COG1297 909420000172 putative oligopeptide transporter, OPT family; Region: TIGR00733 909420000173 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 909420000174 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 909420000175 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 909420000176 substrate binding site; other site 909420000177 tetramer interface; other site 909420000178 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 909420000179 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 909420000180 NAD binding site [chemical binding]; other site 909420000181 substrate binding site [chemical binding]; other site 909420000182 homodimer interface [polypeptide binding]; other site 909420000183 active site 909420000184 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 909420000185 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 909420000186 NeuB family; Region: NeuB; pfam03102 909420000187 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 909420000188 NeuB binding interface [polypeptide binding]; other site 909420000189 putative substrate binding site [chemical binding]; other site 909420000190 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 909420000191 ligand binding site; other site 909420000192 tetramer interface; other site 909420000193 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 909420000194 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 909420000195 active site 909420000196 homodimer interface [polypeptide binding]; other site 909420000197 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 909420000198 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 909420000199 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 909420000200 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 909420000201 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 909420000202 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 909420000203 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 909420000204 Walker A/P-loop; other site 909420000205 ATP binding site [chemical binding]; other site 909420000206 Q-loop/lid; other site 909420000207 ABC transporter signature motif; other site 909420000208 Walker B; other site 909420000209 D-loop; other site 909420000210 H-loop/switch region; other site 909420000211 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 909420000212 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 909420000213 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 909420000214 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 909420000215 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 909420000216 RNA binding site [nucleotide binding]; other site 909420000217 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 909420000218 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 909420000219 NAD binding site [chemical binding]; other site 909420000220 substrate binding site [chemical binding]; other site 909420000221 homodimer interface [polypeptide binding]; other site 909420000222 active site 909420000223 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 909420000224 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 909420000225 substrate binding site; other site 909420000226 tetramer interface; other site 909420000227 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 909420000228 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 909420000229 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 909420000230 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 909420000231 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 909420000232 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 909420000233 Sel1-like repeats; Region: SEL1; smart00671 909420000234 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 909420000235 Sel1-like repeats; Region: SEL1; smart00671 909420000236 Sel1-like repeats; Region: SEL1; smart00671 909420000237 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 909420000238 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 909420000239 cyanate hydratase; Validated; Region: PRK02866 909420000240 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 909420000241 pyruvate kinase; Provisional; Region: PRK05826 909420000242 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 909420000243 domain interfaces; other site 909420000244 active site 909420000245 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 909420000246 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 909420000247 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 909420000248 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 909420000249 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909420000250 Coenzyme A binding pocket [chemical binding]; other site 909420000251 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 909420000252 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 909420000253 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 909420000254 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 909420000255 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 909420000256 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 909420000257 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 909420000258 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 909420000259 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 909420000260 active site 909420000261 catalytic residues [active] 909420000262 metal binding site [ion binding]; metal-binding site 909420000263 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 909420000264 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 909420000265 putative active site [active] 909420000266 substrate binding site [chemical binding]; other site 909420000267 putative cosubstrate binding site; other site 909420000268 catalytic site [active] 909420000269 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 909420000270 substrate binding site [chemical binding]; other site 909420000271 16S rRNA methyltransferase B; Provisional; Region: PRK10901 909420000272 NusB family; Region: NusB; pfam01029 909420000273 putative RNA binding site [nucleotide binding]; other site 909420000274 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 909420000275 S-adenosylmethionine binding site [chemical binding]; other site 909420000276 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 909420000277 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 909420000278 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 909420000279 dimerization interface [polypeptide binding]; other site 909420000280 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 909420000281 dimer interface [polypeptide binding]; other site 909420000282 phosphorylation site [posttranslational modification] 909420000283 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 909420000284 ATP binding site [chemical binding]; other site 909420000285 Mg2+ binding site [ion binding]; other site 909420000286 G-X-G motif; other site 909420000287 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 909420000288 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 909420000289 active site 909420000290 phosphorylation site [posttranslational modification] 909420000291 intermolecular recognition site; other site 909420000292 dimerization interface [polypeptide binding]; other site 909420000293 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 909420000294 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 909420000295 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 909420000296 DNA protecting protein DprA; Region: dprA; TIGR00732 909420000297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Smg; COG2922 909420000298 DNA topoisomerase I; Validated; Region: PRK06599 909420000299 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 909420000300 active site 909420000301 interdomain interaction site; other site 909420000302 putative metal-binding site [ion binding]; other site 909420000303 nucleotide binding site [chemical binding]; other site 909420000304 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 909420000305 domain I; other site 909420000306 DNA binding groove [nucleotide binding] 909420000307 phosphate binding site [ion binding]; other site 909420000308 domain II; other site 909420000309 domain III; other site 909420000310 nucleotide binding site [chemical binding]; other site 909420000311 catalytic site [active] 909420000312 domain IV; other site 909420000313 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 909420000314 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 909420000315 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 909420000316 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 909420000317 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 909420000318 sequence-specific DNA binding site [nucleotide binding]; other site 909420000319 salt bridge; other site 909420000320 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 909420000321 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 909420000322 S-adenosylmethionine binding site [chemical binding]; other site 909420000323 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 909420000324 elongation factor Tu; Reviewed; Region: PRK00049 909420000325 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 909420000326 G1 box; other site 909420000327 GEF interaction site [polypeptide binding]; other site 909420000328 GTP/Mg2+ binding site [chemical binding]; other site 909420000329 Switch I region; other site 909420000330 G2 box; other site 909420000331 G3 box; other site 909420000332 Switch II region; other site 909420000333 G4 box; other site 909420000334 G5 box; other site 909420000335 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 909420000336 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 909420000337 Antibiotic Binding Site [chemical binding]; other site 909420000338 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 909420000339 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 909420000340 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 909420000341 putative homodimer interface [polypeptide binding]; other site 909420000342 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 909420000343 heterodimer interface [polypeptide binding]; other site 909420000344 homodimer interface [polypeptide binding]; other site 909420000345 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 909420000346 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 909420000347 23S rRNA interface [nucleotide binding]; other site 909420000348 L7/L12 interface [polypeptide binding]; other site 909420000349 putative thiostrepton binding site; other site 909420000350 L25 interface [polypeptide binding]; other site 909420000351 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 909420000352 mRNA/rRNA interface [nucleotide binding]; other site 909420000353 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 909420000354 23S rRNA interface [nucleotide binding]; other site 909420000355 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 909420000356 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 909420000357 core dimer interface [polypeptide binding]; other site 909420000358 peripheral dimer interface [polypeptide binding]; other site 909420000359 L10 interface [polypeptide binding]; other site 909420000360 L11 interface [polypeptide binding]; other site 909420000361 putative EF-Tu interaction site [polypeptide binding]; other site 909420000362 putative EF-G interaction site [polypeptide binding]; other site 909420000363 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 909420000364 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 909420000365 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 909420000366 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 909420000367 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 909420000368 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 909420000369 RPB3 interaction site [polypeptide binding]; other site 909420000370 RPB1 interaction site [polypeptide binding]; other site 909420000371 RPB11 interaction site [polypeptide binding]; other site 909420000372 RPB10 interaction site [polypeptide binding]; other site 909420000373 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 909420000374 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 909420000375 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 909420000376 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 909420000377 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 909420000378 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 909420000379 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 909420000380 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 909420000381 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 909420000382 DNA binding site [nucleotide binding] 909420000383 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 909420000384 Protein of unknown function (DUF560); Region: DUF560; pfam04575 909420000385 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 909420000386 S17 interaction site [polypeptide binding]; other site 909420000387 S8 interaction site; other site 909420000388 16S rRNA interaction site [nucleotide binding]; other site 909420000389 streptomycin interaction site [chemical binding]; other site 909420000390 23S rRNA interaction site [nucleotide binding]; other site 909420000391 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 909420000392 30S ribosomal protein S7; Validated; Region: PRK05302 909420000393 elongation factor G; Reviewed; Region: PRK00007 909420000394 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 909420000395 G1 box; other site 909420000396 putative GEF interaction site [polypeptide binding]; other site 909420000397 GTP/Mg2+ binding site [chemical binding]; other site 909420000398 Switch I region; other site 909420000399 G2 box; other site 909420000400 G3 box; other site 909420000401 Switch II region; other site 909420000402 G4 box; other site 909420000403 G5 box; other site 909420000404 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 909420000405 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 909420000406 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 909420000407 elongation factor Tu; Reviewed; Region: PRK00049 909420000408 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 909420000409 G1 box; other site 909420000410 GEF interaction site [polypeptide binding]; other site 909420000411 GTP/Mg2+ binding site [chemical binding]; other site 909420000412 Switch I region; other site 909420000413 G2 box; other site 909420000414 G3 box; other site 909420000415 Switch II region; other site 909420000416 G4 box; other site 909420000417 G5 box; other site 909420000418 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 909420000419 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 909420000420 Antibiotic Binding Site [chemical binding]; other site 909420000421 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 909420000422 Transposase domain (DUF772); Region: DUF772; pfam05598 909420000423 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420000424 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 909420000425 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 909420000426 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 909420000427 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 909420000428 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 909420000429 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 909420000430 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 909420000431 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 909420000432 putative translocon binding site; other site 909420000433 protein-rRNA interface [nucleotide binding]; other site 909420000434 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 909420000435 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 909420000436 G-X-X-G motif; other site 909420000437 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 909420000438 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 909420000439 23S rRNA interface [nucleotide binding]; other site 909420000440 5S rRNA interface [nucleotide binding]; other site 909420000441 putative antibiotic binding site [chemical binding]; other site 909420000442 L25 interface [polypeptide binding]; other site 909420000443 L27 interface [polypeptide binding]; other site 909420000444 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 909420000445 23S rRNA interface [nucleotide binding]; other site 909420000446 putative translocon interaction site; other site 909420000447 signal recognition particle (SRP54) interaction site; other site 909420000448 L23 interface [polypeptide binding]; other site 909420000449 trigger factor interaction site; other site 909420000450 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 909420000451 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 909420000452 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 909420000453 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 909420000454 RNA binding site [nucleotide binding]; other site 909420000455 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 909420000456 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 909420000457 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 909420000458 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 909420000459 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 909420000460 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 909420000461 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 909420000462 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 909420000463 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 909420000464 5S rRNA interface [nucleotide binding]; other site 909420000465 23S rRNA interface [nucleotide binding]; other site 909420000466 L5 interface [polypeptide binding]; other site 909420000467 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 909420000468 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 909420000469 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 909420000470 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 909420000471 23S rRNA binding site [nucleotide binding]; other site 909420000472 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 909420000473 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 909420000474 SecY translocase; Region: SecY; pfam00344 909420000475 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 909420000476 rRNA binding site [nucleotide binding]; other site 909420000477 predicted 30S ribosome binding site; other site 909420000478 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 909420000479 30S ribosomal protein S13; Region: bact_S13; TIGR03631 909420000480 30S ribosomal protein S11; Validated; Region: PRK05309 909420000481 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 909420000482 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 909420000483 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 909420000484 RNA binding surface [nucleotide binding]; other site 909420000485 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 909420000486 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 909420000487 alphaNTD homodimer interface [polypeptide binding]; other site 909420000488 alphaNTD - beta interaction site [polypeptide binding]; other site 909420000489 alphaNTD - beta' interaction site [polypeptide binding]; other site 909420000490 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 909420000491 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 909420000492 septum formation inhibitor; Reviewed; Region: minC; PRK04516 909420000493 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 909420000494 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 909420000495 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 909420000496 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 909420000497 Switch I; other site 909420000498 Switch II; other site 909420000499 cell division topological specificity factor MinE; Provisional; Region: PRK13989 909420000500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 909420000501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 909420000502 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 909420000503 dimerization interface [polypeptide binding]; other site 909420000504 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 909420000505 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 909420000506 HIGH motif; other site 909420000507 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 909420000508 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 909420000509 active site 909420000510 KMSKS motif; other site 909420000511 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 909420000512 tRNA binding surface [nucleotide binding]; other site 909420000513 anticodon binding site; other site 909420000514 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 909420000515 zinc transporter ZupT; Provisional; Region: PRK04201 909420000516 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 909420000517 hydroxyglutarate oxidase; Provisional; Region: PRK11728 909420000518 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 909420000519 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 909420000520 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 909420000521 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 909420000522 active site 909420000523 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 909420000524 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 909420000525 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 909420000526 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 909420000527 trimer interface [polypeptide binding]; other site 909420000528 active site 909420000529 UDP-GlcNAc binding site [chemical binding]; other site 909420000530 lipid binding site [chemical binding]; lipid-binding site 909420000531 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 909420000532 periplasmic chaperone; Provisional; Region: PRK10780 909420000533 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 909420000534 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 909420000535 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 909420000536 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 909420000537 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 909420000538 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 909420000539 Surface antigen; Region: Bac_surface_Ag; pfam01103 909420000540 zinc metallopeptidase RseP; Provisional; Region: PRK10779 909420000541 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 909420000542 active site 909420000543 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 909420000544 protein binding site [polypeptide binding]; other site 909420000545 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 909420000546 protein binding site [polypeptide binding]; other site 909420000547 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 909420000548 putative substrate binding region [chemical binding]; other site 909420000549 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 909420000550 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 909420000551 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 909420000552 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 909420000553 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 909420000554 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 909420000555 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 909420000556 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 909420000557 catalytic residue [active] 909420000558 putative FPP diphosphate binding site; other site 909420000559 putative FPP binding hydrophobic cleft; other site 909420000560 dimer interface [polypeptide binding]; other site 909420000561 putative IPP diphosphate binding site; other site 909420000562 ribosome recycling factor; Reviewed; Region: frr; PRK00083 909420000563 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 909420000564 hinge region; other site 909420000565 Predicted membrane protein [Function unknown]; Region: COG1289 909420000566 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 909420000567 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 909420000568 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 909420000569 S-adenosylmethionine binding site [chemical binding]; other site 909420000570 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 909420000571 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 909420000572 P-loop; other site 909420000573 Magnesium ion binding site [ion binding]; other site 909420000574 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 909420000575 DTAP/Switch II; other site 909420000576 Switch I; other site 909420000577 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 909420000578 Magnesium ion binding site [ion binding]; other site 909420000579 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 909420000580 RNA/DNA hybrid binding site [nucleotide binding]; other site 909420000581 active site 909420000582 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 909420000583 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 909420000584 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 909420000585 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 909420000586 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 909420000587 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 909420000588 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 909420000589 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 909420000590 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 909420000591 homodimer interface [polypeptide binding]; other site 909420000592 oligonucleotide binding site [chemical binding]; other site 909420000593 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 909420000594 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 909420000595 RNA binding surface [nucleotide binding]; other site 909420000596 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 909420000597 active site 909420000598 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 909420000599 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 909420000600 dihydrodipicolinate reductase; Provisional; Region: PRK00048 909420000601 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 909420000602 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 909420000603 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 909420000604 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 909420000605 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 909420000606 metal binding site 2 [ion binding]; metal-binding site 909420000607 putative DNA binding helix; other site 909420000608 metal binding site 1 [ion binding]; metal-binding site 909420000609 dimer interface [polypeptide binding]; other site 909420000610 structural Zn2+ binding site [ion binding]; other site 909420000611 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 909420000612 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 909420000613 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 909420000614 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 909420000615 ferredoxin; Provisional; Region: PRK08764 909420000616 Putative Fe-S cluster; Region: FeS; cl17515 909420000617 4Fe-4S binding domain; Region: Fer4; pfam00037 909420000618 4Fe-4S binding domain; Region: Fer4; pfam00037 909420000619 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 909420000620 putative cation:proton antiport protein; Provisional; Region: PRK10669 909420000621 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 909420000622 TrkA-N domain; Region: TrkA_N; pfam02254 909420000623 TrkA-C domain; Region: TrkA_C; pfam02080 909420000624 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 909420000625 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 909420000626 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 909420000627 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 909420000628 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 909420000629 Mg2+ binding site [ion binding]; other site 909420000630 G-X-G motif; other site 909420000631 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 909420000632 anchoring element; other site 909420000633 dimer interface [polypeptide binding]; other site 909420000634 ATP binding site [chemical binding]; other site 909420000635 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 909420000636 active site 909420000637 putative metal-binding site [ion binding]; other site 909420000638 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 909420000639 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 909420000640 Mechanosensitive ion channel; Region: MS_channel; pfam00924 909420000641 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 909420000642 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 909420000643 active site 909420000644 Zn binding site [ion binding]; other site 909420000645 Predicted membrane protein [Function unknown]; Region: COG1971 909420000646 Domain of unknown function DUF; Region: DUF204; pfam02659 909420000647 Domain of unknown function DUF; Region: DUF204; pfam02659 909420000648 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 909420000649 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 909420000650 tetramer interface [polypeptide binding]; other site 909420000651 heme binding pocket [chemical binding]; other site 909420000652 NADPH binding site [chemical binding]; other site 909420000653 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 909420000654 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 909420000655 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 909420000656 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 909420000657 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 909420000658 putative ADP-binding pocket [chemical binding]; other site 909420000659 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 909420000660 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 909420000661 dimer interface [polypeptide binding]; other site 909420000662 active site 909420000663 acyl carrier protein; Provisional; Region: acpP; PRK00982 909420000664 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 909420000665 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 909420000666 quinone interaction residues [chemical binding]; other site 909420000667 active site 909420000668 catalytic residues [active] 909420000669 FMN binding site [chemical binding]; other site 909420000670 substrate binding site [chemical binding]; other site 909420000671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 909420000672 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 909420000673 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 909420000674 metal binding triad; other site 909420000675 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 909420000676 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 909420000677 metal binding triad; other site 909420000678 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420000679 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420000680 Homeodomain-like domain; Region: HTH_32; pfam13565 909420000681 Integrase core domain; Region: rve; pfam00665 909420000682 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 909420000683 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 909420000684 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 909420000685 putative active site [active] 909420000686 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 909420000687 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 909420000688 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 909420000689 DNA helicase II; Region: uvrD; TIGR01075 909420000690 Part of AAA domain; Region: AAA_19; pfam13245 909420000691 Family description; Region: UvrD_C_2; pfam13538 909420000692 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 909420000693 spermidine synthase; Provisional; Region: PRK03612 909420000694 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 909420000695 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 909420000696 S-adenosylmethionine binding site [chemical binding]; other site 909420000697 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 909420000698 NADH dehydrogenase subunit B; Validated; Region: PRK06411 909420000699 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 909420000700 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 909420000701 NADH dehydrogenase subunit D; Validated; Region: PRK06075 909420000702 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 909420000703 NADH dehydrogenase subunit E; Validated; Region: PRK07539 909420000704 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 909420000705 putative dimer interface [polypeptide binding]; other site 909420000706 [2Fe-2S] cluster binding site [ion binding]; other site 909420000707 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 909420000708 SLBB domain; Region: SLBB; pfam10531 909420000709 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 909420000710 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 909420000711 putative active site [active] 909420000712 GIY-YIG motif/motif A; other site 909420000713 putative metal binding site [ion binding]; other site 909420000714 NADH dehydrogenase subunit G; Validated; Region: PRK09129 909420000715 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 909420000716 catalytic loop [active] 909420000717 iron binding site [ion binding]; other site 909420000718 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 909420000719 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 909420000720 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 909420000721 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 909420000722 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 909420000723 4Fe-4S binding domain; Region: Fer4; cl02805 909420000724 4Fe-4S binding domain; Region: Fer4; pfam00037 909420000725 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 909420000726 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 909420000727 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 909420000728 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 909420000729 Fic/DOC family; Region: Fic; pfam02661 909420000730 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 909420000731 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 909420000732 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 909420000733 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 909420000734 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 909420000735 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 909420000736 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 909420000737 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 909420000738 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 909420000739 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 909420000740 substrate binding pocket [chemical binding]; other site 909420000741 chain length determination region; other site 909420000742 substrate-Mg2+ binding site; other site 909420000743 catalytic residues [active] 909420000744 aspartate-rich region 1; other site 909420000745 active site lid residues [active] 909420000746 aspartate-rich region 2; other site 909420000747 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 909420000748 GTPase RsgA; Reviewed; Region: PRK00098 909420000749 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 909420000750 RNA binding site [nucleotide binding]; other site 909420000751 homodimer interface [polypeptide binding]; other site 909420000752 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 909420000753 GTPase/Zn-binding domain interface [polypeptide binding]; other site 909420000754 GTP/Mg2+ binding site [chemical binding]; other site 909420000755 G4 box; other site 909420000756 G5 box; other site 909420000757 G1 box; other site 909420000758 Switch I region; other site 909420000759 G2 box; other site 909420000760 G3 box; other site 909420000761 Switch II region; other site 909420000762 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 909420000763 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909420000764 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 909420000765 Walker A/P-loop; other site 909420000766 ATP binding site [chemical binding]; other site 909420000767 Q-loop/lid; other site 909420000768 ABC transporter signature motif; other site 909420000769 Walker B; other site 909420000770 D-loop; other site 909420000771 H-loop/switch region; other site 909420000772 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 909420000773 RuvA N terminal domain; Region: RuvA_N; pfam01330 909420000774 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 909420000775 Predicted membrane protein [Function unknown]; Region: COG3212 909420000776 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 909420000777 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 909420000778 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 909420000779 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 909420000780 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 909420000781 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909420000782 active site 909420000783 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 909420000784 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 909420000785 TAP-like protein; Region: Abhydrolase_4; pfam08386 909420000786 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 909420000787 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 909420000788 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 909420000789 ATP binding site [chemical binding]; other site 909420000790 putative Mg++ binding site [ion binding]; other site 909420000791 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 909420000792 nucleotide binding region [chemical binding]; other site 909420000793 ATP-binding site [chemical binding]; other site 909420000794 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 909420000795 HRDC domain; Region: HRDC; pfam00570 909420000796 Helicase and RNase D C-terminal; Region: HRDC; smart00341 909420000797 Helicase and RNase D C-terminal; Region: HRDC; smart00341 909420000798 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 909420000799 active site 909420000800 ribulose/triose binding site [chemical binding]; other site 909420000801 phosphate binding site [ion binding]; other site 909420000802 substrate (anthranilate) binding pocket [chemical binding]; other site 909420000803 product (indole) binding pocket [chemical binding]; other site 909420000804 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 909420000805 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 909420000806 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 909420000807 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 909420000808 catalytic residues [active] 909420000809 hinge region; other site 909420000810 alpha helical domain; other site 909420000811 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 909420000812 Phosphotransferase enzyme family; Region: APH; pfam01636 909420000813 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 909420000814 Organic solvent tolerance protein; Region: OstA_C; pfam04453 909420000815 SurA N-terminal domain; Region: SurA_N; pfam09312 909420000816 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 909420000817 Exoribonuclease R [Transcription]; Region: VacB; COG0557 909420000818 RNB domain; Region: RNB; pfam00773 909420000819 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 909420000820 adenylosuccinate lyase; Provisional; Region: PRK09285 909420000821 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 909420000822 tetramer interface [polypeptide binding]; other site 909420000823 active site 909420000824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 909420000825 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 909420000826 putative metal binding site [ion binding]; other site 909420000827 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 909420000828 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 909420000829 DEAD_2; Region: DEAD_2; pfam06733 909420000830 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 909420000831 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 909420000832 DNA photolyase; Region: DNA_photolyase; pfam00875 909420000833 Transcriptional regulator [Transcription]; Region: LysR; COG0583 909420000834 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 909420000835 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 909420000836 putative effector binding pocket; other site 909420000837 dimerization interface [polypeptide binding]; other site 909420000838 Predicted membrane protein [Function unknown]; Region: COG2259 909420000839 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 909420000840 dimer interface [polypeptide binding]; other site 909420000841 FMN binding site [chemical binding]; other site 909420000842 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 909420000843 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 909420000844 catalytic residues [active] 909420000845 hinge region; other site 909420000846 alpha helical domain; other site 909420000847 signal recognition particle protein; Provisional; Region: PRK10867 909420000848 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 909420000849 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 909420000850 P loop; other site 909420000851 GTP binding site [chemical binding]; other site 909420000852 Signal peptide binding domain; Region: SRP_SPB; pfam02978 909420000853 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 909420000854 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 909420000855 Helix-hairpin-helix motif; Region: HHH; pfam00633 909420000856 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 909420000857 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 909420000858 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 909420000859 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 909420000860 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 909420000861 folate binding site [chemical binding]; other site 909420000862 NADP+ binding site [chemical binding]; other site 909420000863 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 909420000864 putative active site [active] 909420000865 putative metal binding residues [ion binding]; other site 909420000866 signature motif; other site 909420000867 putative dimer interface [polypeptide binding]; other site 909420000868 putative phosphate binding site [ion binding]; other site 909420000869 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 909420000870 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 909420000871 binding surface 909420000872 Tetratricopeptide repeat; Region: TPR_16; pfam13432 909420000873 TPR motif; other site 909420000874 Protein of unknown function (DUF560); Region: DUF560; pfam04575 909420000875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 909420000876 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 909420000877 Peptidase family M23; Region: Peptidase_M23; pfam01551 909420000878 hypothetical protein; Provisional; Region: PRK11212 909420000879 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 909420000880 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 909420000881 HlyD family secretion protein; Region: HlyD_3; pfam13437 909420000882 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 909420000883 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 909420000884 putative substrate translocation pore; other site 909420000885 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 909420000886 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 909420000887 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 909420000888 hypothetical protein; Provisional; Region: PRK09126 909420000889 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 909420000890 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 909420000891 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 909420000892 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 909420000893 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 909420000894 substrate binding pocket [chemical binding]; other site 909420000895 chain length determination region; other site 909420000896 substrate-Mg2+ binding site; other site 909420000897 catalytic residues [active] 909420000898 aspartate-rich region 1; other site 909420000899 active site lid residues [active] 909420000900 aspartate-rich region 2; other site 909420000901 Protein of unknown function (DUF441); Region: DUF441; cl01041 909420000902 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 909420000903 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 909420000904 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 909420000905 Walker A motif; other site 909420000906 ATP binding site [chemical binding]; other site 909420000907 Walker B motif; other site 909420000908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 909420000909 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 909420000910 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 909420000911 CoA-binding site [chemical binding]; other site 909420000912 ATP-binding [chemical binding]; other site 909420000913 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 909420000914 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 909420000915 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 909420000916 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 909420000917 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 909420000918 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 909420000919 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 909420000920 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 909420000921 active site 909420000922 dimer interface [polypeptide binding]; other site 909420000923 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 909420000924 dimer interface [polypeptide binding]; other site 909420000925 active site 909420000926 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 909420000927 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 909420000928 trimer interface [polypeptide binding]; other site 909420000929 active site 909420000930 substrate binding site [chemical binding]; other site 909420000931 CoA binding site [chemical binding]; other site 909420000932 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 909420000933 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 909420000934 NAD binding site [chemical binding]; other site 909420000935 homotetramer interface [polypeptide binding]; other site 909420000936 homodimer interface [polypeptide binding]; other site 909420000937 substrate binding site [chemical binding]; other site 909420000938 active site 909420000939 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 909420000940 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 909420000941 homodimer interface [polypeptide binding]; other site 909420000942 substrate-cofactor binding pocket; other site 909420000943 catalytic residue [active] 909420000944 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 909420000945 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 909420000946 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 909420000947 TPR motif; other site 909420000948 binding surface 909420000949 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 909420000950 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 909420000951 dimer interface [polypeptide binding]; other site 909420000952 active site 909420000953 metal binding site [ion binding]; metal-binding site 909420000954 glutathione binding site [chemical binding]; other site 909420000955 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 909420000956 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 909420000957 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 909420000958 intracellular septation protein A; Reviewed; Region: PRK00259 909420000959 YciI-like protein; Reviewed; Region: PRK11370 909420000960 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 909420000961 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 909420000962 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 909420000963 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 909420000964 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 909420000965 putative active site [active] 909420000966 dimerization interface [polypeptide binding]; other site 909420000967 putative tRNAtyr binding site [nucleotide binding]; other site 909420000968 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 909420000969 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 909420000970 FMN binding site [chemical binding]; other site 909420000971 active site 909420000972 catalytic residues [active] 909420000973 substrate binding site [chemical binding]; other site 909420000974 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 909420000975 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 909420000976 active site 909420000977 HIGH motif; other site 909420000978 nucleotide binding site [chemical binding]; other site 909420000979 active site 909420000980 KMSKS motif; other site 909420000981 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 909420000982 putative active site [active] 909420000983 transaldolase; Provisional; Region: PRK03903 909420000984 catalytic residue [active] 909420000985 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 909420000986 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 909420000987 putative active site [active] 909420000988 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 909420000989 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 909420000990 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 909420000991 active site 909420000992 motif I; other site 909420000993 motif II; other site 909420000994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 909420000995 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 909420000996 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 909420000997 OstA-like protein; Region: OstA; pfam03968 909420000998 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 909420000999 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 909420001000 Walker A/P-loop; other site 909420001001 ATP binding site [chemical binding]; other site 909420001002 Q-loop/lid; other site 909420001003 ABC transporter signature motif; other site 909420001004 Walker B; other site 909420001005 D-loop; other site 909420001006 H-loop/switch region; other site 909420001007 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 909420001008 Transglycosylase; Region: Transgly; cl17702 909420001009 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 909420001010 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 909420001011 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 909420001012 shikimate binding site; other site 909420001013 NAD(P) binding site [chemical binding]; other site 909420001014 glutamine synthetase; Provisional; Region: glnA; PRK09469 909420001015 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 909420001016 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 909420001017 muropeptide transporter; Reviewed; Region: ampG; PRK11902 909420001018 AmpG-like permease; Region: 2A0125; TIGR00901 909420001019 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 909420001020 GIY-YIG motif/motif A; other site 909420001021 putative active site [active] 909420001022 putative metal binding site [ion binding]; other site 909420001023 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 909420001024 Pretoxin HINT domain; Region: PT-HINT; pfam07591 909420001025 Pretoxin HINT domain; Region: PT-HINT; pfam07591 909420001026 Pretoxin HINT domain; Region: PT-HINT; pfam07591 909420001027 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 909420001028 thioester formation/cholesterol transfer; other site 909420001029 protein-splicing catalytic site; other site 909420001030 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 909420001031 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 909420001032 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 909420001033 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 909420001034 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 909420001035 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 909420001036 FeS/SAM binding site; other site 909420001037 HemN C-terminal domain; Region: HemN_C; pfam06969 909420001038 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 909420001039 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 909420001040 ligand binding site [chemical binding]; other site 909420001041 flexible hinge region; other site 909420001042 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 909420001043 putative switch regulator; other site 909420001044 non-specific DNA interactions [nucleotide binding]; other site 909420001045 DNA binding site [nucleotide binding] 909420001046 sequence specific DNA binding site [nucleotide binding]; other site 909420001047 putative cAMP binding site [chemical binding]; other site 909420001048 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 909420001049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 909420001050 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 909420001051 substrate binding site [chemical binding]; other site 909420001052 dimerization interface [polypeptide binding]; other site 909420001053 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 909420001054 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 909420001055 ligand binding site [chemical binding]; other site 909420001056 thiamine-monophosphate kinase; Region: thiL; TIGR01379 909420001057 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 909420001058 ATP binding site [chemical binding]; other site 909420001059 dimerization interface [polypeptide binding]; other site 909420001060 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 909420001061 tetramer interfaces [polypeptide binding]; other site 909420001062 binuclear metal-binding site [ion binding]; other site 909420001063 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 909420001064 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909420001065 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909420001066 ABC transporter; Region: ABC_tran_2; pfam12848 909420001067 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909420001068 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 909420001069 putative substrate translocation pore; other site 909420001070 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909420001071 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 909420001072 active site 909420001073 catalytic residues [active] 909420001074 maltose phosphorylase; Provisional; Region: PRK13807 909420001075 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 909420001076 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 909420001077 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 909420001078 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 909420001079 motif II; other site 909420001080 L-aspartate oxidase; Provisional; Region: PRK06175 909420001081 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 909420001082 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 909420001083 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 909420001084 quinolinate synthetase; Provisional; Region: PRK09375 909420001085 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 909420001086 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 909420001087 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 909420001088 dimerization interface [polypeptide binding]; other site 909420001089 active site 909420001090 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 909420001091 dimerization interface [polypeptide binding]; other site 909420001092 putative DNA binding site [nucleotide binding]; other site 909420001093 putative Zn2+ binding site [ion binding]; other site 909420001094 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 909420001095 putative catalytic site [active] 909420001096 putative phosphate binding site [ion binding]; other site 909420001097 active site 909420001098 metal binding site A [ion binding]; metal-binding site 909420001099 DNA binding site [nucleotide binding] 909420001100 putative AP binding site [nucleotide binding]; other site 909420001101 putative metal binding site B [ion binding]; other site 909420001102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909420001103 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909420001104 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 909420001105 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 909420001106 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 909420001107 Glutamate binding site [chemical binding]; other site 909420001108 NAD binding site [chemical binding]; other site 909420001109 catalytic residues [active] 909420001110 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 909420001111 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 909420001112 Na binding site [ion binding]; other site 909420001113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 909420001114 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 909420001115 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 909420001116 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 909420001117 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 909420001118 cell division protein FtsN; Region: ftsN; TIGR02223 909420001119 Sporulation related domain; Region: SPOR; pfam05036 909420001120 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 909420001121 catalytic residues [active] 909420001122 hinge region; other site 909420001123 alpha helical domain; other site 909420001124 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 909420001125 Uncharacterized conserved protein [Function unknown]; Region: COG1565 909420001126 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 909420001127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 909420001128 MraZ protein; Region: MraZ; pfam02381 909420001129 MraZ protein; Region: MraZ; pfam02381 909420001130 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 909420001131 MraW methylase family; Region: Methyltransf_5; cl17771 909420001132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 909420001133 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 909420001134 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 909420001135 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 909420001136 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 909420001137 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 909420001138 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909420001139 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909420001140 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 909420001141 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 909420001142 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909420001143 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909420001144 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 909420001145 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 909420001146 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 909420001147 Mg++ binding site [ion binding]; other site 909420001148 putative catalytic motif [active] 909420001149 putative substrate binding site [chemical binding]; other site 909420001150 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 909420001151 Sel1-like repeats; Region: SEL1; smart00671 909420001152 Sel1-like repeats; Region: SEL1; smart00671 909420001153 Sel1 repeat; Region: Sel1; cl02723 909420001154 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 909420001155 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909420001156 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909420001157 cell division protein FtsW; Region: ftsW; TIGR02614 909420001158 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 909420001159 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 909420001160 active site 909420001161 homodimer interface [polypeptide binding]; other site 909420001162 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 909420001163 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 909420001164 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909420001165 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909420001166 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 909420001167 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 909420001168 ATP-grasp domain; Region: ATP-grasp_4; cl17255 909420001169 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 909420001170 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 909420001171 Cell division protein FtsQ; Region: FtsQ; pfam03799 909420001172 cell division protein FtsA; Region: ftsA; TIGR01174 909420001173 Cell division protein FtsA; Region: FtsA; smart00842 909420001174 Cell division protein FtsA; Region: FtsA; pfam14450 909420001175 cell division protein FtsZ; Validated; Region: PRK09330 909420001176 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 909420001177 nucleotide binding site [chemical binding]; other site 909420001178 SulA interaction site; other site 909420001179 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 909420001180 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 909420001181 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 909420001182 tetramer interface [polypeptide binding]; other site 909420001183 active site 909420001184 Mg2+/Mn2+ binding site [ion binding]; other site 909420001185 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 909420001186 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 909420001187 dimer interface [polypeptide binding]; other site 909420001188 active site 909420001189 citrylCoA binding site [chemical binding]; other site 909420001190 oxalacetate/citrate binding site [chemical binding]; other site 909420001191 coenzyme A binding site [chemical binding]; other site 909420001192 catalytic triad [active] 909420001193 hypothetical protein; Provisional; Region: PRK10621 909420001194 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 909420001195 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 909420001196 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 909420001197 substrate binding site [chemical binding]; other site 909420001198 ligand binding site [chemical binding]; other site 909420001199 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 909420001200 substrate binding site [chemical binding]; other site 909420001201 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 909420001202 propionate/acetate kinase; Provisional; Region: PRK12379 909420001203 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 909420001204 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 909420001205 Transcriptional regulator; Region: Rrf2; cl17282 909420001206 Rrf2 family protein; Region: rrf2_super; TIGR00738 909420001207 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 909420001208 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 909420001209 prephenate dehydrogenase; Validated; Region: PRK08507 909420001210 Predicted amidohydrolase [General function prediction only]; Region: COG0388 909420001211 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 909420001212 putative active site [active] 909420001213 catalytic triad [active] 909420001214 dimer interface [polypeptide binding]; other site 909420001215 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 909420001216 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420001217 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420001218 Homeodomain-like domain; Region: HTH_32; pfam13565 909420001219 Integrase core domain; Region: rve; pfam00665 909420001220 EamA-like transporter family; Region: EamA; pfam00892 909420001221 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 909420001222 EamA-like transporter family; Region: EamA; pfam00892 909420001223 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 909420001224 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 909420001225 putative substrate translocation pore; other site 909420001226 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 909420001227 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 909420001228 Prephenate dehydratase; Region: PDT; pfam00800 909420001229 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 909420001230 putative L-Phe binding site [chemical binding]; other site 909420001231 Recombination protein O N terminal; Region: RecO_N; pfam11967 909420001232 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 909420001233 Recombination protein O C terminal; Region: RecO_C; pfam02565 909420001234 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 909420001235 active site 909420001236 hydrophilic channel; other site 909420001237 dimerization interface [polypeptide binding]; other site 909420001238 catalytic residues [active] 909420001239 active site lid [active] 909420001240 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 909420001241 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 909420001242 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 909420001243 active site 909420001244 8-oxo-dGMP binding site [chemical binding]; other site 909420001245 nudix motif; other site 909420001246 metal binding site [ion binding]; metal-binding site 909420001247 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 909420001248 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 909420001249 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 909420001250 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 909420001251 AMIN domain; Region: AMIN; pfam11741 909420001252 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 909420001253 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 909420001254 active site 909420001255 metal binding site [ion binding]; metal-binding site 909420001256 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 909420001257 glutamate racemase; Provisional; Region: PRK00865 909420001258 Fic family protein [Function unknown]; Region: COG3177 909420001259 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 909420001260 Fic/DOC family; Region: Fic; pfam02661 909420001261 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 909420001262 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 909420001263 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 909420001264 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 909420001265 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 909420001266 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 909420001267 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 909420001268 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 909420001269 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 909420001270 dimerization interface [polypeptide binding]; other site 909420001271 substrate binding site [chemical binding]; other site 909420001272 active site 909420001273 calcium binding site [ion binding]; other site 909420001274 Uncharacterized conserved protein [Function unknown]; Region: COG2928 909420001275 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 909420001276 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 909420001277 dimer interface [polypeptide binding]; other site 909420001278 anticodon binding site; other site 909420001279 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 909420001280 homodimer interface [polypeptide binding]; other site 909420001281 motif 1; other site 909420001282 active site 909420001283 motif 2; other site 909420001284 GAD domain; Region: GAD; pfam02938 909420001285 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 909420001286 motif 3; other site 909420001287 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 909420001288 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 909420001289 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 909420001290 dimer interface [polypeptide binding]; other site 909420001291 active site 909420001292 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 909420001293 catalytic residues [active] 909420001294 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 909420001295 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 909420001296 agmatinase; Region: agmatinase; TIGR01230 909420001297 oligomer interface [polypeptide binding]; other site 909420001298 putative active site [active] 909420001299 Mn binding site [ion binding]; other site 909420001300 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 909420001301 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 909420001302 transmembrane helices; other site 909420001303 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 909420001304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 909420001305 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 909420001306 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 909420001307 substrate-cofactor binding pocket; other site 909420001308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420001309 catalytic residue [active] 909420001310 Protein of unknown function (DUF452); Region: DUF452; pfam04301 909420001311 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 909420001312 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 909420001313 S-adenosylmethionine binding site [chemical binding]; other site 909420001314 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 909420001315 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 909420001316 active site 909420001317 phosphorylation site [posttranslational modification] 909420001318 intermolecular recognition site; other site 909420001319 dimerization interface [polypeptide binding]; other site 909420001320 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 909420001321 G1 box; other site 909420001322 GTP/Mg2+ binding site [chemical binding]; other site 909420001323 G2 box; other site 909420001324 Switch I region; other site 909420001325 G3 box; other site 909420001326 Switch II region; other site 909420001327 G4 box; other site 909420001328 G5 box; other site 909420001329 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 909420001330 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 909420001331 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 909420001332 Replication initiation factor; Region: Rep_trans; pfam02486 909420001333 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 909420001334 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 909420001335 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 909420001336 HlyD family secretion protein; Region: HlyD_3; pfam13437 909420001337 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 909420001338 DDE superfamily endonuclease; Region: DDE_3; pfam13358 909420001339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 909420001340 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 909420001341 HD domain; Region: HD_4; pfam13328 909420001342 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 909420001343 synthetase active site [active] 909420001344 NTP binding site [chemical binding]; other site 909420001345 metal binding site [ion binding]; metal-binding site 909420001346 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 909420001347 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 909420001348 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 909420001349 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 909420001350 C-terminal domain interface [polypeptide binding]; other site 909420001351 GSH binding site (G-site) [chemical binding]; other site 909420001352 catalytic residues [active] 909420001353 putative dimer interface [polypeptide binding]; other site 909420001354 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 909420001355 N-terminal domain interface [polypeptide binding]; other site 909420001356 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 909420001357 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 909420001358 Peptidase family M50; Region: Peptidase_M50; pfam02163 909420001359 active site 909420001360 putative substrate binding region [chemical binding]; other site 909420001361 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 909420001362 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 909420001363 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 909420001364 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 909420001365 TolR protein; Region: tolR; TIGR02801 909420001366 TIGR01244 family protein; Region: TIGR01244 909420001367 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 909420001368 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 909420001369 Low-spin heme binding site [chemical binding]; other site 909420001370 Putative water exit pathway; other site 909420001371 Binuclear center (active site) [active] 909420001372 Putative proton exit pathway; other site 909420001373 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 909420001374 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 909420001375 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 909420001376 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 909420001377 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 909420001378 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 909420001379 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 909420001380 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 909420001381 AbgT putative transporter family; Region: ABG_transport; pfam03806 909420001382 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 909420001383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909420001384 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 909420001385 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 909420001386 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 909420001387 HlyD family secretion protein; Region: HlyD_3; pfam13437 909420001388 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 909420001389 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 909420001390 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420001391 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420001392 Homeodomain-like domain; Region: HTH_32; pfam13565 909420001393 Integrase core domain; Region: rve; pfam00665 909420001394 L-lactate permease; Region: Lactate_perm; cl00701 909420001395 Transcriptional regulators [Transcription]; Region: FadR; COG2186 909420001396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909420001397 DNA-binding site [nucleotide binding]; DNA binding site 909420001398 FCD domain; Region: FCD; pfam07729 909420001399 glutamate dehydrogenase; Provisional; Region: PRK09414 909420001400 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 909420001401 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 909420001402 NAD(P) binding site [chemical binding]; other site 909420001403 thymidylate synthase; Reviewed; Region: thyA; PRK01827 909420001404 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 909420001405 dimerization interface [polypeptide binding]; other site 909420001406 active site 909420001407 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 909420001408 Na2 binding site [ion binding]; other site 909420001409 putative substrate binding site 1 [chemical binding]; other site 909420001410 Na binding site 1 [ion binding]; other site 909420001411 putative substrate binding site 2 [chemical binding]; other site 909420001412 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 909420001413 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 909420001414 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 909420001415 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 909420001416 putative metal binding site; other site 909420001417 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 909420001418 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 909420001419 dimer interface [polypeptide binding]; other site 909420001420 active site 909420001421 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 909420001422 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 909420001423 NAD(P) binding site [chemical binding]; other site 909420001424 homotetramer interface [polypeptide binding]; other site 909420001425 homodimer interface [polypeptide binding]; other site 909420001426 active site 909420001427 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 909420001428 putative active site 1 [active] 909420001429 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 909420001430 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 909420001431 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 909420001432 putative acyl-acceptor binding pocket; other site 909420001433 Phosphopantetheine attachment site; Region: PP-binding; cl09936 909420001434 acyl carrier protein; Provisional; Region: PRK05350 909420001435 Predicted membrane protein [Function unknown]; Region: COG4648 909420001436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 909420001437 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 909420001438 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 909420001439 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 909420001440 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 909420001441 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 909420001442 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 909420001443 dihydropteroate synthase; Region: DHPS; TIGR01496 909420001444 substrate binding pocket [chemical binding]; other site 909420001445 dimer interface [polypeptide binding]; other site 909420001446 inhibitor binding site; inhibition site 909420001447 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 909420001448 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 909420001449 active site 909420001450 substrate binding site [chemical binding]; other site 909420001451 metal binding site [ion binding]; metal-binding site 909420001452 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 909420001453 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 909420001454 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 909420001455 active site 909420001456 homodimer interface [polypeptide binding]; other site 909420001457 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 909420001458 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 909420001459 active site 909420001460 peptide chain release factor 1; Validated; Region: prfA; PRK00591 909420001461 This domain is found in peptide chain release factors; Region: PCRF; smart00937 909420001462 RF-1 domain; Region: RF-1; pfam00472 909420001463 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 909420001464 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 909420001465 putative ligand binding site [chemical binding]; other site 909420001466 putative NAD binding site [chemical binding]; other site 909420001467 catalytic site [active] 909420001468 seryl-tRNA synthetase; Provisional; Region: PRK05431 909420001469 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 909420001470 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 909420001471 dimer interface [polypeptide binding]; other site 909420001472 active site 909420001473 motif 1; other site 909420001474 motif 2; other site 909420001475 motif 3; other site 909420001476 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 909420001477 putative active site [active] 909420001478 Ap4A binding site [chemical binding]; other site 909420001479 nudix motif; other site 909420001480 putative metal binding site [ion binding]; other site 909420001481 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 909420001482 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 909420001483 ATP binding site [chemical binding]; other site 909420001484 Mg2+ binding site [ion binding]; other site 909420001485 G-X-G motif; other site 909420001486 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 909420001487 anchoring element; other site 909420001488 dimer interface [polypeptide binding]; other site 909420001489 ATP binding site [chemical binding]; other site 909420001490 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 909420001491 active site 909420001492 metal binding site [ion binding]; metal-binding site 909420001493 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 909420001494 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 909420001495 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 909420001496 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 909420001497 Tetramer interface [polypeptide binding]; other site 909420001498 active site 909420001499 FMN-binding site [chemical binding]; other site 909420001500 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 909420001501 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 909420001502 S-adenosylmethionine binding site [chemical binding]; other site 909420001503 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 909420001504 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 909420001505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420001506 homodimer interface [polypeptide binding]; other site 909420001507 catalytic residue [active] 909420001508 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 909420001509 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 909420001510 glycine dehydrogenase; Provisional; Region: PRK05367 909420001511 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 909420001512 tetramer interface [polypeptide binding]; other site 909420001513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420001514 catalytic residue [active] 909420001515 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 909420001516 tetramer interface [polypeptide binding]; other site 909420001517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420001518 catalytic residue [active] 909420001519 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 909420001520 active site 909420001521 catalytic triad [active] 909420001522 oxyanion hole [active] 909420001523 switch loop; other site 909420001524 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 909420001525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 909420001526 Protein of unknown function (DUF330); Region: DUF330; pfam03886 909420001527 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 909420001528 mce related protein; Region: MCE; pfam02470 909420001529 mce related protein; Region: MCE; pfam02470 909420001530 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 909420001531 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 909420001532 Paraquat-inducible protein A; Region: PqiA; pfam04403 909420001533 Paraquat-inducible protein A; Region: PqiA; pfam04403 909420001534 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 909420001535 heme binding pocket [chemical binding]; other site 909420001536 heme ligand [chemical binding]; other site 909420001537 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 909420001538 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 909420001539 N-terminal plug; other site 909420001540 ligand-binding site [chemical binding]; other site 909420001541 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 909420001542 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 909420001543 putative active site [active] 909420001544 putative protease; Provisional; Region: PRK15452 909420001545 Peptidase family U32; Region: Peptidase_U32; pfam01136 909420001546 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 909420001547 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 909420001548 active site 909420001549 motif I; other site 909420001550 motif II; other site 909420001551 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 909420001552 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909420001553 active site 909420001554 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 909420001555 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 909420001556 catalytic site [active] 909420001557 G-X2-G-X-G-K; other site 909420001558 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 909420001559 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 909420001560 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 909420001561 Zn2+ binding site [ion binding]; other site 909420001562 Mg2+ binding site [ion binding]; other site 909420001563 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 909420001564 synthetase active site [active] 909420001565 NTP binding site [chemical binding]; other site 909420001566 metal binding site [ion binding]; metal-binding site 909420001567 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 909420001568 ACT domain; Region: ACT_4; pfam13291 909420001569 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 909420001570 Flavoprotein; Region: Flavoprotein; pfam02441 909420001571 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 909420001572 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 909420001573 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 909420001574 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 909420001575 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 909420001576 S-adenosylmethionine binding site [chemical binding]; other site 909420001577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 909420001578 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 909420001579 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 909420001580 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 909420001581 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 909420001582 active site 909420001583 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 909420001584 substrate binding site [chemical binding]; other site 909420001585 catalytic residues [active] 909420001586 dimer interface [polypeptide binding]; other site 909420001587 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 909420001588 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 909420001589 putative DNA binding site [nucleotide binding]; other site 909420001590 putative Zn2+ binding site [ion binding]; other site 909420001591 AsnC family; Region: AsnC_trans_reg; pfam01037 909420001592 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 909420001593 hypothetical protein; Validated; Region: PRK00110 909420001594 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 909420001595 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 909420001596 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 909420001597 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 909420001598 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 909420001599 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 909420001600 G1 box; other site 909420001601 GTP/Mg2+ binding site [chemical binding]; other site 909420001602 G2 box; other site 909420001603 Switch I region; other site 909420001604 G3 box; other site 909420001605 Switch II region; other site 909420001606 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 909420001607 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 909420001608 translation initiation factor IF-2; Region: IF-2; TIGR00487 909420001609 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 909420001610 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 909420001611 G1 box; other site 909420001612 putative GEF interaction site [polypeptide binding]; other site 909420001613 GTP/Mg2+ binding site [chemical binding]; other site 909420001614 Switch I region; other site 909420001615 G2 box; other site 909420001616 G3 box; other site 909420001617 Switch II region; other site 909420001618 G4 box; other site 909420001619 G5 box; other site 909420001620 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 909420001621 Translation-initiation factor 2; Region: IF-2; pfam11987 909420001622 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 909420001623 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 909420001624 NusA N-terminal domain; Region: NusA_N; pfam08529 909420001625 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 909420001626 RNA binding site [nucleotide binding]; other site 909420001627 homodimer interface [polypeptide binding]; other site 909420001628 NusA-like KH domain; Region: KH_5; pfam13184 909420001629 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 909420001630 G-X-X-G motif; other site 909420001631 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 909420001632 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 909420001633 ribosome maturation protein RimP; Reviewed; Region: PRK00092 909420001634 Sm and related proteins; Region: Sm_like; cl00259 909420001635 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 909420001636 putative oligomer interface [polypeptide binding]; other site 909420001637 putative RNA binding site [nucleotide binding]; other site 909420001638 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 909420001639 homodimer interface [polypeptide binding]; other site 909420001640 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 909420001641 substrate-cofactor binding pocket; other site 909420001642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420001643 catalytic residue [active] 909420001644 putative metal dependent hydrolase; Provisional; Region: PRK11598 909420001645 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 909420001646 Sulfatase; Region: Sulfatase; pfam00884 909420001647 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 909420001648 putative FMN binding site [chemical binding]; other site 909420001649 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 909420001650 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 909420001651 Replication initiation factor; Region: Rep_trans; pfam02486 909420001652 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 909420001653 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 909420001654 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 909420001655 Zonular occludens toxin (Zot); Region: Zot; cl17485 909420001656 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909420001657 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909420001658 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909420001659 Uncharacterized conserved protein [Function unknown]; Region: COG1262 909420001660 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 909420001661 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 909420001662 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 909420001663 Multicopper oxidase; Region: Cu-oxidase; pfam00394 909420001664 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 909420001665 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 909420001666 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 909420001667 catalytic residues [active] 909420001668 dimer interface [polypeptide binding]; other site 909420001669 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 909420001670 dimer interface [polypeptide binding]; other site 909420001671 catalytic triad [active] 909420001672 HIT domain; Region: HIT; pfam01230 909420001673 HIT family signature motif; other site 909420001674 catalytic residue [active] 909420001675 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 909420001676 RNA/DNA hybrid binding site [nucleotide binding]; other site 909420001677 active site 909420001678 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 909420001679 tellurite resistance protein TehB; Provisional; Region: PRK12335 909420001680 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 909420001681 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 909420001682 dimer interface [polypeptide binding]; other site 909420001683 substrate binding site [chemical binding]; other site 909420001684 ATP binding site [chemical binding]; other site 909420001685 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 909420001686 TrkA-N domain; Region: TrkA_N; pfam02254 909420001687 TrkA-C domain; Region: TrkA_C; pfam02080 909420001688 TrkA-N domain; Region: TrkA_N; pfam02254 909420001689 TrkA-C domain; Region: TrkA_C; pfam02080 909420001690 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 909420001691 Fumarase C-terminus; Region: Fumerase_C; pfam05683 909420001692 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 909420001693 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 909420001694 substrate binding pocket [chemical binding]; other site 909420001695 membrane-bound complex binding site; other site 909420001696 hinge residues; other site 909420001697 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 909420001698 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 909420001699 homodimer interface [polypeptide binding]; other site 909420001700 substrate-cofactor binding pocket; other site 909420001701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420001702 catalytic residue [active] 909420001703 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 909420001704 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 909420001705 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 909420001706 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 909420001707 active site 909420001708 phosphorylation site [posttranslational modification] 909420001709 intermolecular recognition site; other site 909420001710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 909420001711 Predicted permeases [General function prediction only]; Region: COG0730 909420001712 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 909420001713 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 909420001714 dimer interface [polypeptide binding]; other site 909420001715 phosphorylation site [posttranslational modification] 909420001716 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 909420001717 Mg2+ binding site [ion binding]; other site 909420001718 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 909420001719 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 909420001720 CAP-like domain; other site 909420001721 active site 909420001722 primary dimer interface [polypeptide binding]; other site 909420001723 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 909420001724 catalytic core [active] 909420001725 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 909420001726 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 909420001727 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 909420001728 gating phenylalanine in ion channel; other site 909420001729 Transposase domain (DUF772); Region: DUF772; pfam05598 909420001730 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420001731 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 909420001732 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 909420001733 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 909420001734 motif 1; other site 909420001735 active site 909420001736 motif 2; other site 909420001737 motif 3; other site 909420001738 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 909420001739 DHHA1 domain; Region: DHHA1; pfam02272 909420001740 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 909420001741 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 909420001742 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 909420001743 EamA-like transporter family; Region: EamA; pfam00892 909420001744 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 909420001745 Cupin; Region: Cupin_6; pfam12852 909420001746 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 909420001747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 909420001748 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 909420001749 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 909420001750 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 909420001751 putative inner membrane peptidase; Provisional; Region: PRK11778 909420001752 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 909420001753 tandem repeat interface [polypeptide binding]; other site 909420001754 oligomer interface [polypeptide binding]; other site 909420001755 active site residues [active] 909420001756 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 909420001757 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 909420001758 MarR family; Region: MarR_2; pfam12802 909420001759 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 909420001760 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 909420001761 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 909420001762 putative active site pocket [active] 909420001763 4-fold oligomerization interface [polypeptide binding]; other site 909420001764 metal binding residues [ion binding]; metal-binding site 909420001765 3-fold/trimer interface [polypeptide binding]; other site 909420001766 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 909420001767 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 909420001768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420001769 homodimer interface [polypeptide binding]; other site 909420001770 catalytic residue [active] 909420001771 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 909420001772 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 909420001773 NAD binding site [chemical binding]; other site 909420001774 dimerization interface [polypeptide binding]; other site 909420001775 product binding site; other site 909420001776 substrate binding site [chemical binding]; other site 909420001777 zinc binding site [ion binding]; other site 909420001778 catalytic residues [active] 909420001779 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 909420001780 GIY-YIG motif/motif A; other site 909420001781 putative active site [active] 909420001782 putative metal binding site [ion binding]; other site 909420001783 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 909420001784 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 909420001785 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 909420001786 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 909420001787 Cu(I) binding site [ion binding]; other site 909420001788 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 909420001789 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 909420001790 PYR/PP interface [polypeptide binding]; other site 909420001791 dimer interface [polypeptide binding]; other site 909420001792 TPP binding site [chemical binding]; other site 909420001793 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 909420001794 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 909420001795 TPP-binding site [chemical binding]; other site 909420001796 dimer interface [polypeptide binding]; other site 909420001797 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 909420001798 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 909420001799 putative valine binding site [chemical binding]; other site 909420001800 dimer interface [polypeptide binding]; other site 909420001801 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 909420001802 Uncharacterized conserved protein [Function unknown]; Region: COG1359 909420001803 ketol-acid reductoisomerase; Provisional; Region: PRK05479 909420001804 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 909420001805 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 909420001806 ornithine carbamoyltransferase; Validated; Region: PRK02102 909420001807 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 909420001808 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 909420001809 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 909420001810 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 909420001811 substrate binding site [chemical binding]; other site 909420001812 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 909420001813 substrate binding site [chemical binding]; other site 909420001814 ligand binding site [chemical binding]; other site 909420001815 Predicted permeases [General function prediction only]; Region: COG0795 909420001816 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 909420001817 Predicted permeases [General function prediction only]; Region: COG0795 909420001818 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 909420001819 multifunctional aminopeptidase A; Provisional; Region: PRK00913 909420001820 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 909420001821 interface (dimer of trimers) [polypeptide binding]; other site 909420001822 Substrate-binding/catalytic site; other site 909420001823 Zn-binding sites [ion binding]; other site 909420001824 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 909420001825 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 909420001826 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 909420001827 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 909420001828 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 909420001829 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 909420001830 active site 909420001831 substrate binding site [chemical binding]; other site 909420001832 cosubstrate binding site; other site 909420001833 catalytic site [active] 909420001834 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 909420001835 OsmC-like protein; Region: OsmC; cl00767 909420001836 Transcriptional regulators [Transcription]; Region: GntR; COG1802 909420001837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 909420001838 DNA-binding site [nucleotide binding]; DNA binding site 909420001839 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 909420001840 Predicted membrane protein [Function unknown]; Region: COG2431 909420001841 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 909420001842 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 909420001843 putative DNA binding site [nucleotide binding]; other site 909420001844 putative Zn2+ binding site [ion binding]; other site 909420001845 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 909420001846 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 909420001847 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 909420001848 active site 909420001849 HIGH motif; other site 909420001850 nucleotide binding site [chemical binding]; other site 909420001851 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 909420001852 KMSKS motif; other site 909420001853 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 909420001854 glutathione synthetase; Provisional; Region: PRK05246 909420001855 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 909420001856 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 909420001857 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 909420001858 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 909420001859 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 909420001860 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 909420001861 Ligand Binding Site [chemical binding]; other site 909420001862 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 909420001863 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 909420001864 acyl-activating enzyme (AAE) consensus motif; other site 909420001865 putative AMP binding site [chemical binding]; other site 909420001866 putative active site [active] 909420001867 putative CoA binding site [chemical binding]; other site 909420001868 CTP synthetase; Validated; Region: pyrG; PRK05380 909420001869 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 909420001870 Catalytic site [active] 909420001871 active site 909420001872 UTP binding site [chemical binding]; other site 909420001873 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 909420001874 active site 909420001875 putative oxyanion hole; other site 909420001876 catalytic triad [active] 909420001877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909420001878 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909420001879 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909420001880 Zonular occludens toxin (Zot); Region: Zot; cl17485 909420001881 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 909420001882 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 909420001883 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 909420001884 Replication initiation factor; Region: Rep_trans; pfam02486 909420001885 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 909420001886 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 909420001887 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 909420001888 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 909420001889 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 909420001890 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 909420001891 Transposase domain (DUF772); Region: DUF772; pfam05598 909420001892 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420001893 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 909420001894 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 909420001895 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 909420001896 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 909420001897 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 909420001898 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 909420001899 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 909420001900 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 909420001901 DNA binding residues [nucleotide binding] 909420001902 DNA primase; Validated; Region: dnaG; PRK05667 909420001903 CHC2 zinc finger; Region: zf-CHC2; pfam01807 909420001904 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 909420001905 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 909420001906 active site 909420001907 metal binding site [ion binding]; metal-binding site 909420001908 interdomain interaction site; other site 909420001909 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 909420001910 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 909420001911 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 909420001912 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 909420001913 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 909420001914 SEC-C motif; Region: SEC-C; pfam02810 909420001915 Protein of unknown function (DUF721); Region: DUF721; pfam05258 909420001916 Azurin [Energy production and conversion]; Region: COG3241 909420001917 Hemerythrin-like domain; Region: Hr-like; cd12108 909420001918 Fe binding site [ion binding]; other site 909420001919 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 909420001920 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 909420001921 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 909420001922 metal binding site [ion binding]; metal-binding site 909420001923 dimer interface [polypeptide binding]; other site 909420001924 Phospholipid-binding protein [General function prediction only]; Region: COG1881 909420001925 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 909420001926 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 909420001927 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 909420001928 DNA binding site [nucleotide binding] 909420001929 active site 909420001930 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 909420001931 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 909420001932 putative active site [active] 909420001933 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 909420001934 SmpB-tmRNA interface; other site 909420001935 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 909420001936 FAD binding domain; Region: FAD_binding_4; pfam01565 909420001937 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 909420001938 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 909420001939 active site lid residues [active] 909420001940 substrate binding pocket [chemical binding]; other site 909420001941 catalytic residues [active] 909420001942 substrate-Mg2+ binding site; other site 909420001943 aspartate-rich region 1; other site 909420001944 aspartate-rich region 2; other site 909420001945 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 909420001946 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 909420001947 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 909420001948 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 909420001949 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 909420001950 DsbD alpha interface [polypeptide binding]; other site 909420001951 catalytic residues [active] 909420001952 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 909420001953 propionate/acetate kinase; Provisional; Region: PRK12379 909420001954 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 909420001955 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909420001956 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 909420001957 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 909420001958 active site 909420001959 catalytic site [active] 909420001960 substrate binding site [chemical binding]; other site 909420001961 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 909420001962 substrate binding site; other site 909420001963 dimer interface; other site 909420001964 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 909420001965 homotrimer interaction site [polypeptide binding]; other site 909420001966 zinc binding site [ion binding]; other site 909420001967 CDP-binding sites; other site 909420001968 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 909420001969 tetramer (dimer of dimers) interface [polypeptide binding]; other site 909420001970 active site 909420001971 dimer interface [polypeptide binding]; other site 909420001972 Staphylococcal nuclease homologues; Region: SNc; smart00318 909420001973 Catalytic site; other site 909420001974 Staphylococcal nuclease homologue; Region: SNase; pfam00565 909420001975 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 909420001976 dimer interface [polypeptide binding]; other site 909420001977 conserved gate region; other site 909420001978 putative PBP binding loops; other site 909420001979 ABC-ATPase subunit interface; other site 909420001980 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 909420001981 Sulfatase; Region: Sulfatase; cl17466 909420001982 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 909420001983 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 909420001984 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 909420001985 active site 909420001986 HIGH motif; other site 909420001987 KMSK motif region; other site 909420001988 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 909420001989 tRNA binding surface [nucleotide binding]; other site 909420001990 anticodon binding site; other site 909420001991 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 909420001992 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 909420001993 active site 909420001994 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 909420001995 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 909420001996 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 909420001997 putative ATP binding site [chemical binding]; other site 909420001998 putative substrate interface [chemical binding]; other site 909420001999 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 909420002000 Ligand Binding Site [chemical binding]; other site 909420002001 ribonuclease PH; Reviewed; Region: rph; PRK00173 909420002002 Ribonuclease PH; Region: RNase_PH_bact; cd11362 909420002003 hexamer interface [polypeptide binding]; other site 909420002004 active site 909420002005 aspartate kinase; Reviewed; Region: PRK06635 909420002006 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 909420002007 putative nucleotide binding site [chemical binding]; other site 909420002008 putative catalytic residues [active] 909420002009 putative Mg ion binding site [ion binding]; other site 909420002010 putative aspartate binding site [chemical binding]; other site 909420002011 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 909420002012 putative allosteric regulatory site; other site 909420002013 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 909420002014 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 909420002015 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 909420002016 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 909420002017 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 909420002018 pseudouridine synthase; Region: TIGR00093 909420002019 probable active site [active] 909420002020 Uncharacterized small protein [Function unknown]; Region: COG2879 909420002021 carbon starvation protein A; Provisional; Region: PRK15015 909420002022 Carbon starvation protein CstA; Region: CstA; pfam02554 909420002023 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 909420002024 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 909420002025 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 909420002026 succinic semialdehyde dehydrogenase; Region: PLN02278 909420002027 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 909420002028 tetramerization interface [polypeptide binding]; other site 909420002029 NAD(P) binding site [chemical binding]; other site 909420002030 catalytic residues [active] 909420002031 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 909420002032 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 909420002033 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 909420002034 Transporter associated domain; Region: CorC_HlyC; smart01091 909420002035 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 909420002036 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 909420002037 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 909420002038 Peptidase family M23; Region: Peptidase_M23; pfam01551 909420002039 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 909420002040 recombination regulator RecX; Reviewed; Region: recX; PRK00117 909420002041 phosphoglycolate phosphatase; Provisional; Region: PRK13222 909420002042 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 909420002043 motif II; other site 909420002044 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 909420002045 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 909420002046 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 909420002047 NAD(P) binding site [chemical binding]; other site 909420002048 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 909420002049 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 909420002050 active site 1 [active] 909420002051 dimer interface [polypeptide binding]; other site 909420002052 hexamer interface [polypeptide binding]; other site 909420002053 active site 2 [active] 909420002054 aminotransferase AlaT; Validated; Region: PRK09265 909420002055 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 909420002056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420002057 homodimer interface [polypeptide binding]; other site 909420002058 catalytic residue [active] 909420002059 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 909420002060 Clp amino terminal domain; Region: Clp_N; pfam02861 909420002061 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 909420002062 Walker A motif; other site 909420002063 ATP binding site [chemical binding]; other site 909420002064 Walker B motif; other site 909420002065 arginine finger; other site 909420002066 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 909420002067 Walker A motif; other site 909420002068 ATP binding site [chemical binding]; other site 909420002069 Walker B motif; other site 909420002070 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 909420002071 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 909420002072 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 909420002073 active site 909420002074 HIGH motif; other site 909420002075 dimer interface [polypeptide binding]; other site 909420002076 KMSKS motif; other site 909420002077 Protein of unknown function (DUF560); Region: DUF560; pfam04575 909420002078 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 909420002079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 909420002080 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 909420002081 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 909420002082 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 909420002083 N-acetyl-D-glucosamine binding site [chemical binding]; other site 909420002084 catalytic residue [active] 909420002085 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 909420002086 Major Facilitator Superfamily; Region: MFS_1; pfam07690 909420002087 putative substrate translocation pore; other site 909420002088 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 909420002089 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 909420002090 dimer interface [polypeptide binding]; other site 909420002091 ssDNA binding site [nucleotide binding]; other site 909420002092 tetramer (dimer of dimers) interface [polypeptide binding]; other site 909420002093 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 909420002094 EamA-like transporter family; Region: EamA; pfam00892 909420002095 fumarate hydratase; Reviewed; Region: fumC; PRK00485 909420002096 Class II fumarases; Region: Fumarase_classII; cd01362 909420002097 active site 909420002098 tetramer interface [polypeptide binding]; other site 909420002099 transketolase; Reviewed; Region: PRK12753 909420002100 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 909420002101 TPP-binding site [chemical binding]; other site 909420002102 dimer interface [polypeptide binding]; other site 909420002103 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 909420002104 PYR/PP interface [polypeptide binding]; other site 909420002105 dimer interface [polypeptide binding]; other site 909420002106 TPP binding site [chemical binding]; other site 909420002107 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 909420002108 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 909420002109 4Fe-4S binding domain; Region: Fer4_5; pfam12801 909420002110 4Fe-4S binding domain; Region: Fer4_3; pfam12798 909420002111 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 909420002112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 909420002113 FixH; Region: FixH; pfam05751 909420002114 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 909420002115 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 909420002116 FMN binding site [chemical binding]; other site 909420002117 substrate binding site [chemical binding]; other site 909420002118 putative catalytic residue [active] 909420002119 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 909420002120 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 909420002121 active site 909420002122 catalytic site [active] 909420002123 substrate binding site [chemical binding]; other site 909420002124 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 909420002125 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 909420002126 FAD binding pocket [chemical binding]; other site 909420002127 FAD binding motif [chemical binding]; other site 909420002128 phosphate binding motif [ion binding]; other site 909420002129 beta-alpha-beta structure motif; other site 909420002130 NAD binding pocket [chemical binding]; other site 909420002131 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 909420002132 active site 909420002133 DNA polymerase IV; Validated; Region: PRK02406 909420002134 DNA binding site [nucleotide binding] 909420002135 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 909420002136 Family description; Region: UvrD_C_2; pfam13538 909420002137 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 909420002138 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 909420002139 active site 909420002140 catalytic residue [active] 909420002141 dimer interface [polypeptide binding]; other site 909420002142 recombinase A; Provisional; Region: recA; PRK09354 909420002143 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 909420002144 hexamer interface [polypeptide binding]; other site 909420002145 Walker A motif; other site 909420002146 ATP binding site [chemical binding]; other site 909420002147 Walker B motif; other site 909420002148 hypothetical protein; Validated; Region: PRK00153 909420002149 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 909420002150 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 909420002151 Walker A motif; other site 909420002152 ATP binding site [chemical binding]; other site 909420002153 Walker B motif; other site 909420002154 arginine finger; other site 909420002155 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 909420002156 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 909420002157 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 909420002158 ATP binding site [chemical binding]; other site 909420002159 Mg2+ binding site [ion binding]; other site 909420002160 G-X-G motif; other site 909420002161 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 909420002162 ATP binding site [chemical binding]; other site 909420002163 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 909420002164 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 909420002165 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 909420002166 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 909420002167 S-adenosylmethionine binding site [chemical binding]; other site 909420002168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 909420002169 Tetratricopeptide repeat; Region: TPR_6; pfam13174 909420002170 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 909420002171 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 909420002172 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 909420002173 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 909420002174 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 909420002175 Uncharacterized conserved protein [Function unknown]; Region: COG1556 909420002176 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 909420002177 Cysteine-rich domain; Region: CCG; pfam02754 909420002178 Cysteine-rich domain; Region: CCG; pfam02754 909420002179 putative transporter; Provisional; Region: PRK10504 909420002180 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 909420002181 putative substrate translocation pore; other site 909420002182 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 909420002183 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 909420002184 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 909420002185 putative active site [active] 909420002186 catalytic site [active] 909420002187 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 909420002188 putative active site [active] 909420002189 catalytic site [active] 909420002190 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 909420002191 NlpC/P60 family; Region: NLPC_P60; pfam00877 909420002192 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 909420002193 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 909420002194 hinge; other site 909420002195 active site 909420002196 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 909420002197 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 909420002198 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 909420002199 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 909420002200 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 909420002201 eyelet of channel; other site 909420002202 trimer interface [polypeptide binding]; other site 909420002203 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 909420002204 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 909420002205 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 909420002206 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 909420002207 active site 909420002208 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 909420002209 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 909420002210 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 909420002211 dimer interface [polypeptide binding]; other site 909420002212 putative anticodon binding site; other site 909420002213 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 909420002214 motif 1; other site 909420002215 active site 909420002216 motif 2; other site 909420002217 motif 3; other site 909420002218 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 909420002219 Catalytic site [active] 909420002220 Fic family protein [Function unknown]; Region: COG3177 909420002221 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 909420002222 Fic/DOC family; Region: Fic; pfam02661 909420002223 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 909420002224 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 909420002225 ATP binding site [chemical binding]; other site 909420002226 Mg++ binding site [ion binding]; other site 909420002227 motif III; other site 909420002228 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 909420002229 nucleotide binding region [chemical binding]; other site 909420002230 ATP-binding site [chemical binding]; other site 909420002231 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 909420002232 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 909420002233 FMN binding site [chemical binding]; other site 909420002234 active site 909420002235 catalytic residues [active] 909420002236 substrate binding site [chemical binding]; other site 909420002237 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 909420002238 DNA-binding protein Fis; Provisional; Region: PRK01905 909420002239 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 909420002240 active site 909420002241 putative DNA-binding cleft [nucleotide binding]; other site 909420002242 dimer interface [polypeptide binding]; other site 909420002243 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 909420002244 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 909420002245 putative acyl-acceptor binding pocket; other site 909420002246 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 909420002247 active site 909420002248 catalytic site [active] 909420002249 substrate binding site [chemical binding]; other site 909420002250 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 909420002251 aminopeptidase N; Provisional; Region: pepN; PRK14015 909420002252 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 909420002253 active site 909420002254 Zn binding site [ion binding]; other site 909420002255 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 909420002256 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 909420002257 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 909420002258 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 909420002259 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 909420002260 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 909420002261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 909420002262 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 909420002263 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 909420002264 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 909420002265 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 909420002266 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909420002267 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 909420002268 Walker A/P-loop; other site 909420002269 ATP binding site [chemical binding]; other site 909420002270 Q-loop/lid; other site 909420002271 ABC transporter signature motif; other site 909420002272 Walker B; other site 909420002273 D-loop; other site 909420002274 H-loop/switch region; other site 909420002275 Transposase domain (DUF772); Region: DUF772; pfam05598 909420002276 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420002277 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 909420002278 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 909420002279 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 909420002280 E-class dimer interface [polypeptide binding]; other site 909420002281 P-class dimer interface [polypeptide binding]; other site 909420002282 active site 909420002283 Cu2+ binding site [ion binding]; other site 909420002284 Zn2+ binding site [ion binding]; other site 909420002285 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 909420002286 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 909420002287 minor groove reading motif; other site 909420002288 helix-hairpin-helix signature motif; other site 909420002289 substrate binding pocket [chemical binding]; other site 909420002290 active site 909420002291 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 909420002292 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 909420002293 DNA binding and oxoG recognition site [nucleotide binding] 909420002294 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 909420002295 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 909420002296 catalytic Zn binding site [ion binding]; other site 909420002297 structural Zn binding site [ion binding]; other site 909420002298 NAD(P) binding site [chemical binding]; other site 909420002299 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 909420002300 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 909420002301 active site 909420002302 intersubunit interface [polypeptide binding]; other site 909420002303 catalytic residue [active] 909420002304 phosphogluconate dehydratase; Validated; Region: PRK09054 909420002305 6-phosphogluconate dehydratase; Region: edd; TIGR01196 909420002306 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 909420002307 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 909420002308 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 909420002309 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 909420002310 putative active site [active] 909420002311 glucokinase; Provisional; Region: glk; PRK00292 909420002312 glucokinase, proteobacterial type; Region: glk; TIGR00749 909420002313 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 909420002314 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 909420002315 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 909420002316 putative active site [active] 909420002317 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 909420002318 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 909420002319 active site 909420002320 dimer interface [polypeptide binding]; other site 909420002321 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 909420002322 dimer interface [polypeptide binding]; other site 909420002323 active site 909420002324 Transposase; Region: HTH_Tnp_IS630; pfam01710 909420002325 Helix-turn-helix domain; Region: HTH_28; pfam13518 909420002326 DNA gyrase subunit A; Validated; Region: PRK05560 909420002327 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 909420002328 CAP-like domain; other site 909420002329 active site 909420002330 primary dimer interface [polypeptide binding]; other site 909420002331 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909420002332 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909420002333 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909420002334 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909420002335 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 909420002336 co-chaperone HscB; Provisional; Region: hscB; PRK03578 909420002337 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 909420002338 HSP70 interaction site [polypeptide binding]; other site 909420002339 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 909420002340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 909420002341 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 909420002342 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 909420002343 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 909420002344 trimerization site [polypeptide binding]; other site 909420002345 active site 909420002346 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 909420002347 cysteine desulfurase; Provisional; Region: PRK14012 909420002348 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 909420002349 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 909420002350 catalytic residue [active] 909420002351 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 909420002352 Rrf2 family protein; Region: rrf2_super; TIGR00738 909420002353 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 909420002354 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 909420002355 phosphate binding site [ion binding]; other site 909420002356 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 909420002357 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 909420002358 RNA binding site [nucleotide binding]; other site 909420002359 active site 909420002360 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 909420002361 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 909420002362 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 909420002363 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 909420002364 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 909420002365 Walker A motif; other site 909420002366 ATP binding site [chemical binding]; other site 909420002367 Walker B motif; other site 909420002368 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 909420002369 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 909420002370 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 909420002371 inhibitor-cofactor binding pocket; inhibition site 909420002372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420002373 catalytic residue [active] 909420002374 helicase 45; Provisional; Region: PTZ00424 909420002375 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 909420002376 ATP binding site [chemical binding]; other site 909420002377 Mg++ binding site [ion binding]; other site 909420002378 motif III; other site 909420002379 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 909420002380 nucleotide binding region [chemical binding]; other site 909420002381 ATP-binding site [chemical binding]; other site 909420002382 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 909420002383 S-adenosylmethionine binding site [chemical binding]; other site 909420002384 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 909420002385 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 909420002386 catalytic residues [active] 909420002387 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 909420002388 Hemerythrin-like domain; Region: Hr-like; cd12108 909420002389 Fe binding site [ion binding]; other site 909420002390 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 909420002391 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 909420002392 homodimer interface [polypeptide binding]; other site 909420002393 NAD binding pocket [chemical binding]; other site 909420002394 ATP binding pocket [chemical binding]; other site 909420002395 Mg binding site [ion binding]; other site 909420002396 active-site loop [active] 909420002397 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 909420002398 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 909420002399 generic binding surface II; other site 909420002400 generic binding surface I; other site 909420002401 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 909420002402 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 909420002403 putative substrate translocation pore; other site 909420002404 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 909420002405 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 909420002406 RNA binding surface [nucleotide binding]; other site 909420002407 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 909420002408 probable active site [active] 909420002409 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 909420002410 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 909420002411 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 909420002412 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 909420002413 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 909420002414 catalytic loop [active] 909420002415 iron binding site [ion binding]; other site 909420002416 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 909420002417 FAD binding pocket [chemical binding]; other site 909420002418 FAD binding motif [chemical binding]; other site 909420002419 phosphate binding motif [ion binding]; other site 909420002420 beta-alpha-beta structure motif; other site 909420002421 NAD binding pocket [chemical binding]; other site 909420002422 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 909420002423 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 909420002424 GatB domain; Region: GatB_Yqey; smart00845 909420002425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 909420002426 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 909420002427 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 909420002428 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 909420002429 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 909420002430 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 909420002431 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 909420002432 NAD(P) binding site [chemical binding]; other site 909420002433 catalytic residues [active] 909420002434 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 909420002435 16S rRNA methyltransferase B; Provisional; Region: PRK10901 909420002436 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 909420002437 S-adenosylmethionine binding site [chemical binding]; other site 909420002438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 909420002439 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 909420002440 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 909420002441 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 909420002442 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 909420002443 active site 909420002444 dimerization interface [polypeptide binding]; other site 909420002445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 909420002446 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 909420002447 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 909420002448 E3 interaction surface; other site 909420002449 lipoyl attachment site [posttranslational modification]; other site 909420002450 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 909420002451 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 909420002452 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 909420002453 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 909420002454 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 909420002455 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 909420002456 E3 interaction surface; other site 909420002457 lipoyl attachment site [posttranslational modification]; other site 909420002458 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 909420002459 E3 interaction surface; other site 909420002460 lipoyl attachment site [posttranslational modification]; other site 909420002461 e3 binding domain; Region: E3_binding; pfam02817 909420002462 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 909420002463 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 909420002464 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 909420002465 dimer interface [polypeptide binding]; other site 909420002466 TPP-binding site [chemical binding]; other site 909420002467 prolyl-tRNA synthetase; Provisional; Region: PRK09194 909420002468 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 909420002469 dimer interface [polypeptide binding]; other site 909420002470 motif 1; other site 909420002471 active site 909420002472 motif 2; other site 909420002473 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 909420002474 putative deacylase active site [active] 909420002475 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 909420002476 active site 909420002477 motif 3; other site 909420002478 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 909420002479 anticodon binding site; other site 909420002480 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 909420002481 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 909420002482 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 909420002483 Putative transcriptional regulator [Transcription]; Region: COG1678 909420002484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 909420002485 CreA protein; Region: CreA; pfam05981 909420002486 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 909420002487 Peptidase family M23; Region: Peptidase_M23; pfam01551 909420002488 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 909420002489 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 909420002490 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 909420002491 protein binding site [polypeptide binding]; other site 909420002492 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 909420002493 Catalytic dyad [active] 909420002494 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 909420002495 excinuclease ABC subunit B; Provisional; Region: PRK05298 909420002496 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 909420002497 ATP-binding site [chemical binding]; other site 909420002498 ATP binding site [chemical binding]; other site 909420002499 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 909420002500 nucleotide binding region [chemical binding]; other site 909420002501 ATP-binding site [chemical binding]; other site 909420002502 Ultra-violet resistance protein B; Region: UvrB; pfam12344 909420002503 UvrB/uvrC motif; Region: UVR; pfam02151 909420002504 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 909420002505 S-adenosylmethionine binding site [chemical binding]; other site 909420002506 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 909420002507 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 909420002508 Sel1-like repeats; Region: SEL1; smart00671 909420002509 Sel1-like repeats; Region: SEL1; smart00671 909420002510 Sel1-like repeats; Region: SEL1; smart00671 909420002511 Sel1-like repeats; Region: SEL1; smart00671 909420002512 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 909420002513 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 909420002514 GIY-YIG motif/motif A; other site 909420002515 active site 909420002516 catalytic site [active] 909420002517 putative DNA binding site [nucleotide binding]; other site 909420002518 metal binding site [ion binding]; metal-binding site 909420002519 UvrB/uvrC motif; Region: UVR; pfam02151 909420002520 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 909420002521 Helix-hairpin-helix motif; Region: HHH; pfam00633 909420002522 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 909420002523 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 909420002524 metal-binding site [ion binding] 909420002525 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909420002526 Soluble P-type ATPase [General function prediction only]; Region: COG4087 909420002527 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 909420002528 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 909420002529 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 909420002530 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 909420002531 Primosomal replication protein N [DNA replication, recombination, and repair]; Region: PriB; COG2965 909420002532 generic binding surface I; other site 909420002533 generic binding surface II; other site 909420002534 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 909420002535 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 909420002536 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 909420002537 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 909420002538 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 909420002539 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 909420002540 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 909420002541 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 909420002542 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 909420002543 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 909420002544 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 909420002545 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 909420002546 trigger factor; Provisional; Region: tig; PRK01490 909420002547 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 909420002548 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 909420002549 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 909420002550 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 909420002551 oligomer interface [polypeptide binding]; other site 909420002552 active site residues [active] 909420002553 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 909420002554 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 909420002555 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 909420002556 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 909420002557 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 909420002558 binding surface 909420002559 TPR motif; other site 909420002560 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 909420002561 TPR motif; other site 909420002562 binding surface 909420002563 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 909420002564 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 909420002565 FeS/SAM binding site; other site 909420002566 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 909420002567 active site 909420002568 multimer interface [polypeptide binding]; other site 909420002569 Predicted ATPase [General function prediction only]; Region: COG1485 909420002570 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 909420002571 S-formylglutathione hydrolase; Region: PLN02442 909420002572 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 909420002573 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 909420002574 substrate binding site [chemical binding]; other site 909420002575 catalytic Zn binding site [ion binding]; other site 909420002576 NAD binding site [chemical binding]; other site 909420002577 structural Zn binding site [ion binding]; other site 909420002578 dimer interface [polypeptide binding]; other site 909420002579 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 909420002580 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 909420002581 DNA binding residues [nucleotide binding] 909420002582 putative dimer interface [polypeptide binding]; other site 909420002583 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 909420002584 IHF dimer interface [polypeptide binding]; other site 909420002585 IHF - DNA interface [nucleotide binding]; other site 909420002586 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 909420002587 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 909420002588 RNA binding site [nucleotide binding]; other site 909420002589 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 909420002590 RNA binding site [nucleotide binding]; other site 909420002591 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 909420002592 RNA binding site [nucleotide binding]; other site 909420002593 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 909420002594 RNA binding site [nucleotide binding]; other site 909420002595 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 909420002596 RNA binding site [nucleotide binding]; other site 909420002597 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 909420002598 RNA binding site [nucleotide binding]; other site 909420002599 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 909420002600 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 909420002601 CMP-binding site; other site 909420002602 The sites determining sugar specificity; other site 909420002603 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 909420002604 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 909420002605 RNA binding surface [nucleotide binding]; other site 909420002606 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 909420002607 active site 909420002608 uracil binding [chemical binding]; other site 909420002609 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 909420002610 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 909420002611 N-acetyl-D-glucosamine binding site [chemical binding]; other site 909420002612 catalytic residue [active] 909420002613 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 909420002614 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 909420002615 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 909420002616 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 909420002617 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 909420002618 DNA binding site [nucleotide binding] 909420002619 catalytic residue [active] 909420002620 H2TH interface [polypeptide binding]; other site 909420002621 putative catalytic residues [active] 909420002622 turnover-facilitating residue; other site 909420002623 intercalation triad [nucleotide binding]; other site 909420002624 8OG recognition residue [nucleotide binding]; other site 909420002625 putative reading head residues; other site 909420002626 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 909420002627 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 909420002628 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 909420002629 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 909420002630 putative acyl-acceptor binding pocket; other site 909420002631 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 909420002632 ATP cone domain; Region: ATP-cone; pfam03477 909420002633 Class I ribonucleotide reductase; Region: RNR_I; cd01679 909420002634 active site 909420002635 dimer interface [polypeptide binding]; other site 909420002636 catalytic residues [active] 909420002637 effector binding site; other site 909420002638 R2 peptide binding site; other site 909420002639 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 909420002640 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 909420002641 cofactor binding site; other site 909420002642 DNA binding site [nucleotide binding] 909420002643 substrate interaction site [chemical binding]; other site 909420002644 N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; Region: EcoRII_N; cd10016 909420002645 DNA binding site [nucleotide binding] 909420002646 EcoRII C terminal; Region: EcoRII-C; pfam09019 909420002647 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 909420002648 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 909420002649 dimer interface [polypeptide binding]; other site 909420002650 putative radical transfer pathway; other site 909420002651 diiron center [ion binding]; other site 909420002652 tyrosyl radical; other site 909420002653 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 909420002654 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 909420002655 catalytic loop [active] 909420002656 iron binding site [ion binding]; other site 909420002657 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 909420002658 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 909420002659 enolase; Provisional; Region: eno; PRK00077 909420002660 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 909420002661 dimer interface [polypeptide binding]; other site 909420002662 metal binding site [ion binding]; metal-binding site 909420002663 substrate binding pocket [chemical binding]; other site 909420002664 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 909420002665 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 909420002666 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 909420002667 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 909420002668 tetramerization interface [polypeptide binding]; other site 909420002669 active site 909420002670 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 909420002671 DEAD-like helicases superfamily; Region: DEXDc; smart00487 909420002672 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 909420002673 ATP binding site [chemical binding]; other site 909420002674 putative Mg++ binding site [ion binding]; other site 909420002675 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 909420002676 nucleotide binding region [chemical binding]; other site 909420002677 ATP-binding site [chemical binding]; other site 909420002678 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 909420002679 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 909420002680 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 909420002681 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 909420002682 active site 909420002683 Transglycosylase SLT domain; Region: SLT_2; pfam13406 909420002684 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 909420002685 N-acetyl-D-glucosamine binding site [chemical binding]; other site 909420002686 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 909420002687 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 909420002688 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 909420002689 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 909420002690 acyl-activating enzyme (AAE) consensus motif; other site 909420002691 putative AMP binding site [chemical binding]; other site 909420002692 putative active site [active] 909420002693 putative CoA binding site [chemical binding]; other site 909420002694 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 909420002695 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 909420002696 active site 909420002697 oxyanion hole [active] 909420002698 catalytic triad [active] 909420002699 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 909420002700 active site 909420002701 catalytic triad [active] 909420002702 oxyanion hole [active] 909420002703 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 909420002704 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 909420002705 metal-binding site [ion binding] 909420002706 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 909420002707 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 909420002708 S-adenosylmethionine binding site [chemical binding]; other site 909420002709 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 909420002710 glycerate kinase; Region: TIGR00045 909420002711 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 909420002712 Low molecular weight phosphatase family; Region: LMWPc; cd00115 909420002713 active site 909420002714 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 909420002715 metal binding site 2 [ion binding]; metal-binding site 909420002716 putative DNA binding helix; other site 909420002717 metal binding site 1 [ion binding]; metal-binding site 909420002718 dimer interface [polypeptide binding]; other site 909420002719 structural Zn2+ binding site [ion binding]; other site 909420002720 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 909420002721 active site 909420002722 NTP binding site [chemical binding]; other site 909420002723 metal binding triad [ion binding]; metal-binding site 909420002724 antibiotic binding site [chemical binding]; other site 909420002725 Uncharacterized conserved protein [Function unknown]; Region: COG2361 909420002726 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 909420002727 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 909420002728 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 909420002729 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 909420002730 substrate binding site [chemical binding]; other site 909420002731 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 909420002732 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420002733 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420002734 Homeodomain-like domain; Region: HTH_32; pfam13565 909420002735 Integrase core domain; Region: rve; pfam00665 909420002736 recombination factor protein RarA; Reviewed; Region: PRK13342 909420002737 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 909420002738 Walker A motif; other site 909420002739 ATP binding site [chemical binding]; other site 909420002740 Walker B motif; other site 909420002741 arginine finger; other site 909420002742 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 909420002743 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 909420002744 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 909420002745 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 909420002746 dimerization interface [polypeptide binding]; other site 909420002747 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 909420002748 dimerization interface [polypeptide binding]; other site 909420002749 active site 909420002750 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 909420002751 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 909420002752 dimerization interface [polypeptide binding]; other site 909420002753 putative ATP binding site [chemical binding]; other site 909420002754 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420002755 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420002756 Homeodomain-like domain; Region: HTH_32; pfam13565 909420002757 Integrase core domain; Region: rve; pfam00665 909420002758 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 909420002759 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 909420002760 active site 909420002761 phosphorylation site [posttranslational modification] 909420002762 intermolecular recognition site; other site 909420002763 dimerization interface [polypeptide binding]; other site 909420002764 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 909420002765 DNA binding residues [nucleotide binding] 909420002766 dimerization interface [polypeptide binding]; other site 909420002767 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 909420002768 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 909420002769 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 909420002770 dimerization interface [polypeptide binding]; other site 909420002771 GAF domain; Region: GAF_3; pfam13492 909420002772 Histidine kinase; Region: HisKA_3; pfam07730 909420002773 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 909420002774 ATP binding site [chemical binding]; other site 909420002775 Mg2+ binding site [ion binding]; other site 909420002776 G-X-G motif; other site 909420002777 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 909420002778 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 909420002779 GTP binding site; other site 909420002780 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 909420002781 Lumazine binding domain; Region: Lum_binding; pfam00677 909420002782 Lumazine binding domain; Region: Lum_binding; pfam00677 909420002783 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 909420002784 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 909420002785 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 909420002786 Walker A motif; other site 909420002787 ATP binding site [chemical binding]; other site 909420002788 Walker B motif; other site 909420002789 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 909420002790 dimer interface [polypeptide binding]; other site 909420002791 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 909420002792 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 909420002793 substrate binding site [chemical binding]; other site 909420002794 hexamer interface [polypeptide binding]; other site 909420002795 metal binding site [ion binding]; metal-binding site 909420002796 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 909420002797 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 909420002798 Walker A motif; other site 909420002799 ATP binding site [chemical binding]; other site 909420002800 Walker B motif; other site 909420002801 arginine finger; other site 909420002802 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 909420002803 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 909420002804 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 909420002805 active site 909420002806 NTP binding site [chemical binding]; other site 909420002807 metal binding triad [ion binding]; metal-binding site 909420002808 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 909420002809 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 909420002810 Zn2+ binding site [ion binding]; other site 909420002811 Mg2+ binding site [ion binding]; other site 909420002812 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 909420002813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909420002814 Walker A/P-loop; other site 909420002815 ATP binding site [chemical binding]; other site 909420002816 ABC transporter signature motif; other site 909420002817 Walker B; other site 909420002818 D-loop; other site 909420002819 H-loop/switch region; other site 909420002820 ABC transporter; Region: ABC_tran_2; pfam12848 909420002821 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909420002822 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 909420002823 ArsC family; Region: ArsC; pfam03960 909420002824 putative catalytic residues [active] 909420002825 SurA N-terminal domain; Region: SurA_N_3; cl07813 909420002826 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 909420002827 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 909420002828 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 909420002829 RecR protein; Region: RecR; pfam02132 909420002830 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 909420002831 putative active site [active] 909420002832 putative metal-binding site [ion binding]; other site 909420002833 tetramer interface [polypeptide binding]; other site 909420002834 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 909420002835 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 909420002836 FtsX-like permease family; Region: FtsX; pfam02687 909420002837 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 909420002838 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 909420002839 Walker A/P-loop; other site 909420002840 ATP binding site [chemical binding]; other site 909420002841 Q-loop/lid; other site 909420002842 ABC transporter signature motif; other site 909420002843 Walker B; other site 909420002844 D-loop; other site 909420002845 H-loop/switch region; other site 909420002846 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 909420002847 AAA domain; Region: AAA_30; pfam13604 909420002848 Family description; Region: UvrD_C_2; pfam13538 909420002849 Methyltransferase domain; Region: Methyltransf_23; pfam13489 909420002850 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 909420002851 S-adenosylmethionine binding site [chemical binding]; other site 909420002852 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 909420002853 Found in ATP-dependent protease La (LON); Region: LON; smart00464 909420002854 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 909420002855 Walker A motif; other site 909420002856 ATP binding site [chemical binding]; other site 909420002857 Walker B motif; other site 909420002858 arginine finger; other site 909420002859 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 909420002860 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 909420002861 IHF dimer interface [polypeptide binding]; other site 909420002862 IHF - DNA interface [nucleotide binding]; other site 909420002863 homoserine dehydrogenase; Provisional; Region: PRK06349 909420002864 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 909420002865 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 909420002866 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 909420002867 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 909420002868 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 909420002869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909420002870 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909420002871 ABC transporter; Region: ABC_tran_2; pfam12848 909420002872 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909420002873 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 909420002874 ligand binding site [chemical binding]; other site 909420002875 active site 909420002876 UGI interface [polypeptide binding]; other site 909420002877 catalytic site [active] 909420002878 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 909420002879 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 909420002880 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 909420002881 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 909420002882 Domain of unknown function DUF20; Region: UPF0118; pfam01594 909420002883 Uncharacterized conserved protein [Function unknown]; Region: COG2921 909420002884 lipoate-protein ligase B; Provisional; Region: PRK14342 909420002885 lipoyl synthase; Provisional; Region: PRK05481 909420002886 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 909420002887 FeS/SAM binding site; other site 909420002888 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 909420002889 haemagglutination activity domain; Region: Haemagg_act; pfam05860 909420002890 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 909420002891 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 909420002892 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 909420002893 ACP:hemolysin acyltransferase (hemolysin-activating protein) [Posttranslational modification, protein turnover, chaperones]; Region: HlyC; COG2994 909420002894 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 909420002895 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 909420002896 heme binding site [chemical binding]; other site 909420002897 ferroxidase pore; other site 909420002898 ferroxidase diiron center [ion binding]; other site 909420002899 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 909420002900 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 909420002901 heme binding site [chemical binding]; other site 909420002902 ferroxidase pore; other site 909420002903 ferroxidase diiron center [ion binding]; other site 909420002904 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909420002905 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 909420002906 non-specific DNA binding site [nucleotide binding]; other site 909420002907 salt bridge; other site 909420002908 sequence-specific DNA binding site [nucleotide binding]; other site 909420002909 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 909420002910 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 909420002911 metal binding triad; other site 909420002912 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 909420002913 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 909420002914 Zn2+ binding site [ion binding]; other site 909420002915 Mg2+ binding site [ion binding]; other site 909420002916 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 909420002917 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 909420002918 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 909420002919 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 909420002920 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 909420002921 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 909420002922 active site 909420002923 ribonuclease R; Region: RNase_R; TIGR02063 909420002924 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 909420002925 RNB domain; Region: RNB; pfam00773 909420002926 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 909420002927 RNA binding site [nucleotide binding]; other site 909420002928 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 909420002929 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 909420002930 G1 box; other site 909420002931 putative GEF interaction site [polypeptide binding]; other site 909420002932 GTP/Mg2+ binding site [chemical binding]; other site 909420002933 Switch I region; other site 909420002934 G2 box; other site 909420002935 G3 box; other site 909420002936 Switch II region; other site 909420002937 G4 box; other site 909420002938 G5 box; other site 909420002939 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 909420002940 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 909420002941 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 909420002942 putative substrate binding site [chemical binding]; other site 909420002943 putative ATP binding site [chemical binding]; other site 909420002944 Cytochrome b [Energy production and conversion]; Region: COG3658 909420002945 siroheme synthase; Provisional; Region: cysG; PRK10637 909420002946 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 909420002947 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 909420002948 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 909420002949 active site 909420002950 SAM binding site [chemical binding]; other site 909420002951 homodimer interface [polypeptide binding]; other site 909420002952 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 909420002953 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 909420002954 Active Sites [active] 909420002955 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 909420002956 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 909420002957 Active Sites [active] 909420002958 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 909420002959 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 909420002960 CysD dimerization site [polypeptide binding]; other site 909420002961 G1 box; other site 909420002962 putative GEF interaction site [polypeptide binding]; other site 909420002963 GTP/Mg2+ binding site [chemical binding]; other site 909420002964 Switch I region; other site 909420002965 G2 box; other site 909420002966 G3 box; other site 909420002967 Switch II region; other site 909420002968 G4 box; other site 909420002969 G5 box; other site 909420002970 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 909420002971 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 909420002972 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 909420002973 Flavodoxin; Region: Flavodoxin_1; pfam00258 909420002974 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 909420002975 FAD binding pocket [chemical binding]; other site 909420002976 FAD binding motif [chemical binding]; other site 909420002977 catalytic residues [active] 909420002978 NAD binding pocket [chemical binding]; other site 909420002979 phosphate binding motif [ion binding]; other site 909420002980 beta-alpha-beta structure motif; other site 909420002981 sulfite reductase subunit beta; Provisional; Region: PRK13504 909420002982 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 909420002983 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 909420002984 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 909420002985 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 909420002986 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 909420002987 biotin synthase; Region: bioB; TIGR00433 909420002988 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 909420002989 FeS/SAM binding site; other site 909420002990 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 909420002991 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 909420002992 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 909420002993 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 909420002994 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909420002995 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 909420002996 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 909420002997 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 909420002998 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 909420002999 Ligand Binding Site [chemical binding]; other site 909420003000 TilS substrate binding domain; Region: TilS; pfam09179 909420003001 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 909420003002 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 909420003003 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 909420003004 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 909420003005 RNA binding surface [nucleotide binding]; other site 909420003006 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 909420003007 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 909420003008 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 909420003009 catalytic loop [active] 909420003010 iron binding site [ion binding]; other site 909420003011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 909420003012 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 909420003013 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 909420003014 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 909420003015 chaperone protein HscA; Provisional; Region: hscA; PRK05183 909420003016 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 909420003017 nucleotide binding site [chemical binding]; other site 909420003018 putative NEF/HSP70 interaction site [polypeptide binding]; other site 909420003019 SBD interface [polypeptide binding]; other site 909420003020 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 909420003021 active site lid residues [active] 909420003022 substrate binding pocket [chemical binding]; other site 909420003023 catalytic residues [active] 909420003024 substrate-Mg2+ binding site; other site 909420003025 aspartate-rich region 1; other site 909420003026 aspartate-rich region 2; other site 909420003027 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 909420003028 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 909420003029 short chain dehydrogenase; Provisional; Region: PRK08703 909420003030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 909420003031 NAD(P) binding site [chemical binding]; other site 909420003032 active site 909420003033 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 909420003034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 909420003035 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 909420003036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 909420003037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 909420003038 Phage Tail Collar Domain; Region: Collar; pfam07484 909420003039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 909420003040 Mu-like prophage protein gp46 [Function unknown]; Region: COG4381 909420003041 Mu-like prophage protein gp45 [Function unknown]; Region: COG4384 909420003042 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 909420003043 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 909420003044 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 909420003045 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 909420003046 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 909420003047 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 909420003048 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 909420003049 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 909420003050 Mu-like prophage protein gp37 [General function prediction only]; Region: COG5003 909420003051 Mu-like prophage protein gp36 [Function unknown]; Region: COG4387 909420003052 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 909420003053 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420003054 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420003055 Homeodomain-like domain; Region: HTH_32; pfam13565 909420003056 Integrase core domain; Region: rve; pfam00665 909420003057 Mu-like prophage I protein [General function prediction only]; Region: COG4388 909420003058 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 909420003059 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 909420003060 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 909420003061 Protein of unknown function (DUF935); Region: DUF935; pfam06074 909420003062 phage uncharacterized protein (putative large terminase), C-terminal domain; Region: psiM2_ORF9; TIGR01630 909420003063 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 909420003064 Uncharacterized conserved protein [Function unknown]; Region: COG3422 909420003065 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 909420003066 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 909420003067 active site 909420003068 metal binding site [ion binding]; metal-binding site 909420003069 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 909420003070 non-specific DNA binding site [nucleotide binding]; other site 909420003071 salt bridge; other site 909420003072 sequence-specific DNA binding site [nucleotide binding]; other site 909420003073 AAA domain; Region: AAA_22; pfam13401 909420003074 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 909420003075 Mor transcription activator family; Region: Mor; cl02360 909420003076 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 909420003077 Integrase core domain; Region: rve; pfam00665 909420003078 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 909420003079 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 909420003080 ABC transporter; Region: ABC_tran; pfam00005 909420003081 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 909420003082 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 909420003083 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 909420003084 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 909420003085 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 909420003086 feedback inhibition sensing region; other site 909420003087 homohexameric interface [polypeptide binding]; other site 909420003088 nucleotide binding site [chemical binding]; other site 909420003089 N-acetyl-L-glutamate binding site [chemical binding]; other site 909420003090 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 909420003091 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 909420003092 putative active site [active] 909420003093 Zn binding site [ion binding]; other site 909420003094 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 909420003095 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 909420003096 yecA family protein; Region: ygfB_yecA; TIGR02292 909420003097 SEC-C motif; Region: SEC-C; pfam02810 909420003098 2-isopropylmalate synthase; Validated; Region: PRK00915 909420003099 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 909420003100 active site 909420003101 catalytic residues [active] 909420003102 metal binding site [ion binding]; metal-binding site 909420003103 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 909420003104 glutamate 5-kinase; Region: proB; TIGR01027 909420003105 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 909420003106 nucleotide binding site [chemical binding]; other site 909420003107 homotetrameric interface [polypeptide binding]; other site 909420003108 putative phosphate binding site [ion binding]; other site 909420003109 putative allosteric binding site; other site 909420003110 PUA domain; Region: PUA; pfam01472 909420003111 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 909420003112 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 909420003113 putative catalytic cysteine [active] 909420003114 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 909420003115 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 909420003116 Predicted membrane protein [Function unknown]; Region: COG3235 909420003117 camphor resistance protein CrcB; Provisional; Region: PRK14230 909420003118 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 909420003119 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 909420003120 dimer interface [polypeptide binding]; other site 909420003121 ADP-ribose binding site [chemical binding]; other site 909420003122 active site 909420003123 nudix motif; other site 909420003124 metal binding site [ion binding]; metal-binding site 909420003125 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 909420003126 active site 909420003127 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 909420003128 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 909420003129 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 909420003130 AMP binding site [chemical binding]; other site 909420003131 metal binding site [ion binding]; metal-binding site 909420003132 active site 909420003133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 909420003134 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 909420003135 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 909420003136 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 909420003137 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 909420003138 dimer interface [polypeptide binding]; other site 909420003139 active site 909420003140 glycine-pyridoxal phosphate binding site [chemical binding]; other site 909420003141 folate binding site [chemical binding]; other site 909420003142 Transposase domain (DUF772); Region: DUF772; pfam05598 909420003143 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420003144 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 909420003145 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 909420003146 Outer membrane protein OpcA; Region: OpcA; pfam07239 909420003147 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 909420003148 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 909420003149 ABC transporter ATPase component; Reviewed; Region: PRK11147 909420003150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909420003151 Walker A/P-loop; other site 909420003152 ATP binding site [chemical binding]; other site 909420003153 Q-loop/lid; other site 909420003154 ABC transporter signature motif; other site 909420003155 Walker B; other site 909420003156 D-loop; other site 909420003157 H-loop/switch region; other site 909420003158 ABC transporter; Region: ABC_tran_2; pfam12848 909420003159 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 909420003160 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420003161 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420003162 Homeodomain-like domain; Region: HTH_32; pfam13565 909420003163 Integrase core domain; Region: rve; pfam00665 909420003164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 909420003165 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 909420003166 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 909420003167 dimerization interface [polypeptide binding]; other site 909420003168 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 909420003169 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 909420003170 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 909420003171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420003172 catalytic residue [active] 909420003173 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 909420003174 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 909420003175 FAD binding pocket [chemical binding]; other site 909420003176 FAD binding motif [chemical binding]; other site 909420003177 phosphate binding motif [ion binding]; other site 909420003178 beta-alpha-beta structure motif; other site 909420003179 NAD binding pocket [chemical binding]; other site 909420003180 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 909420003181 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 909420003182 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 909420003183 metal-binding site [ion binding] 909420003184 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 909420003185 Soluble P-type ATPase [General function prediction only]; Region: COG4087 909420003186 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 909420003187 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 909420003188 HflX GTPase family; Region: HflX; cd01878 909420003189 G1 box; other site 909420003190 GTP/Mg2+ binding site [chemical binding]; other site 909420003191 Switch I region; other site 909420003192 G2 box; other site 909420003193 G3 box; other site 909420003194 Switch II region; other site 909420003195 G4 box; other site 909420003196 G5 box; other site 909420003197 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 909420003198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 909420003199 hypothetical protein; Reviewed; Region: PRK00024 909420003200 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 909420003201 MPN+ (JAMM) motif; other site 909420003202 Zinc-binding site [ion binding]; other site 909420003203 Glutamate-cysteine ligase; Region: GshA; pfam08886 909420003204 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 909420003205 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 909420003206 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 909420003207 substrate binding site [chemical binding]; other site 909420003208 ligand binding site [chemical binding]; other site 909420003209 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 909420003210 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 909420003211 substrate binding site [chemical binding]; other site 909420003212 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 909420003213 tartrate dehydrogenase; Region: TTC; TIGR02089 909420003214 Uncharacterized conserved protein [Function unknown]; Region: COG2353 909420003215 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 909420003216 Aspartase; Region: Aspartase; cd01357 909420003217 active sites [active] 909420003218 tetramer interface [polypeptide binding]; other site 909420003219 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 909420003220 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 909420003221 HSP70 interaction site [polypeptide binding]; other site 909420003222 Predicted membrane protein [Function unknown]; Region: COG3671 909420003223 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 909420003224 putative deacylase active site [active] 909420003225 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 909420003226 homotrimer interaction site [polypeptide binding]; other site 909420003227 putative active site [active] 909420003228 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 909420003229 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 909420003230 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 909420003231 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 909420003232 Ligand Binding Site [chemical binding]; other site 909420003233 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420003234 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420003235 Homeodomain-like domain; Region: HTH_32; pfam13565 909420003236 Integrase core domain; Region: rve; pfam00665 909420003237 anthranilate synthase component I; Provisional; Region: PRK13565 909420003238 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 909420003239 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 909420003240 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 909420003241 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 909420003242 XdhC Rossmann domain; Region: XdhC_C; pfam13478 909420003243 ATP-grasp domain; Region: ATP-grasp; pfam02222 909420003244 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 909420003245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909420003246 Coenzyme A binding pocket [chemical binding]; other site 909420003247 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 909420003248 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 909420003249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 909420003250 Smr domain; Region: Smr; pfam01713 909420003251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 909420003252 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 909420003253 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 909420003254 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 909420003255 Predicted transcriptional regulator [Transcription]; Region: COG2932 909420003256 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 909420003257 Catalytic site [active] 909420003258 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 909420003259 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 909420003260 non-specific DNA binding site [nucleotide binding]; other site 909420003261 salt bridge; other site 909420003262 sequence-specific DNA binding site [nucleotide binding]; other site 909420003263 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 909420003264 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 909420003265 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 909420003266 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420003267 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 909420003268 Transposase domain (DUF772); Region: DUF772; pfam05598 909420003269 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420003270 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 909420003271 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 909420003272 FMN binding site [chemical binding]; other site 909420003273 active site 909420003274 catalytic residues [active] 909420003275 substrate binding site [chemical binding]; other site 909420003276 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 909420003277 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 909420003278 FAD binding domain; Region: FAD_binding_4; pfam01565 909420003279 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 909420003280 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 909420003281 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 909420003282 Cysteine-rich domain; Region: CCG; pfam02754 909420003283 Cysteine-rich domain; Region: CCG; pfam02754 909420003284 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 909420003285 D-lactate dehydrogenase; Provisional; Region: PRK11183 909420003286 FAD binding domain; Region: FAD_binding_4; pfam01565 909420003287 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 909420003288 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 909420003289 Uncharacterized conserved protein [Function unknown]; Region: COG2128 909420003290 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 909420003291 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 909420003292 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 909420003293 active site 909420003294 Rubredoxin [Energy production and conversion]; Region: COG1773 909420003295 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 909420003296 iron binding site [ion binding]; other site 909420003297 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 909420003298 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 909420003299 YadA-like C-terminal region; Region: YadA; pfam03895 909420003300 Transposase domain (DUF772); Region: DUF772; pfam05598 909420003301 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420003302 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 909420003303 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 909420003304 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 909420003305 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 909420003306 active site 909420003307 metal binding site [ion binding]; metal-binding site 909420003308 Mor transcription activator family; Region: Mor; cl02360 909420003309 Mu-like prophage protein gp16 [Function unknown]; Region: COG4382 909420003310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909420003311 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909420003312 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 909420003313 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 909420003314 purine monophosphate binding site [chemical binding]; other site 909420003315 dimer interface [polypeptide binding]; other site 909420003316 putative catalytic residues [active] 909420003317 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 909420003318 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 909420003319 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 909420003320 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 909420003321 putative ion selectivity filter; other site 909420003322 putative pore gating glutamate residue; other site 909420003323 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 909420003324 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 909420003325 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 909420003326 motif II; other site 909420003327 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 909420003328 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 909420003329 ligand binding site [chemical binding]; other site 909420003330 homodimer interface [polypeptide binding]; other site 909420003331 NAD(P) binding site [chemical binding]; other site 909420003332 trimer interface B [polypeptide binding]; other site 909420003333 trimer interface A [polypeptide binding]; other site 909420003334 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 909420003335 Predicted membrane protein [Function unknown]; Region: COG3686 909420003336 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 909420003337 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 909420003338 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 909420003339 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 909420003340 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 909420003341 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 909420003342 Replication initiation factor; Region: Rep_trans; pfam02486 909420003343 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 909420003344 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 909420003345 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 909420003346 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 909420003347 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 909420003348 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 909420003349 glutamine binding [chemical binding]; other site 909420003350 catalytic triad [active] 909420003351 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 909420003352 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 909420003353 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 909420003354 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 909420003355 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 909420003356 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 909420003357 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 909420003358 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 909420003359 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 909420003360 CoA binding domain; Region: CoA_binding; smart00881 909420003361 CoA-ligase; Region: Ligase_CoA; pfam00549 909420003362 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 909420003363 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 909420003364 CoA-ligase; Region: Ligase_CoA; pfam00549 909420003365 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 909420003366 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 909420003367 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 909420003368 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 909420003369 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 909420003370 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 909420003371 E3 interaction surface; other site 909420003372 lipoyl attachment site [posttranslational modification]; other site 909420003373 e3 binding domain; Region: E3_binding; pfam02817 909420003374 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 909420003375 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 909420003376 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 909420003377 TPP-binding site [chemical binding]; other site 909420003378 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 909420003379 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 909420003380 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 909420003381 dimer interface [polypeptide binding]; other site 909420003382 active site 909420003383 citrylCoA binding site [chemical binding]; other site 909420003384 NADH binding [chemical binding]; other site 909420003385 cationic pore residues; other site 909420003386 oxalacetate/citrate binding site [chemical binding]; other site 909420003387 coenzyme A binding site [chemical binding]; other site 909420003388 catalytic triad [active] 909420003389 Uncharacterized conserved protein [Function unknown]; Region: COG2938 909420003390 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 909420003391 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 909420003392 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 909420003393 L-aspartate oxidase; Provisional; Region: PRK06175 909420003394 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 909420003395 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 909420003396 SdhC subunit interface [polypeptide binding]; other site 909420003397 proximal heme binding site [chemical binding]; other site 909420003398 cardiolipin binding site; other site 909420003399 Iron-sulfur protein interface; other site 909420003400 proximal quinone binding site [chemical binding]; other site 909420003401 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 909420003402 Iron-sulfur protein interface; other site 909420003403 proximal quinone binding site [chemical binding]; other site 909420003404 SdhD (CybS) interface [polypeptide binding]; other site 909420003405 proximal heme binding site [chemical binding]; other site 909420003406 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 909420003407 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 909420003408 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 909420003409 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 909420003410 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 909420003411 catalytic triad [active] 909420003412 dimer interface [polypeptide binding]; other site 909420003413 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 909420003414 GSH binding site [chemical binding]; other site 909420003415 catalytic residues [active] 909420003416 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 909420003417 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 909420003418 THF binding site; other site 909420003419 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 909420003420 substrate binding site [chemical binding]; other site 909420003421 THF binding site; other site 909420003422 zinc-binding site [ion binding]; other site 909420003423 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 909420003424 FAD binding site [chemical binding]; other site 909420003425 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 909420003426 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 909420003427 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 909420003428 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 909420003429 Methyltransferase domain; Region: Methyltransf_23; pfam13489 909420003430 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 909420003431 S-adenosylmethionine binding site [chemical binding]; other site 909420003432 elongation factor P; Validated; Region: PRK00529 909420003433 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 909420003434 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 909420003435 RNA binding site [nucleotide binding]; other site 909420003436 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 909420003437 RNA binding site [nucleotide binding]; other site 909420003438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 909420003439 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 909420003440 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 909420003441 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 909420003442 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 909420003443 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 909420003444 nucleoside/Zn binding site; other site 909420003445 dimer interface [polypeptide binding]; other site 909420003446 catalytic motif [active] 909420003447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 909420003448 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 909420003449 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 909420003450 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 909420003451 xanthine permease; Region: pbuX; TIGR03173 909420003452 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 909420003453 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 909420003454 dimer interface [polypeptide binding]; other site 909420003455 active site 909420003456 catalytic residue [active] 909420003457 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 909420003458 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 909420003459 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 909420003460 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 909420003461 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 909420003462 malonic semialdehyde reductase; Provisional; Region: PRK10538 909420003463 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 909420003464 putative NAD(P) binding site [chemical binding]; other site 909420003465 homotetramer interface [polypeptide binding]; other site 909420003466 homodimer interface [polypeptide binding]; other site 909420003467 active site 909420003468 Cytochrome c556 [Energy production and conversion]; Region: COG3909 909420003469 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 909420003470 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 909420003471 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 909420003472 Transposase domain (DUF772); Region: DUF772; pfam05598 909420003473 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420003474 DDE superfamily endonuclease; Region: DDE_4; cl17710 909420003475 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 909420003476 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional; Region: PRK14844 909420003477 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 909420003478 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 909420003479 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 909420003480 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420003481 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420003482 Homeodomain-like domain; Region: HTH_32; pfam13565 909420003483 Integrase core domain; Region: rve; pfam00665 909420003484 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 909420003485 non-specific DNA binding site [nucleotide binding]; other site 909420003486 Predicted transcriptional regulator [Transcription]; Region: COG2932 909420003487 salt bridge; other site 909420003488 sequence-specific DNA binding site [nucleotide binding]; other site 909420003489 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 909420003490 Catalytic site [active] 909420003491 Uncharacterized conserved protein [Function unknown]; Region: COG5532 909420003492 Predicted helicase [General function prediction only]; Region: COG4889 909420003493 KilA-N domain; Region: KilA-N; pfam04383 909420003494 PemK-like protein; Region: PemK; cl00995 909420003495 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 909420003496 active site 909420003497 Int/Topo IB signature motif; other site 909420003498 hypothetical protein; Validated; Region: PRK02101 909420003499 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 909420003500 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 909420003501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420003502 homodimer interface [polypeptide binding]; other site 909420003503 catalytic residue [active] 909420003504 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 909420003505 trimer interface [polypeptide binding]; other site 909420003506 active site 909420003507 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 909420003508 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 909420003509 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 909420003510 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 909420003511 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 909420003512 PilX N-terminal; Region: PilX_N; pfam14341 909420003513 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 909420003514 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 909420003515 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 909420003516 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 909420003517 Type II transport protein GspH; Region: GspH; pfam12019 909420003518 replicative DNA helicase; Region: DnaB; TIGR00665 909420003519 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 909420003520 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 909420003521 Walker A motif; other site 909420003522 ATP binding site [chemical binding]; other site 909420003523 Walker B motif; other site 909420003524 DNA binding loops [nucleotide binding] 909420003525 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 909420003526 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 909420003527 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 909420003528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 909420003529 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 909420003530 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 909420003531 dimer interface [polypeptide binding]; other site 909420003532 conserved gate region; other site 909420003533 putative PBP binding loops; other site 909420003534 ABC-ATPase subunit interface; other site 909420003535 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 909420003536 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 909420003537 dimer interface [polypeptide binding]; other site 909420003538 conserved gate region; other site 909420003539 putative PBP binding loops; other site 909420003540 ABC-ATPase subunit interface; other site 909420003541 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 909420003542 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 909420003543 Walker A/P-loop; other site 909420003544 ATP binding site [chemical binding]; other site 909420003545 Q-loop/lid; other site 909420003546 ABC transporter signature motif; other site 909420003547 Walker B; other site 909420003548 D-loop; other site 909420003549 H-loop/switch region; other site 909420003550 threonine dehydratase; Reviewed; Region: PRK09224 909420003551 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 909420003552 tetramer interface [polypeptide binding]; other site 909420003553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420003554 catalytic residue [active] 909420003555 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 909420003556 putative Ile/Val binding site [chemical binding]; other site 909420003557 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 909420003558 putative Ile/Val binding site [chemical binding]; other site 909420003559 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 909420003560 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 909420003561 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 909420003562 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 909420003563 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 909420003564 5S rRNA interface [nucleotide binding]; other site 909420003565 CTC domain interface [polypeptide binding]; other site 909420003566 L16 interface [polypeptide binding]; other site 909420003567 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 909420003568 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 909420003569 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909420003570 active site 909420003571 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 909420003572 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 909420003573 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 909420003574 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 909420003575 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 909420003576 TPR repeat; Region: TPR_11; pfam13414 909420003577 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 909420003578 binding surface 909420003579 TPR motif; other site 909420003580 Pantoate-beta-alanine ligase; Region: PanC; cd00560 909420003581 active site 909420003582 ATP-binding site [chemical binding]; other site 909420003583 pantoate-binding site; other site 909420003584 HXXH motif; other site 909420003585 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 909420003586 oligomerization interface [polypeptide binding]; other site 909420003587 active site 909420003588 metal binding site [ion binding]; metal-binding site 909420003589 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 909420003590 S-adenosylmethionine binding site [chemical binding]; other site 909420003591 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 909420003592 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 909420003593 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 909420003594 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 909420003595 probable active site [active] 909420003596 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 909420003597 putative active site [active] 909420003598 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 909420003599 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 909420003600 dimer interface [polypeptide binding]; other site 909420003601 motif 1; other site 909420003602 active site 909420003603 motif 2; other site 909420003604 motif 3; other site 909420003605 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 909420003606 anticodon binding site; other site 909420003607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 909420003608 GTP-binding protein Der; Reviewed; Region: PRK00093 909420003609 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 909420003610 G1 box; other site 909420003611 GTP/Mg2+ binding site [chemical binding]; other site 909420003612 Switch I region; other site 909420003613 G2 box; other site 909420003614 Switch II region; other site 909420003615 G3 box; other site 909420003616 G4 box; other site 909420003617 G5 box; other site 909420003618 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 909420003619 G1 box; other site 909420003620 GTP/Mg2+ binding site [chemical binding]; other site 909420003621 Switch I region; other site 909420003622 G2 box; other site 909420003623 G3 box; other site 909420003624 Switch II region; other site 909420003625 G4 box; other site 909420003626 G5 box; other site 909420003627 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 909420003628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 909420003629 MORN repeat; Region: MORN; cl14787 909420003630 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 909420003631 trimer interface [polypeptide binding]; other site 909420003632 active site 909420003633 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 909420003634 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 909420003635 PhoH-like protein; Region: PhoH; pfam02562 909420003636 poly(A) polymerase; Region: pcnB; TIGR01942 909420003637 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 909420003638 active site 909420003639 NTP binding site [chemical binding]; other site 909420003640 metal binding triad [ion binding]; metal-binding site 909420003641 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 909420003642 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 909420003643 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 909420003644 DHH family; Region: DHH; pfam01368 909420003645 DHHA1 domain; Region: DHHA1; pfam02272 909420003646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 909420003647 peptidase PmbA; Provisional; Region: PRK11040 909420003648 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 909420003649 DNA-binding site [nucleotide binding]; DNA binding site 909420003650 RNA-binding motif; other site 909420003651 Uncharacterized conserved protein [Function unknown]; Region: COG2127 909420003652 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 909420003653 Clp amino terminal domain; Region: Clp_N; pfam02861 909420003654 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 909420003655 Walker A motif; other site 909420003656 ATP binding site [chemical binding]; other site 909420003657 Walker B motif; other site 909420003658 arginine finger; other site 909420003659 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 909420003660 Walker A motif; other site 909420003661 ATP binding site [chemical binding]; other site 909420003662 Walker B motif; other site 909420003663 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 909420003664 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420003665 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420003666 Homeodomain-like domain; Region: HTH_32; pfam13565 909420003667 Integrase core domain; Region: rve; pfam00665 909420003668 AAA domain; Region: AAA_13; pfam13166 909420003669 AAA domain; Region: AAA_13; pfam13166 909420003670 Virulence protein [General function prediction only]; Region: COG3943 909420003671 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 909420003672 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 909420003673 HsdM N-terminal domain; Region: HsdM_N; pfam12161 909420003674 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 909420003675 S-adenosylmethionine binding site [chemical binding]; other site 909420003676 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 909420003677 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 909420003678 NADP binding site [chemical binding]; other site 909420003679 homopentamer interface [polypeptide binding]; other site 909420003680 substrate binding site [chemical binding]; other site 909420003681 active site 909420003682 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 909420003683 HNH endonuclease; Region: HNH_2; pfam13391 909420003684 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 909420003685 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 909420003686 cofactor binding site; other site 909420003687 DNA binding site [nucleotide binding] 909420003688 substrate interaction site [chemical binding]; other site 909420003689 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 909420003690 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 909420003691 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 909420003692 putative ribose interaction site [chemical binding]; other site 909420003693 putative ADP binding site [chemical binding]; other site 909420003694 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 909420003695 active site 909420003696 dimer interface [polypeptide binding]; other site 909420003697 adenylate kinase; Reviewed; Region: adk; PRK00279 909420003698 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 909420003699 AMP-binding site [chemical binding]; other site 909420003700 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 909420003701 heat shock protein HtpX; Provisional; Region: PRK05457 909420003702 Protein of unknown function (DUF723); Region: DUF723; pfam05265 909420003703 NUMOD1 domain; Region: NUMOD1; pfam07453 909420003704 Protein of unknown function (DUF723); Region: DUF723; pfam05265 909420003705 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 909420003706 Protein of unknown function (DUF723); Region: DUF723; pfam05265 909420003707 Protein of unknown function (DUF723); Region: DUF723; pfam05265 909420003708 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 909420003709 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 909420003710 GDP-binding site [chemical binding]; other site 909420003711 ACT binding site; other site 909420003712 IMP binding site; other site 909420003713 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 909420003714 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 909420003715 dimer interface [polypeptide binding]; other site 909420003716 motif 1; other site 909420003717 active site 909420003718 motif 2; other site 909420003719 motif 3; other site 909420003720 multidrug efflux protein; Reviewed; Region: PRK01766 909420003721 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 909420003722 cation binding site [ion binding]; other site 909420003723 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 909420003724 FAD binding domain; Region: FAD_binding_4; pfam01565 909420003725 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 909420003726 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 909420003727 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 909420003728 Bacterial transcriptional repressor; Region: TetR; pfam13972 909420003729 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 909420003730 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 909420003731 putative NAD(P) binding site [chemical binding]; other site 909420003732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 909420003733 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 909420003734 ATP-NAD kinase; Region: NAD_kinase; pfam01513 909420003735 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 909420003736 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 909420003737 RNA binding surface [nucleotide binding]; other site 909420003738 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 909420003739 active site 909420003740 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420003741 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420003742 Homeodomain-like domain; Region: HTH_32; pfam13565 909420003743 Integrase core domain; Region: rve; pfam00665 909420003744 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 909420003745 dimer interface [polypeptide binding]; other site 909420003746 FMN binding site [chemical binding]; other site 909420003747 putative GTP cyclohydrolase; Provisional; Region: PRK13674 909420003748 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 909420003749 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 909420003750 homodimer interface [polypeptide binding]; other site 909420003751 substrate-cofactor binding pocket; other site 909420003752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420003753 catalytic residue [active] 909420003754 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 909420003755 dimer interface [polypeptide binding]; other site 909420003756 active site 909420003757 aspartate-rich active site metal binding site; other site 909420003758 allosteric magnesium binding site [ion binding]; other site 909420003759 Schiff base residues; other site 909420003760 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 909420003761 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 909420003762 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 909420003763 S-adenosylmethionine binding site [chemical binding]; other site 909420003764 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 909420003765 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 909420003766 Walker A motif; other site 909420003767 ATP binding site [chemical binding]; other site 909420003768 Walker B motif; other site 909420003769 arginine finger; other site 909420003770 Peptidase family M41; Region: Peptidase_M41; pfam01434 909420003771 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 909420003772 putative coenzyme Q binding site [chemical binding]; other site 909420003773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 909420003774 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 909420003775 putative active site [active] 909420003776 catalytic residue [active] 909420003777 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 909420003778 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 909420003779 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 909420003780 active site 909420003781 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 909420003782 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 909420003783 active site 909420003784 substrate binding site [chemical binding]; other site 909420003785 metal binding site [ion binding]; metal-binding site 909420003786 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 909420003787 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 909420003788 Walker A/P-loop; other site 909420003789 ATP binding site [chemical binding]; other site 909420003790 Q-loop/lid; other site 909420003791 ABC transporter signature motif; other site 909420003792 Walker B; other site 909420003793 D-loop; other site 909420003794 H-loop/switch region; other site 909420003795 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 909420003796 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 909420003797 dimer interface [polypeptide binding]; other site 909420003798 conserved gate region; other site 909420003799 putative PBP binding loops; other site 909420003800 ABC-ATPase subunit interface; other site 909420003801 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 909420003802 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 909420003803 substrate binding pocket [chemical binding]; other site 909420003804 membrane-bound complex binding site; other site 909420003805 hinge residues; other site 909420003806 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 909420003807 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 909420003808 Part of AAA domain; Region: AAA_19; pfam13245 909420003809 Family description; Region: UvrD_C_2; pfam13538 909420003810 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 909420003811 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 909420003812 active site residue [active] 909420003813 Uncharacterized conserved protein [Function unknown]; Region: COG3439 909420003814 DNA repair protein RadA; Provisional; Region: PRK11823 909420003815 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 909420003816 Walker A motif/ATP binding site; other site 909420003817 ATP binding site [chemical binding]; other site 909420003818 Walker B motif; other site 909420003819 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 909420003820 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 909420003821 substrate binding site [chemical binding]; other site 909420003822 active site 909420003823 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 909420003824 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 909420003825 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 909420003826 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 909420003827 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 909420003828 active site 909420003829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 909420003830 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909420003831 active site 909420003832 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 909420003833 putative GSH binding site [chemical binding]; other site 909420003834 catalytic residues [active] 909420003835 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 909420003836 Domain of unknown function (DUF333); Region: DUF333; pfam03891 909420003837 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 909420003838 active site 909420003839 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 909420003840 DNA polymerase III subunit delta'; Validated; Region: PRK08699 909420003841 DNA polymerase III subunit delta'; Validated; Region: PRK08485 909420003842 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 909420003843 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 909420003844 Walker A motif; other site 909420003845 ATP binding site [chemical binding]; other site 909420003846 Walker B motif; other site 909420003847 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 909420003848 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 909420003849 GTP-binding protein LepA; Provisional; Region: PRK05433 909420003850 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 909420003851 G1 box; other site 909420003852 putative GEF interaction site [polypeptide binding]; other site 909420003853 GTP/Mg2+ binding site [chemical binding]; other site 909420003854 Switch I region; other site 909420003855 G2 box; other site 909420003856 G3 box; other site 909420003857 Switch II region; other site 909420003858 G4 box; other site 909420003859 G5 box; other site 909420003860 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 909420003861 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 909420003862 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 909420003863 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 909420003864 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 909420003865 Catalytic site [active] 909420003866 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 909420003867 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 909420003868 EamA-like transporter family; Region: EamA; pfam00892 909420003869 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 909420003870 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 909420003871 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 909420003872 dimer interface [polypeptide binding]; other site 909420003873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420003874 catalytic residue [active] 909420003875 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 909420003876 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 909420003877 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 909420003878 Uncharacterized conserved protein [Function unknown]; Region: COG2836 909420003879 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 909420003880 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 909420003881 RNase E interface [polypeptide binding]; other site 909420003882 trimer interface [polypeptide binding]; other site 909420003883 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 909420003884 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 909420003885 RNase E interface [polypeptide binding]; other site 909420003886 trimer interface [polypeptide binding]; other site 909420003887 active site 909420003888 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 909420003889 putative nucleic acid binding region [nucleotide binding]; other site 909420003890 G-X-X-G motif; other site 909420003891 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 909420003892 RNA binding site [nucleotide binding]; other site 909420003893 domain interface; other site 909420003894 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 909420003895 ATP binding site [chemical binding]; other site 909420003896 active site 909420003897 substrate binding site [chemical binding]; other site 909420003898 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 909420003899 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 909420003900 NADP binding site [chemical binding]; other site 909420003901 active site 909420003902 putative substrate binding site [chemical binding]; other site 909420003903 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 909420003904 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 909420003905 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 909420003906 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 909420003907 active site 909420003908 Int/Topo IB signature motif; other site 909420003909 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 909420003910 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 909420003911 catalytic triad [active] 909420003912 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 909420003913 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 909420003914 bacterial Hfq-like; Region: Hfq; cd01716 909420003915 hexamer interface [polypeptide binding]; other site 909420003916 Sm1 motif; other site 909420003917 RNA binding site [nucleotide binding]; other site 909420003918 Sm2 motif; other site 909420003919 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 909420003920 S-adenosylmethionine binding site [chemical binding]; other site 909420003921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 909420003922 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 909420003923 catalytic center binding site [active] 909420003924 ATP binding site [chemical binding]; other site 909420003925 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 909420003926 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 909420003927 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 909420003928 S-adenosylmethionine binding site [chemical binding]; other site 909420003929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 909420003930 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 909420003931 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 909420003932 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420003933 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420003934 Homeodomain-like domain; Region: HTH_32; pfam13565 909420003935 Integrase core domain; Region: rve; pfam00665 909420003936 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 909420003937 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 909420003938 Walker A/P-loop; other site 909420003939 ATP binding site [chemical binding]; other site 909420003940 Q-loop/lid; other site 909420003941 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 909420003942 ABC transporter signature motif; other site 909420003943 Walker B; other site 909420003944 D-loop; other site 909420003945 H-loop/switch region; other site 909420003946 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 909420003947 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 909420003948 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 909420003949 GTP/Mg2+ binding site [chemical binding]; other site 909420003950 G4 box; other site 909420003951 G5 box; other site 909420003952 G1 box; other site 909420003953 Switch I region; other site 909420003954 G2 box; other site 909420003955 G3 box; other site 909420003956 Switch II region; other site 909420003957 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 909420003958 AAA domain; Region: AAA_33; pfam13671 909420003959 HPr kinase/phosphorylase; Provisional; Region: PRK05428 909420003960 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 909420003961 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 909420003962 Hpr binding site; other site 909420003963 active site 909420003964 homohexamer subunit interaction site [polypeptide binding]; other site 909420003965 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 909420003966 active site 909420003967 phosphorylation site [posttranslational modification] 909420003968 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 909420003969 UbiA prenyltransferase family; Region: UbiA; pfam01040 909420003970 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 909420003971 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 909420003972 AAA domain; Region: AAA_26; pfam13500 909420003973 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 909420003974 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 909420003975 inhibitor-cofactor binding pocket; inhibition site 909420003976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420003977 catalytic residue [active] 909420003978 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 909420003979 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 909420003980 IHF - DNA interface [nucleotide binding]; other site 909420003981 IHF dimer interface [polypeptide binding]; other site 909420003982 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 909420003983 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 909420003984 putative tRNA-binding site [nucleotide binding]; other site 909420003985 B3/4 domain; Region: B3_4; pfam03483 909420003986 tRNA synthetase B5 domain; Region: B5; smart00874 909420003987 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 909420003988 dimer interface [polypeptide binding]; other site 909420003989 motif 1; other site 909420003990 motif 3; other site 909420003991 motif 2; other site 909420003992 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 909420003993 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 909420003994 DNA methylase; Region: N6_N4_Mtase; cl17433 909420003995 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 909420003996 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 909420003997 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 909420003998 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 909420003999 cofactor binding site; other site 909420004000 DNA binding site [nucleotide binding] 909420004001 substrate interaction site [chemical binding]; other site 909420004002 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 909420004003 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 909420004004 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 909420004005 dimer interface [polypeptide binding]; other site 909420004006 motif 1; other site 909420004007 active site 909420004008 motif 2; other site 909420004009 motif 3; other site 909420004010 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 909420004011 23S rRNA binding site [nucleotide binding]; other site 909420004012 L21 binding site [polypeptide binding]; other site 909420004013 L13 binding site [polypeptide binding]; other site 909420004014 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 909420004015 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 909420004016 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 909420004017 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 909420004018 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 909420004019 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 909420004020 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 909420004021 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 909420004022 active site 909420004023 dimer interface [polypeptide binding]; other site 909420004024 motif 1; other site 909420004025 motif 2; other site 909420004026 motif 3; other site 909420004027 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 909420004028 anticodon binding site; other site 909420004029 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 909420004030 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 909420004031 ferrochelatase; Reviewed; Region: hemH; PRK00035 909420004032 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 909420004033 C-terminal domain interface [polypeptide binding]; other site 909420004034 active site 909420004035 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 909420004036 active site 909420004037 N-terminal domain interface [polypeptide binding]; other site 909420004038 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 909420004039 Cytochrome c; Region: Cytochrom_C; pfam00034 909420004040 potassium/proton antiporter; Reviewed; Region: PRK05326 909420004041 potassium/proton antiporter; Reviewed; Region: PRK05326 909420004042 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 909420004043 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 909420004044 putative active site [active] 909420004045 catalytic triad [active] 909420004046 putative dimer interface [polypeptide binding]; other site 909420004047 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 909420004048 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 909420004049 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 909420004050 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 909420004051 DNA binding residues [nucleotide binding] 909420004052 hypothetical protein; Provisional; Region: PRK11820 909420004053 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 909420004054 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 909420004055 Predicted membrane protein/domain [Function unknown]; Region: COG1714 909420004056 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 909420004057 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 909420004058 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 909420004059 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 909420004060 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 909420004061 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 909420004062 Sodium Bile acid symporter family; Region: SBF; pfam01758 909420004063 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 909420004064 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 909420004065 RNA binding surface [nucleotide binding]; other site 909420004066 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 909420004067 active site 909420004068 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 909420004069 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 909420004070 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 909420004071 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 909420004072 Competence protein; Region: Competence; pfam03772 909420004073 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 909420004074 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 909420004075 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 909420004076 Autotransporter beta-domain; Region: Autotransporter; pfam03797 909420004077 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 909420004078 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 909420004079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420004080 catalytic residue [active] 909420004081 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 909420004082 putative active site [active] 909420004083 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 909420004084 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 909420004085 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 909420004086 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 909420004087 Walker A/P-loop; other site 909420004088 ATP binding site [chemical binding]; other site 909420004089 Q-loop/lid; other site 909420004090 ABC transporter signature motif; other site 909420004091 Walker B; other site 909420004092 D-loop; other site 909420004093 H-loop/switch region; other site 909420004094 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 909420004095 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 909420004096 cell division protein FtsN; Region: ftsN; TIGR02223 909420004097 Sporulation related domain; Region: SPOR; pfam05036 909420004098 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 909420004099 Colicin V production protein; Region: Colicin_V; pfam02674 909420004100 amidophosphoribosyltransferase; Provisional; Region: PRK09246 909420004101 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 909420004102 active site 909420004103 tetramer interface [polypeptide binding]; other site 909420004104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909420004105 active site 909420004106 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 909420004107 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 909420004108 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 909420004109 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 909420004110 active site 909420004111 GTPase Era; Reviewed; Region: era; PRK00089 909420004112 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 909420004113 G1 box; other site 909420004114 GTP/Mg2+ binding site [chemical binding]; other site 909420004115 Switch I region; other site 909420004116 G2 box; other site 909420004117 Switch II region; other site 909420004118 G3 box; other site 909420004119 G4 box; other site 909420004120 G5 box; other site 909420004121 KH domain; Region: KH_2; pfam07650 909420004122 ribonuclease III; Reviewed; Region: rnc; PRK00102 909420004123 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 909420004124 dimerization interface [polypeptide binding]; other site 909420004125 active site 909420004126 metal binding site [ion binding]; metal-binding site 909420004127 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 909420004128 dsRNA binding site [nucleotide binding]; other site 909420004129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 909420004130 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 909420004131 homopentamer interface [polypeptide binding]; other site 909420004132 active site 909420004133 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 909420004134 putative RNA binding site [nucleotide binding]; other site 909420004135 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 909420004136 active site 909420004137 substrate binding pocket [chemical binding]; other site 909420004138 dimer interface [polypeptide binding]; other site 909420004139 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 909420004140 CPxP motif; other site 909420004141 CNP1-like family; Region: CNP1; pfam08750 909420004142 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 909420004143 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 909420004144 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 909420004145 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 909420004146 substrate binding site [chemical binding]; other site 909420004147 active site 909420004148 catalytic residues [active] 909420004149 heterodimer interface [polypeptide binding]; other site 909420004150 conjugal transfer ATP-binding protein TraC; Provisional; Region: PRK13721 909420004151 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 909420004152 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 909420004153 Ligand binding site; other site 909420004154 oligomer interface; other site 909420004155 Uncharacterized conserved protein [Function unknown]; Region: COG2835 909420004156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 909420004157 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 909420004158 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 909420004159 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 909420004160 Malic enzyme, N-terminal domain; Region: malic; pfam00390 909420004161 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 909420004162 putative NAD(P) binding site [chemical binding]; other site 909420004163 thymidylate kinase; Validated; Region: tmk; PRK00698 909420004164 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 909420004165 TMP-binding site; other site 909420004166 ATP-binding site [chemical binding]; other site 909420004167 YceG-like family; Region: YceG; pfam02618 909420004168 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 909420004169 dimerization interface [polypeptide binding]; other site 909420004170 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 909420004171 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 909420004172 amidase catalytic site [active] 909420004173 Zn binding residues [ion binding]; other site 909420004174 substrate binding site [chemical binding]; other site 909420004175 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 909420004176 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 909420004177 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 909420004178 nucleotide binding pocket [chemical binding]; other site 909420004179 K-X-D-G motif; other site 909420004180 catalytic site [active] 909420004181 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 909420004182 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 909420004183 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 909420004184 Dimer interface [polypeptide binding]; other site 909420004185 BRCT sequence motif; other site 909420004186 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 909420004187 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 909420004188 FeS/SAM binding site; other site 909420004189 HemN C-terminal domain; Region: HemN_C; pfam06969 909420004190 Opacity family porin protein; Region: Opacity; pfam02462 909420004191 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 909420004192 homotrimer interaction site [polypeptide binding]; other site 909420004193 putative active site [active] 909420004194 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 909420004195 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 909420004196 active site 909420004197 metal binding site [ion binding]; metal-binding site 909420004198 Cation transport protein; Region: TrkH; cl17365 909420004199 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 909420004200 Pretoxin HINT domain; Region: PT-HINT; pfam07591 909420004201 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 909420004202 thioester formation/cholesterol transfer; other site 909420004203 protein-splicing catalytic site; other site 909420004204 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 909420004205 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 909420004206 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 909420004207 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 909420004208 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 909420004209 RNAase interaction site [polypeptide binding]; other site 909420004210 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 909420004211 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 909420004212 nudix motif; other site 909420004213 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 909420004214 dimer interface [polypeptide binding]; other site 909420004215 substrate binding site [chemical binding]; other site 909420004216 metal binding sites [ion binding]; metal-binding site 909420004217 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 909420004218 active site 909420004219 dimerization interface [polypeptide binding]; other site 909420004220 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 909420004221 active site 909420004222 tetramer interface; other site 909420004223 argininosuccinate lyase; Provisional; Region: PRK00855 909420004224 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 909420004225 active sites [active] 909420004226 tetramer interface [polypeptide binding]; other site 909420004227 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420004228 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420004229 Homeodomain-like domain; Region: HTH_32; pfam13565 909420004230 Integrase core domain; Region: rve; pfam00665 909420004231 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 909420004232 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 909420004233 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 909420004234 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 909420004235 dimer interface [polypeptide binding]; other site 909420004236 conserved gate region; other site 909420004237 putative PBP binding loops; other site 909420004238 ABC-ATPase subunit interface; other site 909420004239 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 909420004240 dimer interface [polypeptide binding]; other site 909420004241 conserved gate region; other site 909420004242 ABC-ATPase subunit interface; other site 909420004243 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 909420004244 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 909420004245 Walker A/P-loop; other site 909420004246 ATP binding site [chemical binding]; other site 909420004247 Q-loop/lid; other site 909420004248 ABC transporter signature motif; other site 909420004249 Walker B; other site 909420004250 D-loop; other site 909420004251 H-loop/switch region; other site 909420004252 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 909420004253 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 909420004254 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 909420004255 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 909420004256 putative active site [active] 909420004257 oxyanion strand; other site 909420004258 catalytic triad [active] 909420004259 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 909420004260 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 909420004261 catalytic residues [active] 909420004262 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 909420004263 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 909420004264 substrate binding site [chemical binding]; other site 909420004265 glutamase interaction surface [polypeptide binding]; other site 909420004266 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 909420004267 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 909420004268 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 909420004269 G1 box; other site 909420004270 putative GEF interaction site [polypeptide binding]; other site 909420004271 GTP/Mg2+ binding site [chemical binding]; other site 909420004272 Switch I region; other site 909420004273 G2 box; other site 909420004274 G3 box; other site 909420004275 Switch II region; other site 909420004276 G4 box; other site 909420004277 G5 box; other site 909420004278 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 909420004279 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 909420004280 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 909420004281 trimer interface [polypeptide binding]; other site 909420004282 putative metal binding site [ion binding]; other site 909420004283 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 909420004284 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 909420004285 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 909420004286 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 909420004287 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 909420004288 dinuclear metal binding motif [ion binding]; other site 909420004289 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 909420004290 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 909420004291 motif II; other site 909420004292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 909420004293 phosphoenolpyruvate synthase; Validated; Region: PRK06464 909420004294 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 909420004295 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 909420004296 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 909420004297 transcription termination factor Rho; Provisional; Region: rho; PRK09376 909420004298 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 909420004299 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 909420004300 RNA binding site [nucleotide binding]; other site 909420004301 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 909420004302 multimer interface [polypeptide binding]; other site 909420004303 Walker A motif; other site 909420004304 ATP binding site [chemical binding]; other site 909420004305 Walker B motif; other site 909420004306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 909420004307 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 909420004308 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 909420004309 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 909420004310 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 909420004311 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 909420004312 dimer interface [polypeptide binding]; other site 909420004313 conserved gate region; other site 909420004314 putative PBP binding loops; other site 909420004315 ABC-ATPase subunit interface; other site 909420004316 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 909420004317 dimer interface [polypeptide binding]; other site 909420004318 conserved gate region; other site 909420004319 putative PBP binding loops; other site 909420004320 ABC-ATPase subunit interface; other site 909420004321 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 909420004322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909420004323 Walker A/P-loop; other site 909420004324 ATP binding site [chemical binding]; other site 909420004325 Q-loop/lid; other site 909420004326 ABC transporter signature motif; other site 909420004327 Walker B; other site 909420004328 D-loop; other site 909420004329 H-loop/switch region; other site 909420004330 TOBE domain; Region: TOBE_2; pfam08402 909420004331 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 909420004332 16S/18S rRNA binding site [nucleotide binding]; other site 909420004333 S13e-L30e interaction site [polypeptide binding]; other site 909420004334 25S rRNA binding site [nucleotide binding]; other site 909420004335 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 909420004336 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 909420004337 Protein export membrane protein; Region: SecD_SecF; pfam02355 909420004338 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 909420004339 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 909420004340 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 909420004341 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 909420004342 Preprotein translocase subunit; Region: YajC; pfam02699 909420004343 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 909420004344 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 909420004345 putative active site [active] 909420004346 Zn binding site [ion binding]; other site 909420004347 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 909420004348 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 909420004349 putative NAD(P) binding site [chemical binding]; other site 909420004350 catalytic Zn binding site [ion binding]; other site 909420004351 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 909420004352 metal binding site [ion binding]; metal-binding site 909420004353 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 909420004354 nucleotide binding site/active site [active] 909420004355 HIT family signature motif; other site 909420004356 catalytic residue [active] 909420004357 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 909420004358 sec-independent translocase; Provisional; Region: PRK00708 909420004359 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 909420004360 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 909420004361 Maf-like protein; Region: Maf; pfam02545 909420004362 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 909420004363 active site 909420004364 dimer interface [polypeptide binding]; other site 909420004365 Predicted membrane protein [Function unknown]; Region: COG3308 909420004366 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 909420004367 O-Antigen ligase; Region: Wzy_C; pfam04932 909420004368 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 909420004369 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 909420004370 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 909420004371 active site 909420004372 phosphorylation site [posttranslational modification] 909420004373 intermolecular recognition site; other site 909420004374 dimerization interface [polypeptide binding]; other site 909420004375 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 909420004376 DNA binding site [nucleotide binding] 909420004377 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 909420004378 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 909420004379 dimerization interface [polypeptide binding]; other site 909420004380 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 909420004381 dimer interface [polypeptide binding]; other site 909420004382 phosphorylation site [posttranslational modification] 909420004383 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 909420004384 ATP binding site [chemical binding]; other site 909420004385 Mg2+ binding site [ion binding]; other site 909420004386 G-X-G motif; other site 909420004387 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 909420004388 CoA binding domain; Region: CoA_binding_2; pfam13380 909420004389 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 909420004390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909420004391 Coenzyme A binding pocket [chemical binding]; other site 909420004392 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 909420004393 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 909420004394 RimM N-terminal domain; Region: RimM; pfam01782 909420004395 PRC-barrel domain; Region: PRC; pfam05239 909420004396 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 909420004397 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 909420004398 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 909420004399 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 909420004400 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 909420004401 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 909420004402 ABC-ATPase subunit interface; other site 909420004403 dimer interface [polypeptide binding]; other site 909420004404 putative PBP binding regions; other site 909420004405 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 909420004406 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 909420004407 metal binding site [ion binding]; metal-binding site 909420004408 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 909420004409 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 909420004410 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 909420004411 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 909420004412 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 909420004413 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 909420004414 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 909420004415 putative active site [active] 909420004416 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 909420004417 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 909420004418 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 909420004419 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 909420004420 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 909420004421 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 909420004422 FMN-binding domain; Region: FMN_bind; cl01081 909420004423 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 909420004424 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 909420004425 tRNA; other site 909420004426 putative tRNA binding site [nucleotide binding]; other site 909420004427 putative NADP binding site [chemical binding]; other site 909420004428 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 909420004429 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 909420004430 lipoyl attachment site [posttranslational modification]; other site 909420004431 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 909420004432 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 909420004433 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 909420004434 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 909420004435 putative DNA binding site [nucleotide binding]; other site 909420004436 putative Zn2+ binding site [ion binding]; other site 909420004437 AsnC family; Region: AsnC_trans_reg; pfam01037 909420004438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 909420004439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 909420004440 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 909420004441 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 909420004442 transmembrane helices; other site 909420004443 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 909420004444 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 909420004445 E3 interaction surface; other site 909420004446 lipoyl attachment site [posttranslational modification]; other site 909420004447 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 909420004448 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 909420004449 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 909420004450 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 909420004451 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 909420004452 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 909420004453 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 909420004454 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 909420004455 catalytic loop [active] 909420004456 iron binding site [ion binding]; other site 909420004457 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 909420004458 FAD binding pocket [chemical binding]; other site 909420004459 FAD binding motif [chemical binding]; other site 909420004460 phosphate binding motif [ion binding]; other site 909420004461 beta-alpha-beta structure motif; other site 909420004462 NAD binding pocket [chemical binding]; other site 909420004463 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 909420004464 ApbE family; Region: ApbE; pfam02424 909420004465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 909420004466 GrpE; Region: GrpE; pfam01025 909420004467 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 909420004468 dimer interface [polypeptide binding]; other site 909420004469 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 909420004470 serine acetyltransferase; Provisional; Region: cysE; PRK11132 909420004471 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 909420004472 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 909420004473 trimer interface [polypeptide binding]; other site 909420004474 active site 909420004475 substrate binding site [chemical binding]; other site 909420004476 CoA binding site [chemical binding]; other site 909420004477 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 909420004478 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 909420004479 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 909420004480 Predicted transcriptional regulator [Transcription]; Region: COG2932 909420004481 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 909420004482 Catalytic site [active] 909420004483 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 909420004484 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 909420004485 nucleotide binding site [chemical binding]; other site 909420004486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909420004487 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909420004488 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 909420004489 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 909420004490 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 909420004491 ATP binding site [chemical binding]; other site 909420004492 putative Mg++ binding site [ion binding]; other site 909420004493 helicase superfamily c-terminal domain; Region: HELICc; smart00490 909420004494 ATP-binding site [chemical binding]; other site 909420004495 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 909420004496 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 909420004497 dimerization domain [polypeptide binding]; other site 909420004498 dimer interface [polypeptide binding]; other site 909420004499 catalytic residues [active] 909420004500 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 909420004501 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 909420004502 Walker A/P-loop; other site 909420004503 ATP binding site [chemical binding]; other site 909420004504 Q-loop/lid; other site 909420004505 ABC transporter signature motif; other site 909420004506 Walker B; other site 909420004507 D-loop; other site 909420004508 H-loop/switch region; other site 909420004509 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 909420004510 FtsX-like permease family; Region: FtsX; pfam02687 909420004511 macrolide transporter subunit MacA; Provisional; Region: PRK11578 909420004512 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 909420004513 HlyD family secretion protein; Region: HlyD_3; pfam13437 909420004514 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 909420004515 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 909420004516 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 909420004517 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 909420004518 NAD binding site [chemical binding]; other site 909420004519 substrate binding site [chemical binding]; other site 909420004520 catalytic Zn binding site [ion binding]; other site 909420004521 tetramer interface [polypeptide binding]; other site 909420004522 structural Zn binding site [ion binding]; other site 909420004523 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 909420004524 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 909420004525 Walker A/P-loop; other site 909420004526 ATP binding site [chemical binding]; other site 909420004527 Q-loop/lid; other site 909420004528 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 909420004529 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 909420004530 ABC transporter signature motif; other site 909420004531 Walker B; other site 909420004532 D-loop; other site 909420004533 H-loop/switch region; other site 909420004534 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 909420004535 putative active site [active] 909420004536 putative metal binding site [ion binding]; other site 909420004537 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 909420004538 L-lactate permease; Region: Lactate_perm; cl00701 909420004539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 909420004540 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 909420004541 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 909420004542 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 909420004543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420004544 homodimer interface [polypeptide binding]; other site 909420004545 catalytic residue [active] 909420004546 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 909420004547 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 909420004548 domain interfaces; other site 909420004549 active site 909420004550 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 909420004551 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 909420004552 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 909420004553 Transporter associated domain; Region: CorC_HlyC; smart01091 909420004554 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 909420004555 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 909420004556 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 909420004557 putative substrate translocation pore; other site 909420004558 Predicted membrane protein [Function unknown]; Region: COG1238 909420004559 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 909420004560 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 909420004561 minor groove reading motif; other site 909420004562 helix-hairpin-helix signature motif; other site 909420004563 substrate binding pocket [chemical binding]; other site 909420004564 active site 909420004565 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 909420004566 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 909420004567 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 909420004568 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 909420004569 protein binding site [polypeptide binding]; other site 909420004570 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 909420004571 protein binding site [polypeptide binding]; other site 909420004572 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 909420004573 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 909420004574 beta-hexosaminidase; Provisional; Region: PRK05337 909420004575 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 909420004576 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 909420004577 FeS/SAM binding site; other site 909420004578 Predicted membrane protein [Function unknown]; Region: COG3759 909420004579 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 909420004580 active site 909420004581 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 909420004582 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 909420004583 Ligand Binding Site [chemical binding]; other site 909420004584 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 909420004585 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 909420004586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 909420004587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 909420004588 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 909420004589 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 909420004590 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 909420004591 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 909420004592 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 909420004593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 909420004594 haemagglutination activity domain; Region: Haemagg_act; pfam05860 909420004595 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 909420004596 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 909420004597 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 909420004598 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 909420004599 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 909420004600 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 909420004601 Initiator Replication protein; Region: Rep_3; pfam01051 909420004602 haemagglutination activity domain; Region: Haemagg_act; pfam05860 909420004603 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 909420004604 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 909420004605 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 909420004606 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 909420004607 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 909420004608 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 909420004609 Replication initiation factor; Region: Rep_trans; pfam02486 909420004610 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 909420004611 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 909420004612 Zonular occludens toxin (Zot); Region: Zot; pfam05707 909420004613 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 909420004614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 909420004615 Transposase; Region: DEDD_Tnp_IS110; pfam01548 909420004616 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 909420004617 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 909420004618 Integrase core domain; Region: rve; pfam00665 909420004619 Integrase core domain; Region: rve_2; pfam13333 909420004620 Helix-turn-helix domain; Region: HTH_28; pfam13518 909420004621 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 909420004622 Fic family protein [Function unknown]; Region: COG3177 909420004623 Fic/DOC family; Region: Fic; pfam02661 909420004624 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 909420004625 HipA N-terminal domain; Region: Couple_hipA; pfam13657 909420004626 HipA-like N-terminal domain; Region: HipA_N; pfam07805 909420004627 HipA-like C-terminal domain; Region: HipA_C; pfam07804 909420004628 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 909420004629 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 909420004630 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 909420004631 RTX toxin acyltransferase family; Region: HlyC; cl01131 909420004632 haemagglutination activity domain; Region: Haemagg_act; pfam05860 909420004633 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 909420004634 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 909420004635 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 909420004636 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 909420004637 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 909420004638 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420004639 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420004640 Homeodomain-like domain; Region: HTH_32; pfam13565 909420004641 Integrase core domain; Region: rve; pfam00665 909420004642 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 909420004643 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 909420004644 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 909420004645 haemagglutination activity domain; Region: Haemagg_act; pfam05860 909420004646 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 909420004647 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 909420004648 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 909420004649 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 909420004650 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 909420004651 Uncharacterized conserved protein [Function unknown]; Region: COG2850 909420004652 Cupin-like domain; Region: Cupin_8; pfam13621 909420004653 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 909420004654 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 909420004655 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 909420004656 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 909420004657 generic binding surface II; other site 909420004658 ssDNA binding site; other site 909420004659 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 909420004660 ATP binding site [chemical binding]; other site 909420004661 putative Mg++ binding site [ion binding]; other site 909420004662 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 909420004663 nucleotide binding region [chemical binding]; other site 909420004664 ATP-binding site [chemical binding]; other site 909420004665 protein-export chaperone SecB; Region: secB; TIGR00809 909420004666 SecA binding site; other site 909420004667 Preprotein binding site; other site 909420004668 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 909420004669 GSH binding site [chemical binding]; other site 909420004670 catalytic residues [active] 909420004671 ribonuclease G; Provisional; Region: PRK11712 909420004672 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 909420004673 homodimer interface [polypeptide binding]; other site 909420004674 oligonucleotide binding site [chemical binding]; other site 909420004675 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 909420004676 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 909420004677 dimer interface [polypeptide binding]; other site 909420004678 phosphorylation site [posttranslational modification] 909420004679 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 909420004680 ATP binding site [chemical binding]; other site 909420004681 Mg2+ binding site [ion binding]; other site 909420004682 G-X-G motif; other site 909420004683 cheY-homologous receiver domain; Region: REC; smart00448 909420004684 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 909420004685 Citrate transporter; Region: CitMHS; pfam03600 909420004686 Predicted flavoprotein [General function prediction only]; Region: COG0431 909420004687 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 909420004688 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 909420004689 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 909420004690 S-adenosylmethionine synthetase; Validated; Region: PRK05250 909420004691 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 909420004692 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 909420004693 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 909420004694 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 909420004695 putative acyl-acceptor binding pocket; other site 909420004696 UGMP family protein; Validated; Region: PRK09604 909420004697 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 909420004698 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 909420004699 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 909420004700 ResB-like family; Region: ResB; pfam05140 909420004701 Cytochrome c553 [Energy production and conversion]; Region: COG2863 909420004702 Cytochrome c; Region: Cytochrom_C; cl11414 909420004703 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 909420004704 G1 box; other site 909420004705 GTP/Mg2+ binding site [chemical binding]; other site 909420004706 Switch I region; other site 909420004707 G2 box; other site 909420004708 G3 box; other site 909420004709 Switch II region; other site 909420004710 G4 box; other site 909420004711 G5 box; other site 909420004712 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 909420004713 Transglycosylase; Region: Transgly; pfam00912 909420004714 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 909420004715 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 909420004716 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 909420004717 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 909420004718 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 909420004719 Pilus assembly protein, PilP; Region: PilP; pfam04351 909420004720 AMIN domain; Region: AMIN; pfam11741 909420004721 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 909420004722 Secretin and TonB N terminus short domain; Region: STN; pfam07660 909420004723 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 909420004724 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 909420004725 shikimate kinase; Reviewed; Region: aroK; PRK00131 909420004726 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 909420004727 ADP binding site [chemical binding]; other site 909420004728 magnesium binding site [ion binding]; other site 909420004729 putative shikimate binding site; other site 909420004730 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 909420004731 active site 909420004732 dimer interface [polypeptide binding]; other site 909420004733 metal binding site [ion binding]; metal-binding site 909420004734 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 909420004735 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 909420004736 putative dimer interface [polypeptide binding]; other site 909420004737 putative active site [active] 909420004738 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 909420004739 ATP cone domain; Region: ATP-cone; pfam03477 909420004740 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 909420004741 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 909420004742 catalytic motif [active] 909420004743 Zn binding site [ion binding]; other site 909420004744 RibD C-terminal domain; Region: RibD_C; cl17279 909420004745 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 909420004746 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 909420004747 Bacterial sugar transferase; Region: Bac_transf; pfam02397 909420004748 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 909420004749 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 909420004750 putative trimer interface [polypeptide binding]; other site 909420004751 putative CoA binding site [chemical binding]; other site 909420004752 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 909420004753 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 909420004754 inhibitor-cofactor binding pocket; inhibition site 909420004755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420004756 catalytic residue [active] 909420004757 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 909420004758 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 909420004759 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 909420004760 NAD(P) binding site [chemical binding]; other site 909420004761 homodimer interface [polypeptide binding]; other site 909420004762 substrate binding site [chemical binding]; other site 909420004763 active site 909420004764 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]; Region: COG3977 909420004765 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 909420004766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420004767 homodimer interface [polypeptide binding]; other site 909420004768 catalytic residue [active] 909420004769 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 909420004770 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 909420004771 active site 909420004772 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 909420004773 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 909420004774 RNA binding surface [nucleotide binding]; other site 909420004775 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 909420004776 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 909420004777 putative active site [active] 909420004778 putative PHP Thumb interface [polypeptide binding]; other site 909420004779 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 909420004780 generic binding surface II; other site 909420004781 generic binding surface I; other site 909420004782 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 909420004783 Putative esterase; Region: Esterase; pfam00756 909420004784 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 909420004785 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 909420004786 N-terminal plug; other site 909420004787 ligand-binding site [chemical binding]; other site 909420004788 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 909420004789 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 909420004790 motif II; other site 909420004791 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 909420004792 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 909420004793 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 909420004794 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 909420004795 lipoprotein signal peptidase; Provisional; Region: PRK14787 909420004796 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 909420004797 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 909420004798 active site 909420004799 HIGH motif; other site 909420004800 nucleotide binding site [chemical binding]; other site 909420004801 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 909420004802 active site 909420004803 KMSKS motif; other site 909420004804 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 909420004805 tRNA binding surface [nucleotide binding]; other site 909420004806 anticodon binding site; other site 909420004807 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 909420004808 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 909420004809 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 909420004810 active site 909420004811 Riboflavin kinase; Region: Flavokinase; smart00904 909420004812 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 909420004813 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 909420004814 active site 909420004815 HIGH motif; other site 909420004816 dimer interface [polypeptide binding]; other site 909420004817 KMSKS motif; other site 909420004818 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 909420004819 GTP-binding protein YchF; Reviewed; Region: PRK09601 909420004820 YchF GTPase; Region: YchF; cd01900 909420004821 G1 box; other site 909420004822 GTP/Mg2+ binding site [chemical binding]; other site 909420004823 Switch I region; other site 909420004824 G2 box; other site 909420004825 Switch II region; other site 909420004826 G3 box; other site 909420004827 G4 box; other site 909420004828 G5 box; other site 909420004829 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 909420004830 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 909420004831 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 909420004832 Potassium binding sites [ion binding]; other site 909420004833 Cesium cation binding sites [ion binding]; other site 909420004834 Predicted membrane protein [Function unknown]; Region: COG2510 909420004835 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 909420004836 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 909420004837 Substrate binding site; other site 909420004838 metal-binding site 909420004839 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 909420004840 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 909420004841 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 909420004842 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 909420004843 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 909420004844 catalytic residues [active] 909420004845 antiporter inner membrane protein; Provisional; Region: PRK11670 909420004846 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 909420004847 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 909420004848 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 909420004849 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 909420004850 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 909420004851 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 909420004852 catalytic site [active] 909420004853 subunit interface [polypeptide binding]; other site 909420004854 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 909420004855 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 909420004856 dimer interface [polypeptide binding]; other site 909420004857 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 909420004858 putative active site [active] 909420004859 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 909420004860 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 909420004861 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 909420004862 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 909420004863 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 909420004864 ATP-grasp domain; Region: ATP-grasp_4; cl17255 909420004865 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 909420004866 IMP binding site; other site 909420004867 dimer interface [polypeptide binding]; other site 909420004868 interdomain contacts; other site 909420004869 partial ornithine binding site; other site 909420004870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 909420004871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 909420004872 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 909420004873 putative effector binding pocket; other site 909420004874 dimerization interface [polypeptide binding]; other site 909420004875 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 909420004876 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 909420004877 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 909420004878 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 909420004879 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 909420004880 carboxyltransferase (CT) interaction site; other site 909420004881 biotinylation site [posttranslational modification]; other site 909420004882 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 909420004883 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 909420004884 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 909420004885 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 909420004886 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 909420004887 DNA methylase; Region: N6_N4_Mtase; cl17433 909420004888 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 909420004889 S-adenosylmethionine binding site [chemical binding]; other site 909420004890 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 909420004891 catalytic site [active] 909420004892 putative active site [active] 909420004893 putative substrate binding site [chemical binding]; other site 909420004894 dimer interface [polypeptide binding]; other site 909420004895 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 909420004896 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 909420004897 inhibitor-cofactor binding pocket; inhibition site 909420004898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420004899 catalytic residue [active] 909420004900 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 909420004901 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 909420004902 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 909420004903 FeS/SAM binding site; other site 909420004904 TRAM domain; Region: TRAM; pfam01938 909420004905 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 909420004906 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 909420004907 TPP-binding site; other site 909420004908 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 909420004909 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 909420004910 PYR/PP interface [polypeptide binding]; other site 909420004911 dimer interface [polypeptide binding]; other site 909420004912 TPP binding site [chemical binding]; other site 909420004913 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 909420004914 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 909420004915 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 909420004916 active site 909420004917 Int/Topo IB signature motif; other site 909420004918 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 909420004919 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 909420004920 intersubunit interface [polypeptide binding]; other site 909420004921 active site 909420004922 zinc binding site [ion binding]; other site 909420004923 Na+ binding site [ion binding]; other site 909420004924 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 909420004925 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 909420004926 Glycoprotease family; Region: Peptidase_M22; pfam00814 909420004927 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 909420004928 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909420004929 Coenzyme A binding pocket [chemical binding]; other site 909420004930 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 909420004931 active site 909420004932 Fe-S cluster binding site [ion binding]; other site 909420004933 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909420004934 active site 909420004935 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 909420004936 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 909420004937 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 909420004938 putative feedback inhibition sensing region; other site 909420004939 putative nucleotide binding site [chemical binding]; other site 909420004940 putative substrate binding site [chemical binding]; other site 909420004941 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 909420004942 Coenzyme A binding pocket [chemical binding]; other site 909420004943 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 909420004944 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 909420004945 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 909420004946 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 909420004947 putative ligand binding residues [chemical binding]; other site 909420004948 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 909420004949 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 909420004950 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 909420004951 N-terminal plug; other site 909420004952 ligand-binding site [chemical binding]; other site 909420004953 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; cl00125 909420004954 active site residue [active] 909420004955 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 909420004956 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 909420004957 S-adenosylmethionine binding site [chemical binding]; other site 909420004958 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 909420004959 triosephosphate isomerase; Provisional; Region: PRK14567 909420004960 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 909420004961 substrate binding site [chemical binding]; other site 909420004962 dimer interface [polypeptide binding]; other site 909420004963 catalytic triad [active] 909420004964 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 909420004965 Predicted transcriptional regulator [Transcription]; Region: COG2944 909420004966 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 909420004967 non-specific DNA binding site [nucleotide binding]; other site 909420004968 salt bridge; other site 909420004969 sequence-specific DNA binding site [nucleotide binding]; other site 909420004970 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 909420004971 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 909420004972 Dam-replacing family; Region: DRP; pfam06044 909420004973 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 909420004974 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 909420004975 HIGH motif; other site 909420004976 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 909420004977 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 909420004978 active site 909420004979 KMSKS motif; other site 909420004980 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 909420004981 tRNA binding surface [nucleotide binding]; other site 909420004982 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 909420004983 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 909420004984 polyphosphate kinase; Provisional; Region: PRK05443 909420004985 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 909420004986 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 909420004987 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 909420004988 putative domain interface [polypeptide binding]; other site 909420004989 putative active site [active] 909420004990 catalytic site [active] 909420004991 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 909420004992 putative domain interface [polypeptide binding]; other site 909420004993 putative active site [active] 909420004994 catalytic site [active] 909420004995 DNA polymerase III subunit beta; Validated; Region: PRK05643 909420004996 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 909420004997 putative DNA binding surface [nucleotide binding]; other site 909420004998 dimer interface [polypeptide binding]; other site 909420004999 beta-clamp/clamp loader binding surface; other site 909420005000 beta-clamp/translesion DNA polymerase binding surface; other site 909420005001 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 909420005002 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 909420005003 Walker A motif; other site 909420005004 ATP binding site [chemical binding]; other site 909420005005 Walker B motif; other site 909420005006 arginine finger; other site 909420005007 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 909420005008 DnaA box-binding interface [nucleotide binding]; other site 909420005009 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 909420005010 ribonuclease P; Reviewed; Region: rnpA; PRK04390 909420005011 hypothetical protein; Provisional; Region: PRK14373 909420005012 membrane protein insertase; Provisional; Region: PRK01318 909420005013 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 909420005014 Predicted methyltransferases [General function prediction only]; Region: COG0313 909420005015 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 909420005016 putative SAM binding site [chemical binding]; other site 909420005017 homodimer interface [polypeptide binding]; other site 909420005018 Maf-like protein; Region: Maf; pfam02545 909420005019 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 909420005020 active site 909420005021 dimer interface [polypeptide binding]; other site 909420005022 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 909420005023 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 909420005024 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 909420005025 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909420005026 active site 909420005027 putative phosphate acyltransferase; Provisional; Region: PRK05331 909420005028 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 909420005029 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 909420005030 dimer interface [polypeptide binding]; other site 909420005031 active site 909420005032 CoA binding pocket [chemical binding]; other site 909420005033 Predicted membrane protein [Function unknown]; Region: COG3326 909420005034 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 909420005035 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 909420005036 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 909420005037 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 909420005038 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 909420005039 Walker A/P-loop; other site 909420005040 ATP binding site [chemical binding]; other site 909420005041 Q-loop/lid; other site 909420005042 ABC transporter signature motif; other site 909420005043 Walker B; other site 909420005044 D-loop; other site 909420005045 H-loop/switch region; other site 909420005046 GMP synthase; Reviewed; Region: guaA; PRK00074 909420005047 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 909420005048 AMP/PPi binding site [chemical binding]; other site 909420005049 candidate oxyanion hole; other site 909420005050 catalytic triad [active] 909420005051 potential glutamine specificity residues [chemical binding]; other site 909420005052 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 909420005053 ATP Binding subdomain [chemical binding]; other site 909420005054 Ligand Binding sites [chemical binding]; other site 909420005055 Dimerization subdomain; other site 909420005056 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 909420005057 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 909420005058 NAD(P) binding site [chemical binding]; other site 909420005059 homotetramer interface [polypeptide binding]; other site 909420005060 homodimer interface [polypeptide binding]; other site 909420005061 active site 909420005062 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 909420005063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 909420005064 SEC-C motif; Region: SEC-C; pfam02810 909420005065 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 909420005066 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 909420005067 active site 909420005068 RNA methyltransferase, RsmE family; Region: TIGR00046 909420005069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 909420005070 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 909420005071 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 909420005072 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 909420005073 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 909420005074 active site 909420005075 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 909420005076 DALR anticodon binding domain; Region: DALR_1; pfam05746 909420005077 Protein with unknown function (DUF469); Region: DUF469; cl01237 909420005078 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 909420005079 dimer interface [polypeptide binding]; other site 909420005080 motif 1; other site 909420005081 active site 909420005082 motif 2; other site 909420005083 motif 3; other site 909420005084 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 909420005085 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 909420005086 gamma subunit interface [polypeptide binding]; other site 909420005087 epsilon subunit interface [polypeptide binding]; other site 909420005088 LBP interface [polypeptide binding]; other site 909420005089 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 909420005090 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 909420005091 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 909420005092 alpha subunit interaction interface [polypeptide binding]; other site 909420005093 Walker A motif; other site 909420005094 ATP binding site [chemical binding]; other site 909420005095 Walker B motif; other site 909420005096 inhibitor binding site; inhibition site 909420005097 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 909420005098 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 909420005099 delta subunit interface [polypeptide binding]; other site 909420005100 core domain interface [polypeptide binding]; other site 909420005101 epsilon subunit interface [polypeptide binding]; other site 909420005102 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 909420005103 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 909420005104 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 909420005105 beta subunit interaction interface [polypeptide binding]; other site 909420005106 Walker A motif; other site 909420005107 ATP binding site [chemical binding]; other site 909420005108 Walker B motif; other site 909420005109 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 909420005110 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 909420005111 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 909420005112 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 909420005113 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 909420005114 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 909420005115 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 909420005116 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 909420005117 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 909420005118 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 909420005119 ParB-like nuclease domain; Region: ParBc; pfam02195 909420005120 KorB domain; Region: KorB; pfam08535 909420005121 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 909420005122 Flavoprotein; Region: Flavoprotein; pfam02441 909420005123 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 909420005124 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 909420005125 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 909420005126 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 909420005127 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 909420005128 Walker A/P-loop; other site 909420005129 ATP binding site [chemical binding]; other site 909420005130 Q-loop/lid; other site 909420005131 ABC transporter signature motif; other site 909420005132 Walker B; other site 909420005133 D-loop; other site 909420005134 H-loop/switch region; other site 909420005135 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 909420005136 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 909420005137 N-acetyl-D-glucosamine binding site [chemical binding]; other site 909420005138 catalytic residue [active] 909420005139 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 909420005140 Uncharacterized conserved protein [Function unknown]; Region: COG1610 909420005141 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 909420005142 stringent starvation protein A; Provisional; Region: sspA; PRK09481 909420005143 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 909420005144 C-terminal domain interface [polypeptide binding]; other site 909420005145 putative GSH binding site (G-site) [chemical binding]; other site 909420005146 dimer interface [polypeptide binding]; other site 909420005147 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 909420005148 dimer interface [polypeptide binding]; other site 909420005149 N-terminal domain interface [polypeptide binding]; other site 909420005150 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 909420005151 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 909420005152 Cadmium resistance transporter; Region: Cad; pfam03596 909420005153 ribosomal protein L31; Region: L31; TIGR00105 909420005154 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 909420005155 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 909420005156 catalytic residues [active] 909420005157 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 909420005158 active site 909420005159 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 909420005160 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 909420005161 anti sigma factor interaction site; other site 909420005162 regulatory phosphorylation site [posttranslational modification]; other site 909420005163 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 909420005164 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 909420005165 mce related protein; Region: MCE; pfam02470 909420005166 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 909420005167 Permease; Region: Permease; pfam02405 909420005168 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 909420005169 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 909420005170 Walker A/P-loop; other site 909420005171 ATP binding site [chemical binding]; other site 909420005172 Q-loop/lid; other site 909420005173 ABC transporter signature motif; other site 909420005174 Walker B; other site 909420005175 D-loop; other site 909420005176 H-loop/switch region; other site 909420005177 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 909420005178 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 909420005179 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 909420005180 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 909420005181 NAD binding site [chemical binding]; other site 909420005182 catalytic residues [active] 909420005183 substrate binding site [chemical binding]; other site 909420005184 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 909420005185 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 909420005186 catalytic triad [active] 909420005187 putative active site [active] 909420005188 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 909420005189 Autotransporter beta-domain; Region: Autotransporter; pfam03797 909420005190 aminodeoxychorismate synthase; Provisional; Region: PRK07508 909420005191 chorismate binding enzyme; Region: Chorismate_bind; cl10555 909420005192 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 909420005193 homodimer interface [polypeptide binding]; other site 909420005194 substrate-cofactor binding pocket; other site 909420005195 Aminotransferase class IV; Region: Aminotran_4; pfam01063 909420005196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 909420005197 catalytic residue [active] 909420005198 Protein of unknown function (DUF560); Region: DUF560; pfam04575 909420005199 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 909420005200 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 909420005201 ring oligomerisation interface [polypeptide binding]; other site 909420005202 ATP/Mg binding site [chemical binding]; other site 909420005203 stacking interactions; other site 909420005204 hinge regions; other site 909420005205 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 909420005206 oligomerisation interface [polypeptide binding]; other site 909420005207 mobile loop; other site 909420005208 roof hairpin; other site 909420005209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 909420005210 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 909420005211 Na2 binding site [ion binding]; other site 909420005212 putative substrate binding site 1 [chemical binding]; other site 909420005213 Na binding site 1 [ion binding]; other site 909420005214 putative substrate binding site 2 [chemical binding]; other site 909420005215 diaminopimelate decarboxylase; Region: lysA; TIGR01048 909420005216 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 909420005217 active site 909420005218 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 909420005219 substrate binding site [chemical binding]; other site 909420005220 catalytic residues [active] 909420005221 dimer interface [polypeptide binding]; other site 909420005222 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 909420005223 putative iron binding site [ion binding]; other site 909420005224 conserved hypothetical integral membrane protein; Region: TIGR00698 909420005225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 909420005226 S-ribosylhomocysteinase; Provisional; Region: PRK02260 909420005227 DNA polymerase I; Provisional; Region: PRK05755 909420005228 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 909420005229 active site 909420005230 putative 5' ssDNA interaction site; other site 909420005231 metal binding site 3; metal-binding site 909420005232 metal binding site 1 [ion binding]; metal-binding site 909420005233 metal binding site 2 [ion binding]; metal-binding site 909420005234 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 909420005235 putative DNA binding site [nucleotide binding]; other site 909420005236 putative metal binding site [ion binding]; other site 909420005237 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 909420005238 active site 909420005239 catalytic site [active] 909420005240 substrate binding site [chemical binding]; other site 909420005241 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 909420005242 active site 909420005243 DNA binding site [nucleotide binding] 909420005244 catalytic site [active] 909420005245 Fic/DOC family; Region: Fic; pfam02661 909420005246 Transposase domain (DUF772); Region: DUF772; pfam05598 909420005247 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420005248 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 909420005249 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 909420005250 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 909420005251 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 909420005252 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 909420005253 Autotransporter beta-domain; Region: Autotransporter; pfam03797 909420005254 Predicted membrane protein [Function unknown]; Region: COG5346 909420005255 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 909420005256 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 909420005257 trmE is a tRNA modification GTPase; Region: trmE; cd04164 909420005258 G1 box; other site 909420005259 GTP/Mg2+ binding site [chemical binding]; other site 909420005260 Switch I region; other site 909420005261 G2 box; other site 909420005262 Switch II region; other site 909420005263 G3 box; other site 909420005264 G4 box; other site 909420005265 G5 box; other site 909420005266 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 909420005267 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 909420005268 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 909420005269 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 909420005270 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 909420005271 putative ligand binding residues [chemical binding]; other site 909420005272 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 909420005273 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 909420005274 ABC-ATPase subunit interface; other site 909420005275 dimer interface [polypeptide binding]; other site 909420005276 putative PBP binding regions; other site 909420005277 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 909420005278 ABC-ATPase subunit interface; other site 909420005279 dimer interface [polypeptide binding]; other site 909420005280 putative PBP binding regions; other site 909420005281 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 909420005282 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 909420005283 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 909420005284 Walker A/P-loop; other site 909420005285 ATP binding site [chemical binding]; other site 909420005286 Q-loop/lid; other site 909420005287 ABC transporter signature motif; other site 909420005288 Walker B; other site 909420005289 D-loop; other site 909420005290 H-loop/switch region; other site 909420005291 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 909420005292 Nitrogen regulatory protein P-II; Region: P-II; smart00938 909420005293 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 909420005294 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 909420005295 dimerization interface [polypeptide binding]; other site 909420005296 ATP binding site [chemical binding]; other site 909420005297 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 909420005298 dimerization interface [polypeptide binding]; other site 909420005299 ATP binding site [chemical binding]; other site 909420005300 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 909420005301 putative active site [active] 909420005302 catalytic triad [active] 909420005303 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 909420005304 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 909420005305 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 909420005306 Autotransporter beta-domain; Region: Autotransporter; pfam03797 909420005307 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 909420005308 MgtE intracellular N domain; Region: MgtE_N; smart00924 909420005309 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 909420005310 Divalent cation transporter; Region: MgtE; pfam01769 909420005311 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 909420005312 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 909420005313 dimerization interface [polypeptide binding]; other site 909420005314 domain crossover interface; other site 909420005315 redox-dependent activation switch; other site 909420005316 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 909420005317 NlpC/P60 family; Region: NLPC_P60; pfam00877 909420005318 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 909420005319 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 909420005320 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 909420005321 heterotetramer interface [polypeptide binding]; other site 909420005322 active site pocket [active] 909420005323 cleavage site 909420005324 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 909420005325 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 909420005326 putative ion selectivity filter; other site 909420005327 putative pore gating glutamate residue; other site 909420005328 putative H+/Cl- coupling transport residue; other site 909420005329 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 909420005330 ATP binding site [chemical binding]; other site 909420005331 putative Mg++ binding site [ion binding]; other site 909420005332 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 909420005333 nucleotide binding region [chemical binding]; other site 909420005334 ATP-binding site [chemical binding]; other site 909420005335 AAA domain; Region: AAA_21; pfam13304 909420005336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909420005337 ABC transporter signature motif; other site 909420005338 Walker B; other site 909420005339 D-loop; other site 909420005340 H-loop/switch region; other site 909420005341 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 909420005342 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 909420005343 Sulfatase; Region: Sulfatase; pfam00884 909420005344 Helicase associated domain (HA2); Region: HA2; pfam04408 909420005345 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 909420005346 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 909420005347 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 909420005348 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 909420005349 non-specific DNA binding site [nucleotide binding]; other site 909420005350 salt bridge; other site 909420005351 sequence-specific DNA binding site [nucleotide binding]; other site 909420005352 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 909420005353 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 909420005354 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 909420005355 Helix-hairpin-helix motif; Region: HHH; pfam00633 909420005356 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 909420005357 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 909420005358 active site 909420005359 HIGH motif; other site 909420005360 nucleotide binding site [chemical binding]; other site 909420005361 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 909420005362 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 909420005363 active site 909420005364 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 909420005365 YccA-like proteins; Region: YccA_like; cd10433 909420005366 oxidative damage protection protein; Provisional; Region: PRK05408 909420005367 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 909420005368 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 909420005369 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 909420005370 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 909420005371 active site 909420005372 (T/H)XGH motif; other site 909420005373 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 909420005374 active site clefts [active] 909420005375 zinc binding site [ion binding]; other site 909420005376 dimer interface [polypeptide binding]; other site 909420005377 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 909420005378 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 909420005379 dimer interface [polypeptide binding]; other site 909420005380 conserved gate region; other site 909420005381 ABC-ATPase subunit interface; other site 909420005382 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 909420005383 ABC-ATPase subunit interface; other site 909420005384 putative PBP binding loops; other site 909420005385 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 909420005386 fructuronate transporter; Provisional; Region: PRK10034; cl15264 909420005387 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 909420005388 ATP-binding site [chemical binding]; other site 909420005389 Gluconate-6-phosphate binding site [chemical binding]; other site 909420005390 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 909420005391 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 909420005392 putative active site [active] 909420005393 putative substrate binding site [chemical binding]; other site 909420005394 ATP binding site [chemical binding]; other site 909420005395 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 909420005396 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 909420005397 S-adenosylmethionine binding site [chemical binding]; other site 909420005398 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 909420005399 aromatic amino acid transport protein; Region: araaP; TIGR00837 909420005400 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 909420005401 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 909420005402 active site 909420005403 motif I; other site 909420005404 motif II; other site 909420005405 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 909420005406 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 909420005407 putative acyl-acceptor binding pocket; other site 909420005408 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 909420005409 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 909420005410 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 909420005411 dimerization interface 3.5A [polypeptide binding]; other site 909420005412 active site 909420005413 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 909420005414 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 909420005415 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 909420005416 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 909420005417 trimer interface [polypeptide binding]; other site 909420005418 eyelet of channel; other site 909420005419 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 909420005420 ThiC-associated domain; Region: ThiC-associated; pfam13667 909420005421 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 909420005422 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 909420005423 nudix motif; other site 909420005424 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 909420005425 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 909420005426 Walker A/P-loop; other site 909420005427 ATP binding site [chemical binding]; other site 909420005428 Q-loop/lid; other site 909420005429 ABC transporter signature motif; other site 909420005430 Walker B; other site 909420005431 D-loop; other site 909420005432 H-loop/switch region; other site 909420005433 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420005434 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 909420005435 Transposase domain (DUF772); Region: DUF772; pfam05598 909420005436 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 909420005437 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 909420005438 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 909420005439 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 909420005440 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 909420005441 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 909420005442 dimerization domain swap beta strand [polypeptide binding]; other site 909420005443 regulatory protein interface [polypeptide binding]; other site 909420005444 active site 909420005445 regulatory phosphorylation site [posttranslational modification]; other site 909420005446 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 909420005447 active pocket/dimerization site; other site 909420005448 active site 909420005449 phosphorylation site [posttranslational modification] 909420005450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 909420005451 active site 909420005452 DNA ligase; Provisional; Region: PRK09125 909420005453 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 909420005454 DNA binding site [nucleotide binding] 909420005455 active site 909420005456 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 909420005457 DNA binding site [nucleotide binding] 909420005458 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 909420005459 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 909420005460 RmuC family; Region: RmuC; pfam02646 909420005461 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 909420005462 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 909420005463 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 909420005464 Qi binding site; other site 909420005465 intrachain domain interface; other site 909420005466 interchain domain interface [polypeptide binding]; other site 909420005467 heme bH binding site [chemical binding]; other site 909420005468 heme bL binding site [chemical binding]; other site 909420005469 Qo binding site; other site 909420005470 interchain domain interface [polypeptide binding]; other site 909420005471 intrachain domain interface; other site 909420005472 Qi binding site; other site 909420005473 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 909420005474 Qo binding site; other site 909420005475 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 909420005476 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 909420005477 [2Fe-2S] cluster binding site [ion binding]; other site 909420005478 Uncharacterized conserved protein [Function unknown]; Region: COG0327 909420005479 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 909420005480 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 909420005481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 909420005482 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 909420005483 putative dimerization interface [polypeptide binding]; other site 909420005484 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 909420005485 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 909420005486 23S rRNA interface [nucleotide binding]; other site 909420005487 L3 interface [polypeptide binding]; other site 909420005488 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 909420005489 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 909420005490 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 909420005491 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 909420005492 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 909420005493 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 909420005494 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 909420005495 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 909420005496 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 909420005497 ATP binding site [chemical binding]; other site 909420005498 substrate interface [chemical binding]; other site 909420005499 hypothetical protein; Provisional; Region: PRK04325 909420005500 Predicted permease [General function prediction only]; Region: COG2056 909420005501 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 909420005502 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 909420005503 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 909420005504 S-adenosylmethionine binding site [chemical binding]; other site 909420005505 protease TldD; Provisional; Region: tldD; PRK10735 909420005506 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 909420005507 Na binding site [ion binding]; other site 909420005508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 909420005509 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 909420005510 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 909420005511 thiamine phosphate binding site [chemical binding]; other site 909420005512 active site 909420005513 pyrophosphate binding site [ion binding]; other site 909420005514 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 909420005515 thiS-thiF/thiG interaction site; other site 909420005516 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 909420005517 ThiS interaction site; other site 909420005518 putative active site [active] 909420005519 tetramer interface [polypeptide binding]; other site 909420005520 Sporulation related domain; Region: SPOR; pfam05036 909420005521 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 909420005522 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 909420005523 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 909420005524 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 909420005525 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 909420005526 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 909420005527 active site 909420005528 HIGH motif; other site 909420005529 nucleotide binding site [chemical binding]; other site 909420005530 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 909420005531 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 909420005532 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 909420005533 homodimer interface [polypeptide binding]; other site 909420005534 NADP binding site [chemical binding]; other site 909420005535 substrate binding site [chemical binding]; other site 909420005536 RDD family; Region: RDD; pfam06271 909420005537 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 909420005538 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 909420005539 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 909420005540 putative active site [active] 909420005541 putative catalytic site [active] 909420005542 putative DNA binding site [nucleotide binding]; other site 909420005543 putative phosphate binding site [ion binding]; other site 909420005544 metal binding site A [ion binding]; metal-binding site 909420005545 putative AP binding site [nucleotide binding]; other site 909420005546 putative metal binding site B [ion binding]; other site 909420005547 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 909420005548 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 909420005549 active site 909420005550 HIGH motif; other site 909420005551 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 909420005552 KMSKS motif; other site 909420005553 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 909420005554 tRNA binding surface [nucleotide binding]; other site 909420005555 anticodon binding site; other site 909420005556 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909420005557 AAA domain; Region: AAA_21; pfam13304 909420005558 Walker A/P-loop; other site 909420005559 ATP binding site [chemical binding]; other site 909420005560 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 909420005561 ABC transporter signature motif; other site 909420005562 Walker B; other site 909420005563 D-loop; other site 909420005564 H-loop/switch region; other site 909420005565 GTPase CgtA; Reviewed; Region: obgE; PRK12299 909420005566 GTP1/OBG; Region: GTP1_OBG; pfam01018 909420005567 Obg GTPase; Region: Obg; cd01898 909420005568 G1 box; other site 909420005569 GTP/Mg2+ binding site [chemical binding]; other site 909420005570 Switch I region; other site 909420005571 G2 box; other site 909420005572 G3 box; other site 909420005573 Switch II region; other site 909420005574 G4 box; other site 909420005575 G5 box; other site 909420005576 Predicted methyltransferases [General function prediction only]; Region: COG0313 909420005577 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 909420005578 putative SAM binding site [chemical binding]; other site 909420005579 putative homodimer interface [polypeptide binding]; other site 909420005580 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 909420005581 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 909420005582 dimer interface [polypeptide binding]; other site 909420005583 active site 909420005584 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 909420005585 BON domain; Region: BON; pfam04972 909420005586 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 909420005587 active site 909420005588 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 909420005589 non-specific DNA binding site [nucleotide binding]; other site 909420005590 salt bridge; other site 909420005591 sequence-specific DNA binding site [nucleotide binding]; other site 909420005592 malate:quinone oxidoreductase; Validated; Region: PRK05257 909420005593 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 909420005594 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 909420005595 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 909420005596 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 909420005597 rRNA interaction site [nucleotide binding]; other site 909420005598 S8 interaction site; other site 909420005599 putative laminin-1 binding site; other site 909420005600 elongation factor Ts; Provisional; Region: tsf; PRK09377 909420005601 UBA/TS-N domain; Region: UBA; pfam00627 909420005602 Elongation factor TS; Region: EF_TS; pfam00889 909420005603 Elongation factor TS; Region: EF_TS; pfam00889 909420005604 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 909420005605 putative nucleotide binding site [chemical binding]; other site 909420005606 uridine monophosphate binding site [chemical binding]; other site 909420005607 homohexameric interface [polypeptide binding]; other site 909420005608 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 909420005609 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 909420005610 Pyocin large subunit [General function prediction only]; Region: COG5529 909420005611 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 909420005612 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 909420005613 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 909420005614 tandem repeat interface [polypeptide binding]; other site 909420005615 oligomer interface [polypeptide binding]; other site 909420005616 active site residues [active] 909420005617 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 909420005618 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 909420005619 putative MPT binding site; other site 909420005620 argininosuccinate synthase; Validated; Region: PRK05370 909420005621 argininosuccinate synthase; Provisional; Region: PRK13820 909420005622 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 909420005623 serine/threonine transporter SstT; Provisional; Region: PRK13628 909420005624 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 909420005625 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 909420005626 Surface antigen; Region: Bac_surface_Ag; pfam01103 909420005627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 909420005628 Family of unknown function (DUF490); Region: DUF490; pfam04357 909420005629 Family of unknown function (DUF490); Region: DUF490; pfam04357 909420005630 Family of unknown function (DUF490); Region: DUF490; pfam04357 909420005631 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 909420005632 POT family; Region: PTR2; cl17359 909420005633 peptide chain release factor 2; Validated; Region: prfB; PRK00578 909420005634 This domain is found in peptide chain release factors; Region: PCRF; smart00937 909420005635 RF-1 domain; Region: RF-1; pfam00472 909420005636 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 909420005637 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 909420005638 active site 909420005639 nucleophile elbow; other site 909420005640 Predicted membrane protein [Function unknown]; Region: COG2259 909420005641 Protein of unknown function (DUF692); Region: DUF692; pfam05114 909420005642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 909420005643 RNA polymerase sigma factor; Provisional; Region: PRK12532 909420005644 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 909420005645 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 909420005646 DNA binding residues [nucleotide binding] 909420005647 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 909420005648 Helix-turn-helix domain; Region: HTH_38; pfam13936 909420005649 Homeodomain-like domain; Region: HTH_32; pfam13565 909420005650 Integrase core domain; Region: rve; pfam00665 909420005651 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 909420005652 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 909420005653 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 909420005654 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 909420005655 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 909420005656 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 909420005657 Uncharacterized conserved protein [Function unknown]; Region: COG1739 909420005658 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 909420005659 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 909420005660 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 909420005661 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 909420005662 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 909420005663 Ligand binding site [chemical binding]; other site 909420005664 Electron transfer flavoprotein domain; Region: ETF; pfam01012 909420005665 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 909420005666 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 909420005667 putative active site [active] 909420005668 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 909420005669 Isochorismatase family; Region: Isochorismatase; pfam00857 909420005670 catalytic triad [active] 909420005671 metal binding site [ion binding]; metal-binding site 909420005672 conserved cis-peptide bond; other site 909420005673 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 909420005674 homodimer interaction site [polypeptide binding]; other site 909420005675 cofactor binding site; other site 909420005676 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 909420005677 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 909420005678 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 909420005679 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 909420005680 MutS domain I; Region: MutS_I; pfam01624 909420005681 MutS domain II; Region: MutS_II; pfam05188 909420005682 MutS domain III; Region: MutS_III; pfam05192 909420005683 MutS domain V; Region: MutS_V; pfam00488 909420005684 Walker A/P-loop; other site 909420005685 ATP binding site [chemical binding]; other site 909420005686 Q-loop/lid; other site 909420005687 ABC transporter signature motif; other site 909420005688 Walker B; other site 909420005689 D-loop; other site 909420005690 H-loop/switch region; other site