-- dump date 20140619_163421 -- class Genbank::misc_feature -- table misc_feature_note -- id note 935599000001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935599000002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935599000003 Coenzyme A binding pocket [chemical binding]; other site 935599000004 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 935599000005 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 935599000006 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 935599000007 active site 935599000008 HIGH motif; other site 935599000009 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 935599000010 active site 935599000011 KMSKS motif; other site 935599000012 Uncharacterized conserved protein [Function unknown]; Region: COG1434 935599000013 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 935599000014 putative active site [active] 935599000015 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 935599000016 ArsC family; Region: ArsC; pfam03960 935599000017 catalytic residues [active] 935599000018 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 935599000019 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935599000020 catalytic residues [active] 935599000021 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 935599000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935599000023 Walker A/P-loop; other site 935599000024 ATP binding site [chemical binding]; other site 935599000025 Q-loop/lid; other site 935599000026 ABC transporter signature motif; other site 935599000027 Walker B; other site 935599000028 D-loop; other site 935599000029 H-loop/switch region; other site 935599000030 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 935599000031 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 935599000032 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 935599000033 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 935599000034 Phosphoglycerate kinase; Region: PGK; pfam00162 935599000035 substrate binding site [chemical binding]; other site 935599000036 hinge regions; other site 935599000037 ADP binding site [chemical binding]; other site 935599000038 catalytic site [active] 935599000039 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 935599000040 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 935599000041 hinge; other site 935599000042 active site 935599000043 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 935599000044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 935599000045 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 935599000046 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 935599000047 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 935599000048 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 935599000049 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 935599000050 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 935599000051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 935599000052 Transposase; Region: DEDD_Tnp_IS110; pfam01548 935599000053 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 935599000054 Zonular occludens toxin (Zot); Region: Zot; cl17485 935599000055 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 935599000056 Replication initiation factor; Region: Rep_trans; pfam02486 935599000057 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 935599000058 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 935599000059 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935599000060 Pilin (bacterial filament); Region: Pilin; pfam00114 935599000061 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935599000062 Pilin (bacterial filament); Region: Pilin; pfam00114 935599000063 Pilin (bacterial filament); Region: Pilin; pfam00114 935599000064 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 935599000065 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935599000066 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 935599000067 glycerate dehydrogenase; Provisional; Region: PRK06487 935599000068 putative ligand binding site [chemical binding]; other site 935599000069 putative NAD binding site [chemical binding]; other site 935599000070 catalytic site [active] 935599000071 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 935599000072 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 935599000073 active site 935599000074 HIGH motif; other site 935599000075 KMSKS motif; other site 935599000076 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 935599000077 tRNA binding surface [nucleotide binding]; other site 935599000078 anticodon binding site; other site 935599000079 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 935599000080 dimer interface [polypeptide binding]; other site 935599000081 putative tRNA-binding site [nucleotide binding]; other site 935599000082 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 935599000083 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 935599000084 glutaminase active site [active] 935599000085 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 935599000086 dimer interface [polypeptide binding]; other site 935599000087 active site 935599000088 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 935599000089 dimer interface [polypeptide binding]; other site 935599000090 active site 935599000091 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 935599000092 MltA specific insert domain; Region: MltA; pfam03562 935599000093 3D domain; Region: 3D; pfam06725 935599000094 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 935599000095 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 935599000096 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 935599000097 Imelysin; Region: Peptidase_M75; pfam09375 935599000098 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 935599000099 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 935599000100 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 935599000101 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 935599000102 PhnA protein; Region: PhnA; pfam03831 935599000103 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 935599000104 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 935599000105 Substrate binding site; other site 935599000106 Mg++ binding site; other site 935599000107 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 935599000108 active site 935599000109 substrate binding site [chemical binding]; other site 935599000110 CoA binding site [chemical binding]; other site 935599000111 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 935599000112 ABC transporter periplasmic binding protein, thiB subfamily; Region: sfuA; TIGR01254 935599000113 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 935599000114 Conserved TM helix; Region: TM_helix; pfam05552 935599000115 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935599000116 Competence-damaged protein; Region: CinA; pfam02464 935599000117 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 935599000118 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 935599000119 catalytic residues [active] 935599000120 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 935599000121 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 935599000122 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 935599000123 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 935599000124 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 935599000125 P loop; other site 935599000126 GTP binding site [chemical binding]; other site 935599000127 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 935599000128 GIY-YIG motif/motif A; other site 935599000129 putative active site [active] 935599000130 putative metal binding site [ion binding]; other site 935599000131 TIGR01666 family membrane protein; Region: YCCS 935599000132 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 935599000133 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935599000134 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 935599000135 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 935599000136 Walker A motif; other site 935599000137 ATP binding site [chemical binding]; other site 935599000138 Walker B motif; other site 935599000139 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 935599000140 SPOC domain; Region: SPOC; pfam07744 935599000141 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 935599000142 Walker A motif; other site 935599000143 ATP binding site [chemical binding]; other site 935599000144 Walker B motif; other site 935599000145 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 935599000146 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935599000147 catalytic residue [active] 935599000148 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 935599000149 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 935599000150 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 935599000151 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 935599000152 Helix-hairpin-helix motif; Region: HHH; pfam00633 935599000153 chaperone protein DnaJ; Provisional; Region: PRK10767 935599000154 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 935599000155 HSP70 interaction site [polypeptide binding]; other site 935599000156 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 935599000157 substrate binding site [polypeptide binding]; other site 935599000158 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 935599000159 Zn binding sites [ion binding]; other site 935599000160 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 935599000161 dimer interface [polypeptide binding]; other site 935599000162 Predicted membrane protein [Function unknown]; Region: COG1297 935599000163 putative oligopeptide transporter, OPT family; Region: TIGR00733 935599000164 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 935599000165 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 935599000166 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 935599000167 substrate binding site; other site 935599000168 tetramer interface; other site 935599000169 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 935599000170 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 935599000171 NAD binding site [chemical binding]; other site 935599000172 substrate binding site [chemical binding]; other site 935599000173 homodimer interface [polypeptide binding]; other site 935599000174 active site 935599000175 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 935599000176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935599000177 active site 935599000178 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 935599000179 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 935599000180 cofactor binding site; other site 935599000181 DNA binding site [nucleotide binding] 935599000182 substrate interaction site [chemical binding]; other site 935599000183 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 935599000184 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 935599000185 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 935599000186 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 935599000187 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 935599000188 RNA binding site [nucleotide binding]; other site 935599000189 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 935599000190 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 935599000191 Walker A/P-loop; other site 935599000192 ATP binding site [chemical binding]; other site 935599000193 Q-loop/lid; other site 935599000194 ABC transporter signature motif; other site 935599000195 Walker B; other site 935599000196 D-loop; other site 935599000197 H-loop/switch region; other site 935599000198 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 935599000199 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 935599000200 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 935599000201 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 935599000202 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 935599000203 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 935599000204 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 935599000205 active site 935599000206 homodimer interface [polypeptide binding]; other site 935599000207 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 935599000208 ligand binding site; other site 935599000209 tetramer interface; other site 935599000210 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 935599000211 NeuB family; Region: NeuB; pfam03102 935599000212 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 935599000213 NeuB binding interface [polypeptide binding]; other site 935599000214 putative substrate binding site [chemical binding]; other site 935599000215 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 935599000216 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599000217 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599000218 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 935599000219 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 935599000220 NAD binding site [chemical binding]; other site 935599000221 homodimer interface [polypeptide binding]; other site 935599000222 active site 935599000223 substrate binding site [chemical binding]; other site 935599000224 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 935599000225 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 935599000226 NAD binding site [chemical binding]; other site 935599000227 substrate binding site [chemical binding]; other site 935599000228 homodimer interface [polypeptide binding]; other site 935599000229 active site 935599000230 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 935599000231 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 935599000232 substrate binding site; other site 935599000233 tetramer interface; other site 935599000234 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 935599000235 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 935599000236 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 935599000237 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 935599000238 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 935599000239 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 935599000240 Sel1-like repeats; Region: SEL1; smart00671 935599000241 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 935599000242 Sel1-like repeats; Region: SEL1; smart00671 935599000243 Sel1-like repeats; Region: SEL1; smart00671 935599000244 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 935599000245 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 935599000246 cyanate hydratase; Validated; Region: PRK02866 935599000247 pyruvate kinase; Provisional; Region: PRK05826 935599000248 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 935599000249 domain interfaces; other site 935599000250 active site 935599000251 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599000252 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599000253 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 935599000254 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599000255 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599000256 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 935599000257 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 935599000258 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935599000259 Coenzyme A binding pocket [chemical binding]; other site 935599000260 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 935599000261 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 935599000262 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 935599000263 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 935599000264 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 935599000265 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 935599000266 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935599000267 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 935599000268 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 935599000269 active site 935599000270 catalytic residues [active] 935599000271 metal binding site [ion binding]; metal-binding site 935599000272 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 935599000273 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 935599000274 putative active site [active] 935599000275 substrate binding site [chemical binding]; other site 935599000276 putative cosubstrate binding site; other site 935599000277 catalytic site [active] 935599000278 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 935599000279 substrate binding site [chemical binding]; other site 935599000280 16S rRNA methyltransferase B; Provisional; Region: PRK10901 935599000281 NusB family; Region: NusB; pfam01029 935599000282 putative RNA binding site [nucleotide binding]; other site 935599000283 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 935599000284 S-adenosylmethionine binding site [chemical binding]; other site 935599000285 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 935599000286 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 935599000287 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 935599000288 dimerization interface [polypeptide binding]; other site 935599000289 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 935599000290 dimer interface [polypeptide binding]; other site 935599000291 phosphorylation site [posttranslational modification] 935599000292 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 935599000293 ATP binding site [chemical binding]; other site 935599000294 Mg2+ binding site [ion binding]; other site 935599000295 G-X-G motif; other site 935599000296 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 935599000297 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 935599000298 active site 935599000299 phosphorylation site [posttranslational modification] 935599000300 intermolecular recognition site; other site 935599000301 dimerization interface [polypeptide binding]; other site 935599000302 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 935599000303 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 935599000304 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 935599000305 DNA protecting protein DprA; Region: dprA; TIGR00732 935599000306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Smg; COG2922 935599000307 DNA topoisomerase I; Validated; Region: PRK06599 935599000308 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 935599000309 active site 935599000310 interdomain interaction site; other site 935599000311 putative metal-binding site [ion binding]; other site 935599000312 nucleotide binding site [chemical binding]; other site 935599000313 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 935599000314 domain I; other site 935599000315 DNA binding groove [nucleotide binding] 935599000316 phosphate binding site [ion binding]; other site 935599000317 domain II; other site 935599000318 domain III; other site 935599000319 nucleotide binding site [chemical binding]; other site 935599000320 catalytic site [active] 935599000321 domain IV; other site 935599000322 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935599000323 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 935599000324 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935599000325 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935599000326 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 935599000327 sequence-specific DNA binding site [nucleotide binding]; other site 935599000328 salt bridge; other site 935599000329 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 935599000330 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 935599000331 S-adenosylmethionine binding site [chemical binding]; other site 935599000332 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 935599000333 elongation factor Tu; Reviewed; Region: PRK00049 935599000334 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 935599000335 G1 box; other site 935599000336 GEF interaction site [polypeptide binding]; other site 935599000337 GTP/Mg2+ binding site [chemical binding]; other site 935599000338 Switch I region; other site 935599000339 G2 box; other site 935599000340 G3 box; other site 935599000341 Switch II region; other site 935599000342 G4 box; other site 935599000343 G5 box; other site 935599000344 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 935599000345 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 935599000346 Antibiotic Binding Site [chemical binding]; other site 935599000347 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 935599000348 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 935599000349 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 935599000350 putative homodimer interface [polypeptide binding]; other site 935599000351 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 935599000352 heterodimer interface [polypeptide binding]; other site 935599000353 homodimer interface [polypeptide binding]; other site 935599000354 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 935599000355 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 935599000356 23S rRNA interface [nucleotide binding]; other site 935599000357 L7/L12 interface [polypeptide binding]; other site 935599000358 putative thiostrepton binding site; other site 935599000359 L25 interface [polypeptide binding]; other site 935599000360 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 935599000361 mRNA/rRNA interface [nucleotide binding]; other site 935599000362 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 935599000363 23S rRNA interface [nucleotide binding]; other site 935599000364 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 935599000365 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 935599000366 core dimer interface [polypeptide binding]; other site 935599000367 peripheral dimer interface [polypeptide binding]; other site 935599000368 L10 interface [polypeptide binding]; other site 935599000369 L11 interface [polypeptide binding]; other site 935599000370 putative EF-Tu interaction site [polypeptide binding]; other site 935599000371 putative EF-G interaction site [polypeptide binding]; other site 935599000372 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 935599000373 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 935599000374 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 935599000375 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 935599000376 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 935599000377 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 935599000378 RPB3 interaction site [polypeptide binding]; other site 935599000379 RPB1 interaction site [polypeptide binding]; other site 935599000380 RPB11 interaction site [polypeptide binding]; other site 935599000381 RPB10 interaction site [polypeptide binding]; other site 935599000382 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 935599000383 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 935599000384 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 935599000385 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 935599000386 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 935599000387 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 935599000388 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 935599000389 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 935599000390 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 935599000391 DNA binding site [nucleotide binding] 935599000392 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 935599000393 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 935599000394 S17 interaction site [polypeptide binding]; other site 935599000395 S8 interaction site; other site 935599000396 16S rRNA interaction site [nucleotide binding]; other site 935599000397 streptomycin interaction site [chemical binding]; other site 935599000398 23S rRNA interaction site [nucleotide binding]; other site 935599000399 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 935599000400 30S ribosomal protein S7; Validated; Region: PRK05302 935599000401 elongation factor G; Reviewed; Region: PRK00007 935599000402 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 935599000403 G1 box; other site 935599000404 putative GEF interaction site [polypeptide binding]; other site 935599000405 GTP/Mg2+ binding site [chemical binding]; other site 935599000406 Switch I region; other site 935599000407 G2 box; other site 935599000408 G3 box; other site 935599000409 Switch II region; other site 935599000410 G4 box; other site 935599000411 G5 box; other site 935599000412 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 935599000413 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 935599000414 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 935599000415 elongation factor Tu; Reviewed; Region: PRK00049 935599000416 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 935599000417 G1 box; other site 935599000418 GEF interaction site [polypeptide binding]; other site 935599000419 GTP/Mg2+ binding site [chemical binding]; other site 935599000420 Switch I region; other site 935599000421 G2 box; other site 935599000422 G3 box; other site 935599000423 Switch II region; other site 935599000424 G4 box; other site 935599000425 G5 box; other site 935599000426 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 935599000427 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 935599000428 Antibiotic Binding Site [chemical binding]; other site 935599000429 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 935599000430 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599000431 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599000432 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 935599000433 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 935599000434 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 935599000435 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 935599000436 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 935599000437 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 935599000438 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 935599000439 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 935599000440 putative translocon binding site; other site 935599000441 protein-rRNA interface [nucleotide binding]; other site 935599000442 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 935599000443 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 935599000444 G-X-X-G motif; other site 935599000445 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 935599000446 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 935599000447 23S rRNA interface [nucleotide binding]; other site 935599000448 5S rRNA interface [nucleotide binding]; other site 935599000449 putative antibiotic binding site [chemical binding]; other site 935599000450 L25 interface [polypeptide binding]; other site 935599000451 L27 interface [polypeptide binding]; other site 935599000452 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 935599000453 23S rRNA interface [nucleotide binding]; other site 935599000454 putative translocon interaction site; other site 935599000455 signal recognition particle (SRP54) interaction site; other site 935599000456 L23 interface [polypeptide binding]; other site 935599000457 trigger factor interaction site; other site 935599000458 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 935599000459 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 935599000460 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 935599000461 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 935599000462 RNA binding site [nucleotide binding]; other site 935599000463 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 935599000464 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 935599000465 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 935599000466 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 935599000467 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 935599000468 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 935599000469 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 935599000470 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 935599000471 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 935599000472 5S rRNA interface [nucleotide binding]; other site 935599000473 23S rRNA interface [nucleotide binding]; other site 935599000474 L5 interface [polypeptide binding]; other site 935599000475 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 935599000476 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 935599000477 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 935599000478 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 935599000479 23S rRNA binding site [nucleotide binding]; other site 935599000480 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 935599000481 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 935599000482 SecY translocase; Region: SecY; pfam00344 935599000483 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 935599000484 rRNA binding site [nucleotide binding]; other site 935599000485 predicted 30S ribosome binding site; other site 935599000486 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 935599000487 30S ribosomal protein S13; Region: bact_S13; TIGR03631 935599000488 30S ribosomal protein S11; Validated; Region: PRK05309 935599000489 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 935599000490 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 935599000491 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 935599000492 RNA binding surface [nucleotide binding]; other site 935599000493 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 935599000494 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 935599000495 alphaNTD homodimer interface [polypeptide binding]; other site 935599000496 alphaNTD - beta interaction site [polypeptide binding]; other site 935599000497 alphaNTD - beta' interaction site [polypeptide binding]; other site 935599000498 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 935599000499 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 935599000500 septum formation inhibitor; Reviewed; Region: minC; PRK04516 935599000501 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 935599000502 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 935599000503 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 935599000504 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 935599000505 Switch I; other site 935599000506 Switch II; other site 935599000507 cell division topological specificity factor MinE; Provisional; Region: PRK13989 935599000508 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935599000509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935599000510 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 935599000511 dimerization interface [polypeptide binding]; other site 935599000512 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 935599000513 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 935599000514 HIGH motif; other site 935599000515 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 935599000516 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 935599000517 active site 935599000518 KMSKS motif; other site 935599000519 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 935599000520 tRNA binding surface [nucleotide binding]; other site 935599000521 anticodon binding site; other site 935599000522 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 935599000523 zinc transporter ZupT; Provisional; Region: PRK04201 935599000524 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 935599000525 hydroxyglutarate oxidase; Provisional; Region: PRK11728 935599000526 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 935599000527 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 935599000528 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 935599000529 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 935599000530 active site 935599000531 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 935599000532 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 935599000533 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 935599000534 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 935599000535 trimer interface [polypeptide binding]; other site 935599000536 active site 935599000537 UDP-GlcNAc binding site [chemical binding]; other site 935599000538 lipid binding site [chemical binding]; lipid-binding site 935599000539 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 935599000540 periplasmic chaperone; Provisional; Region: PRK10780 935599000541 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 935599000542 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935599000543 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935599000544 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935599000545 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935599000546 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935599000547 Surface antigen; Region: Bac_surface_Ag; pfam01103 935599000548 zinc metallopeptidase RseP; Provisional; Region: PRK10779 935599000549 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 935599000550 active site 935599000551 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 935599000552 protein binding site [polypeptide binding]; other site 935599000553 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 935599000554 protein binding site [polypeptide binding]; other site 935599000555 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 935599000556 putative substrate binding region [chemical binding]; other site 935599000557 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 935599000558 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 935599000559 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 935599000560 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 935599000561 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 935599000562 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 935599000563 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 935599000564 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 935599000565 catalytic residue [active] 935599000566 putative FPP diphosphate binding site; other site 935599000567 putative FPP binding hydrophobic cleft; other site 935599000568 dimer interface [polypeptide binding]; other site 935599000569 putative IPP diphosphate binding site; other site 935599000570 ribosome recycling factor; Reviewed; Region: frr; PRK00083 935599000571 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 935599000572 hinge region; other site 935599000573 Predicted membrane protein [Function unknown]; Region: COG1289 935599000574 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935599000575 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 935599000576 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 935599000577 S-adenosylmethionine binding site [chemical binding]; other site 935599000578 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 935599000579 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 935599000580 P-loop; other site 935599000581 Magnesium ion binding site [ion binding]; other site 935599000582 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 935599000583 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 935599000584 Magnesium ion binding site [ion binding]; other site 935599000585 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 935599000586 RNA/DNA hybrid binding site [nucleotide binding]; other site 935599000587 active site 935599000588 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 935599000589 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 935599000590 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 935599000591 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 935599000592 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 935599000593 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 935599000594 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 935599000595 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 935599000596 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 935599000597 homodimer interface [polypeptide binding]; other site 935599000598 oligonucleotide binding site [chemical binding]; other site 935599000599 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 935599000600 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 935599000601 RNA binding surface [nucleotide binding]; other site 935599000602 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935599000603 active site 935599000604 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 935599000605 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 935599000606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 935599000607 dihydrodipicolinate reductase; Provisional; Region: PRK00048 935599000608 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 935599000609 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 935599000610 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 935599000611 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 935599000612 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 935599000613 metal binding site 2 [ion binding]; metal-binding site 935599000614 putative DNA binding helix; other site 935599000615 metal binding site 1 [ion binding]; metal-binding site 935599000616 dimer interface [polypeptide binding]; other site 935599000617 structural Zn2+ binding site [ion binding]; other site 935599000618 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 935599000619 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 935599000620 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 935599000621 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 935599000622 ferredoxin; Provisional; Region: PRK08764 935599000623 Putative Fe-S cluster; Region: FeS; cl17515 935599000624 4Fe-4S binding domain; Region: Fer4; pfam00037 935599000625 4Fe-4S binding domain; Region: Fer4; pfam00037 935599000626 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 935599000627 putative cation:proton antiport protein; Provisional; Region: PRK10669 935599000628 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 935599000629 TrkA-N domain; Region: TrkA_N; pfam02254 935599000630 TrkA-C domain; Region: TrkA_C; pfam02080 935599000631 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 935599000632 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 935599000633 Mg2+ binding site [ion binding]; other site 935599000634 G-X-G motif; other site 935599000635 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 935599000636 anchoring element; other site 935599000637 dimer interface [polypeptide binding]; other site 935599000638 ATP binding site [chemical binding]; other site 935599000639 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 935599000640 active site 935599000641 putative metal-binding site [ion binding]; other site 935599000642 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 935599000643 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 935599000644 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935599000645 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 935599000646 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 935599000647 active site 935599000648 Zn binding site [ion binding]; other site 935599000649 Predicted membrane protein [Function unknown]; Region: COG1971 935599000650 Domain of unknown function DUF; Region: DUF204; pfam02659 935599000651 Domain of unknown function DUF; Region: DUF204; pfam02659 935599000652 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 935599000653 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935599000654 Pilin (bacterial filament); Region: Pilin; pfam00114 935599000655 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 935599000656 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 935599000657 tetramer interface [polypeptide binding]; other site 935599000658 heme binding pocket [chemical binding]; other site 935599000659 NADPH binding site [chemical binding]; other site 935599000660 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 935599000661 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 935599000662 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 935599000663 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935599000664 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 935599000665 putative ADP-binding pocket [chemical binding]; other site 935599000666 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 935599000667 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 935599000668 putative substrate translocation pore; other site 935599000669 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 935599000670 Sodium Bile acid symporter family; Region: SBF; cl17470 935599000671 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 935599000672 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 935599000673 dimer interface [polypeptide binding]; other site 935599000674 active site 935599000675 acyl carrier protein; Provisional; Region: acpP; PRK00982 935599000676 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 935599000677 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 935599000678 quinone interaction residues [chemical binding]; other site 935599000679 active site 935599000680 catalytic residues [active] 935599000681 FMN binding site [chemical binding]; other site 935599000682 substrate binding site [chemical binding]; other site 935599000683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 935599000684 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 935599000685 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935599000686 metal binding triad; other site 935599000687 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 935599000688 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935599000689 metal binding triad; other site 935599000690 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 935599000691 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 935599000692 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 935599000693 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 935599000694 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 935599000695 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 935599000696 DNA helicase II; Region: uvrD; TIGR01075 935599000697 Part of AAA domain; Region: AAA_19; pfam13245 935599000698 Family description; Region: UvrD_C_2; pfam13538 935599000699 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 935599000700 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599000701 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599000702 spermidine synthase; Provisional; Region: PRK03612 935599000703 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 935599000704 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 935599000705 S-adenosylmethionine binding site [chemical binding]; other site 935599000706 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 935599000707 NADH dehydrogenase subunit B; Validated; Region: PRK06411 935599000708 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 935599000709 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 935599000710 NADH dehydrogenase subunit D; Validated; Region: PRK06075 935599000711 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 935599000712 NADH dehydrogenase subunit E; Validated; Region: PRK07539 935599000713 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 935599000714 putative dimer interface [polypeptide binding]; other site 935599000715 [2Fe-2S] cluster binding site [ion binding]; other site 935599000716 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 935599000717 SLBB domain; Region: SLBB; pfam10531 935599000718 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 935599000719 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599000720 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599000721 NADH dehydrogenase subunit G; Validated; Region: PRK09129 935599000722 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 935599000723 catalytic loop [active] 935599000724 iron binding site [ion binding]; other site 935599000725 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 935599000726 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 935599000727 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 935599000728 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 935599000729 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 935599000730 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 935599000731 4Fe-4S binding domain; Region: Fer4; cl02805 935599000732 4Fe-4S binding domain; Region: Fer4; pfam00037 935599000733 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 935599000734 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 935599000735 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 935599000736 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 935599000737 Fic/DOC family; Region: Fic; pfam02661 935599000738 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 935599000739 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 935599000740 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935599000741 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 935599000742 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935599000743 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 935599000744 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935599000745 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 935599000746 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 935599000747 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 935599000748 substrate binding pocket [chemical binding]; other site 935599000749 chain length determination region; other site 935599000750 substrate-Mg2+ binding site; other site 935599000751 catalytic residues [active] 935599000752 aspartate-rich region 1; other site 935599000753 active site lid residues [active] 935599000754 aspartate-rich region 2; other site 935599000755 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 935599000756 GTPase RsgA; Reviewed; Region: PRK00098 935599000757 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 935599000758 RNA binding site [nucleotide binding]; other site 935599000759 homodimer interface [polypeptide binding]; other site 935599000760 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 935599000761 GTPase/Zn-binding domain interface [polypeptide binding]; other site 935599000762 GTP/Mg2+ binding site [chemical binding]; other site 935599000763 G4 box; other site 935599000764 G5 box; other site 935599000765 G1 box; other site 935599000766 Switch I region; other site 935599000767 G2 box; other site 935599000768 G3 box; other site 935599000769 Switch II region; other site 935599000770 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 935599000771 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935599000772 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 935599000773 Walker A/P-loop; other site 935599000774 ATP binding site [chemical binding]; other site 935599000775 Q-loop/lid; other site 935599000776 ABC transporter signature motif; other site 935599000777 Walker B; other site 935599000778 D-loop; other site 935599000779 H-loop/switch region; other site 935599000780 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 935599000781 RuvA N terminal domain; Region: RuvA_N; pfam01330 935599000782 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 935599000783 Predicted membrane protein [Function unknown]; Region: COG3212 935599000784 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 935599000785 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 935599000786 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 935599000787 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 935599000788 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 935599000789 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935599000790 active site 935599000791 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 935599000792 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 935599000793 TAP-like protein; Region: Abhydrolase_4; pfam08386 935599000794 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 935599000795 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 935599000796 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 935599000797 ATP binding site [chemical binding]; other site 935599000798 putative Mg++ binding site [ion binding]; other site 935599000799 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 935599000800 nucleotide binding region [chemical binding]; other site 935599000801 ATP-binding site [chemical binding]; other site 935599000802 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 935599000803 Helicase and RNase D C-terminal; Region: HRDC; smart00341 935599000804 Helicase and RNase D C-terminal; Region: HRDC; smart00341 935599000805 Helicase and RNase D C-terminal; Region: HRDC; smart00341 935599000806 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 935599000807 active site 935599000808 ribulose/triose binding site [chemical binding]; other site 935599000809 phosphate binding site [ion binding]; other site 935599000810 substrate (anthranilate) binding pocket [chemical binding]; other site 935599000811 product (indole) binding pocket [chemical binding]; other site 935599000812 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 935599000813 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 935599000814 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 935599000815 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 935599000816 catalytic residues [active] 935599000817 hinge region; other site 935599000818 alpha helical domain; other site 935599000819 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 935599000820 Phosphotransferase enzyme family; Region: APH; pfam01636 935599000821 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 935599000822 Organic solvent tolerance protein; Region: OstA_C; pfam04453 935599000823 SurA N-terminal domain; Region: SurA_N; pfam09312 935599000824 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 935599000825 Exoribonuclease R [Transcription]; Region: VacB; COG0557 935599000826 RNB domain; Region: RNB; pfam00773 935599000827 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 935599000828 adenylosuccinate lyase; Provisional; Region: PRK09285 935599000829 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 935599000830 tetramer interface [polypeptide binding]; other site 935599000831 active site 935599000832 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599000833 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599000834 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 935599000835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 935599000836 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 935599000837 putative metal binding site [ion binding]; other site 935599000838 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 935599000839 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 935599000840 DEAD_2; Region: DEAD_2; pfam06733 935599000841 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 935599000842 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935599000843 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 935599000844 cofactor binding site; other site 935599000845 DNA binding site [nucleotide binding] 935599000846 substrate interaction site [chemical binding]; other site 935599000847 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 935599000848 Methyltransferase domain; Region: Methyltransf_26; pfam13659 935599000849 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599000850 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 935599000851 Transposase domain (DUF772); Region: DUF772; pfam05598 935599000852 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599000853 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 935599000854 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599000855 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 935599000856 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 935599000857 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 935599000858 NAD(P) binding site [chemical binding]; other site 935599000859 homotetramer interface [polypeptide binding]; other site 935599000860 homodimer interface [polypeptide binding]; other site 935599000861 active site 935599000862 GMP synthase; Reviewed; Region: guaA; PRK00074 935599000863 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 935599000864 AMP/PPi binding site [chemical binding]; other site 935599000865 candidate oxyanion hole; other site 935599000866 catalytic triad [active] 935599000867 potential glutamine specificity residues [chemical binding]; other site 935599000868 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 935599000869 ATP Binding subdomain [chemical binding]; other site 935599000870 Ligand Binding sites [chemical binding]; other site 935599000871 Dimerization subdomain; other site 935599000872 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 935599000873 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935599000874 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 935599000875 Walker A/P-loop; other site 935599000876 ATP binding site [chemical binding]; other site 935599000877 Q-loop/lid; other site 935599000878 ABC transporter signature motif; other site 935599000879 Walker B; other site 935599000880 D-loop; other site 935599000881 H-loop/switch region; other site 935599000882 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 935599000883 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 935599000884 Predicted membrane protein [Function unknown]; Region: COG3326 935599000885 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 935599000886 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 935599000887 dimer interface [polypeptide binding]; other site 935599000888 active site 935599000889 CoA binding pocket [chemical binding]; other site 935599000890 putative phosphate acyltransferase; Provisional; Region: PRK05331 935599000891 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 935599000892 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935599000893 active site 935599000894 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 935599000895 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 935599000896 Maf-like protein; Region: Maf; pfam02545 935599000897 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 935599000898 active site 935599000899 dimer interface [polypeptide binding]; other site 935599000900 Predicted methyltransferases [General function prediction only]; Region: COG0313 935599000901 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 935599000902 putative SAM binding site [chemical binding]; other site 935599000903 homodimer interface [polypeptide binding]; other site 935599000904 membrane protein insertase; Provisional; Region: PRK01318 935599000905 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 935599000906 hypothetical protein; Provisional; Region: PRK14373 935599000907 ribonuclease P; Reviewed; Region: rnpA; PRK04390 935599000908 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 935599000909 DnaA N-terminal domain; Region: DnaA_N; pfam11638 935599000910 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 935599000911 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 935599000912 Walker A motif; other site 935599000913 ATP binding site [chemical binding]; other site 935599000914 Walker B motif; other site 935599000915 arginine finger; other site 935599000916 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 935599000917 DnaA box-binding interface [nucleotide binding]; other site 935599000918 DNA polymerase III subunit beta; Validated; Region: PRK05643 935599000919 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 935599000920 putative DNA binding surface [nucleotide binding]; other site 935599000921 dimer interface [polypeptide binding]; other site 935599000922 beta-clamp/clamp loader binding surface; other site 935599000923 beta-clamp/translesion DNA polymerase binding surface; other site 935599000924 polyphosphate kinase; Provisional; Region: PRK05443 935599000925 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 935599000926 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 935599000927 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 935599000928 putative domain interface [polypeptide binding]; other site 935599000929 putative active site [active] 935599000930 catalytic site [active] 935599000931 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 935599000932 putative domain interface [polypeptide binding]; other site 935599000933 putative active site [active] 935599000934 catalytic site [active] 935599000935 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 935599000936 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 935599000937 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 935599000938 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 935599000939 HIGH motif; other site 935599000940 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 935599000941 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935599000942 active site 935599000943 KMSKS motif; other site 935599000944 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 935599000945 tRNA binding surface [nucleotide binding]; other site 935599000946 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 935599000947 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 935599000948 DNA methylase; Region: N6_N4_Mtase; pfam01555 935599000949 Predicted transcriptional regulator [Transcription]; Region: COG2944 935599000950 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 935599000951 non-specific DNA binding site [nucleotide binding]; other site 935599000952 salt bridge; other site 935599000953 sequence-specific DNA binding site [nucleotide binding]; other site 935599000954 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 935599000955 triosephosphate isomerase; Provisional; Region: PRK14567 935599000956 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 935599000957 substrate binding site [chemical binding]; other site 935599000958 dimer interface [polypeptide binding]; other site 935599000959 catalytic triad [active] 935599000960 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 935599000961 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 935599000962 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 935599000963 S-adenosylmethionine binding site [chemical binding]; other site 935599000964 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 935599000965 active site residue [active] 935599000966 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 935599000967 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 935599000968 N-terminal plug; other site 935599000969 ligand-binding site [chemical binding]; other site 935599000970 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 935599000971 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 935599000972 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 935599000973 putative ligand binding residues [chemical binding]; other site 935599000974 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935599000975 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 935599000976 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 935599000977 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 935599000978 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 935599000979 putative feedback inhibition sensing region; other site 935599000980 putative nucleotide binding site [chemical binding]; other site 935599000981 putative substrate binding site [chemical binding]; other site 935599000982 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935599000983 Coenzyme A binding pocket [chemical binding]; other site 935599000984 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 935599000985 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935599000986 active site 935599000987 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 935599000988 active site 935599000989 Fe-S cluster binding site [ion binding]; other site 935599000990 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 935599000991 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935599000992 Coenzyme A binding pocket [chemical binding]; other site 935599000993 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 935599000994 Glycoprotease family; Region: Peptidase_M22; pfam00814 935599000995 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 935599000996 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 935599000997 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 935599000998 intersubunit interface [polypeptide binding]; other site 935599000999 active site 935599001000 zinc binding site [ion binding]; other site 935599001001 Na+ binding site [ion binding]; other site 935599001002 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 935599001003 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 935599001004 active site 935599001005 Int/Topo IB signature motif; other site 935599001006 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 935599001007 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 935599001008 TPP-binding site; other site 935599001009 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 935599001010 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 935599001011 PYR/PP interface [polypeptide binding]; other site 935599001012 dimer interface [polypeptide binding]; other site 935599001013 TPP binding site [chemical binding]; other site 935599001014 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935599001015 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 935599001016 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 935599001017 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 935599001018 FeS/SAM binding site; other site 935599001019 TRAM domain; Region: TRAM; pfam01938 935599001020 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 935599001021 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 935599001022 inhibitor-cofactor binding pocket; inhibition site 935599001023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599001024 catalytic residue [active] 935599001025 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 935599001026 catalytic site [active] 935599001027 putative active site [active] 935599001028 putative substrate binding site [chemical binding]; other site 935599001029 dimer interface [polypeptide binding]; other site 935599001030 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 935599001031 DNA methylase; Region: N6_N4_Mtase; cl17433 935599001032 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 935599001033 S-adenosylmethionine binding site [chemical binding]; other site 935599001034 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 935599001035 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935599001036 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 935599001037 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 935599001038 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 935599001039 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 935599001040 carboxyltransferase (CT) interaction site; other site 935599001041 biotinylation site [posttranslational modification]; other site 935599001042 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 935599001043 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 935599001044 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 935599001045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935599001046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935599001047 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 935599001048 putative effector binding pocket; other site 935599001049 dimerization interface [polypeptide binding]; other site 935599001050 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 935599001051 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935599001052 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 935599001053 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 935599001054 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935599001055 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935599001056 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 935599001057 IMP binding site; other site 935599001058 dimer interface [polypeptide binding]; other site 935599001059 interdomain contacts; other site 935599001060 partial ornithine binding site; other site 935599001061 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 935599001062 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935599001063 active site 935599001064 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 935599001065 putative active site [active] 935599001066 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 935599001067 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935599001068 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 935599001069 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 935599001070 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 935599001071 catalytic site [active] 935599001072 subunit interface [polypeptide binding]; other site 935599001073 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 935599001074 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 935599001075 antiporter inner membrane protein; Provisional; Region: PRK11670 935599001076 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 935599001077 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 935599001078 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935599001079 MarR family; Region: MarR_2; cl17246 935599001080 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935599001081 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 935599001082 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 935599001083 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 935599001084 Substrate binding site; other site 935599001085 metal-binding site 935599001086 Predicted membrane protein [Function unknown]; Region: COG2510 935599001087 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 935599001088 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 935599001089 Potassium binding sites [ion binding]; other site 935599001090 Cesium cation binding sites [ion binding]; other site 935599001091 GTP-binding protein YchF; Reviewed; Region: PRK09601 935599001092 YchF GTPase; Region: YchF; cd01900 935599001093 G1 box; other site 935599001094 GTP/Mg2+ binding site [chemical binding]; other site 935599001095 Switch I region; other site 935599001096 G2 box; other site 935599001097 Switch II region; other site 935599001098 G3 box; other site 935599001099 G4 box; other site 935599001100 G5 box; other site 935599001101 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 935599001102 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 935599001103 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 935599001104 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 935599001105 active site 935599001106 HIGH motif; other site 935599001107 dimer interface [polypeptide binding]; other site 935599001108 KMSKS motif; other site 935599001109 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 935599001110 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 935599001111 active site 935599001112 Riboflavin kinase; Region: Flavokinase; smart00904 935599001113 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 935599001114 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935599001115 active site 935599001116 HIGH motif; other site 935599001117 nucleotide binding site [chemical binding]; other site 935599001118 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 935599001119 active site 935599001120 KMSKS motif; other site 935599001121 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 935599001122 tRNA binding surface [nucleotide binding]; other site 935599001123 anticodon binding site; other site 935599001124 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 935599001125 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 935599001126 lipoprotein signal peptidase; Provisional; Region: PRK14787 935599001127 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 935599001128 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 935599001129 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 935599001130 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 935599001131 motif II; other site 935599001132 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 935599001133 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 935599001134 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 935599001135 N-terminal plug; other site 935599001136 ligand-binding site [chemical binding]; other site 935599001137 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 935599001138 Putative esterase; Region: Esterase; pfam00756 935599001139 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 935599001140 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 935599001141 putative active site [active] 935599001142 putative PHP Thumb interface [polypeptide binding]; other site 935599001143 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 935599001144 generic binding surface II; other site 935599001145 generic binding surface I; other site 935599001146 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 935599001147 RNA binding surface [nucleotide binding]; other site 935599001148 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 935599001149 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 935599001150 active site 935599001151 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 935599001152 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]; Region: COG3977 935599001153 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 935599001154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599001155 homodimer interface [polypeptide binding]; other site 935599001156 catalytic residue [active] 935599001157 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 935599001158 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 935599001159 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 935599001160 NAD(P) binding site [chemical binding]; other site 935599001161 homodimer interface [polypeptide binding]; other site 935599001162 substrate binding site [chemical binding]; other site 935599001163 active site 935599001164 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 935599001165 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 935599001166 inhibitor-cofactor binding pocket; inhibition site 935599001167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599001168 catalytic residue [active] 935599001169 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 935599001170 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 935599001171 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 935599001172 Bacterial sugar transferase; Region: Bac_transf; pfam02397 935599001173 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 935599001174 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 935599001175 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 935599001176 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935599001177 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 935599001178 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 935599001179 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 935599001180 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 935599001181 catalytic motif [active] 935599001182 Zn binding site [ion binding]; other site 935599001183 RibD C-terminal domain; Region: RibD_C; cl17279 935599001184 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 935599001185 ATP cone domain; Region: ATP-cone; pfam03477 935599001186 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 935599001187 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 935599001188 putative dimer interface [polypeptide binding]; other site 935599001189 putative active site [active] 935599001190 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 935599001191 active site 935599001192 dimer interface [polypeptide binding]; other site 935599001193 metal binding site [ion binding]; metal-binding site 935599001194 shikimate kinase; Reviewed; Region: aroK; PRK00131 935599001195 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 935599001196 ADP binding site [chemical binding]; other site 935599001197 magnesium binding site [ion binding]; other site 935599001198 putative shikimate binding site; other site 935599001199 AMIN domain; Region: AMIN; pfam11741 935599001200 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 935599001201 Secretin and TonB N terminus short domain; Region: STN; pfam07660 935599001202 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 935599001203 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 935599001204 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 935599001205 Pilus assembly protein, PilP; Region: PilP; pfam04351 935599001206 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 935599001207 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 935599001208 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 935599001209 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 935599001210 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 935599001211 Transglycosylase; Region: Transgly; pfam00912 935599001212 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935599001213 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 935599001214 G1 box; other site 935599001215 GTP/Mg2+ binding site [chemical binding]; other site 935599001216 Switch I region; other site 935599001217 G2 box; other site 935599001218 G3 box; other site 935599001219 Switch II region; other site 935599001220 G4 box; other site 935599001221 G5 box; other site 935599001222 Cytochrome c553 [Energy production and conversion]; Region: COG2863 935599001223 Cytochrome c; Region: Cytochrom_C; cl11414 935599001224 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 935599001225 ResB-like family; Region: ResB; pfam05140 935599001226 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 935599001227 UGMP family protein; Validated; Region: PRK09604 935599001228 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 935599001229 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935599001230 putative acyl-acceptor binding pocket; other site 935599001231 S-adenosylmethionine synthetase; Validated; Region: PRK05250 935599001232 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 935599001233 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 935599001234 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 935599001235 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 935599001236 Predicted flavoprotein [General function prediction only]; Region: COG0431 935599001237 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 935599001238 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 935599001239 Citrate transporter; Region: CitMHS; pfam03600 935599001240 cheY-homologous receiver domain; Region: REC; smart00448 935599001241 sensor protein QseC; Provisional; Region: PRK10337 935599001242 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 935599001243 dimer interface [polypeptide binding]; other site 935599001244 phosphorylation site [posttranslational modification] 935599001245 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 935599001246 ATP binding site [chemical binding]; other site 935599001247 Mg2+ binding site [ion binding]; other site 935599001248 G-X-G motif; other site 935599001249 ribonuclease G; Provisional; Region: PRK11712 935599001250 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 935599001251 homodimer interface [polypeptide binding]; other site 935599001252 oligonucleotide binding site [chemical binding]; other site 935599001253 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 935599001254 GSH binding site [chemical binding]; other site 935599001255 catalytic residues [active] 935599001256 protein-export chaperone SecB; Region: secB; TIGR00809 935599001257 SecA binding site; other site 935599001258 Preprotein binding site; other site 935599001259 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 935599001260 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 935599001261 generic binding surface II; other site 935599001262 ssDNA binding site; other site 935599001263 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 935599001264 ATP binding site [chemical binding]; other site 935599001265 putative Mg++ binding site [ion binding]; other site 935599001266 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 935599001267 nucleotide binding region [chemical binding]; other site 935599001268 ATP-binding site [chemical binding]; other site 935599001269 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 935599001270 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 935599001271 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 935599001272 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 935599001273 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 935599001274 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 935599001275 haemagglutination activity domain; Region: Haemagg_act; pfam05860 935599001276 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001277 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935599001278 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001279 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001280 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935599001281 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001282 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 935599001283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 935599001284 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935599001285 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001286 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001287 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935599001288 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 935599001289 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 935599001290 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001291 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001292 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935599001293 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 935599001294 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935599001295 Helix-turn-helix domain; Region: HTH_38; pfam13936 935599001296 Homeodomain-like domain; Region: HTH_32; pfam13565 935599001297 Integrase core domain; Region: rve; pfam00665 935599001298 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001299 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 935599001300 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935599001301 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 935599001302 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 935599001303 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935599001304 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 935599001305 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 935599001306 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 935599001307 Ligand Binding Site [chemical binding]; other site 935599001308 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 935599001309 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 935599001310 active site 935599001311 Predicted membrane protein [Function unknown]; Region: COG3759 935599001312 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 935599001313 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 935599001314 FeS/SAM binding site; other site 935599001315 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 935599001316 beta-hexosaminidase; Provisional; Region: PRK05337 935599001317 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 935599001318 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 935599001319 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 935599001320 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 935599001321 protein binding site [polypeptide binding]; other site 935599001322 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 935599001323 protein binding site [polypeptide binding]; other site 935599001324 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 935599001325 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 935599001326 minor groove reading motif; other site 935599001327 helix-hairpin-helix signature motif; other site 935599001328 substrate binding pocket [chemical binding]; other site 935599001329 active site 935599001330 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 935599001331 Predicted membrane protein [Function unknown]; Region: COG1238 935599001332 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 935599001333 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 935599001334 putative substrate translocation pore; other site 935599001335 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 935599001336 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 935599001337 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 935599001338 Transporter associated domain; Region: CorC_HlyC; smart01091 935599001339 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 935599001340 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 935599001341 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 935599001342 domain interfaces; other site 935599001343 active site 935599001344 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 935599001345 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 935599001346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599001347 homodimer interface [polypeptide binding]; other site 935599001348 catalytic residue [active] 935599001349 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 935599001350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 935599001351 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 935599001352 L-lactate permease; Region: Lactate_perm; cl00701 935599001353 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 935599001354 putative active site [active] 935599001355 putative metal binding site [ion binding]; other site 935599001356 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 935599001357 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 935599001358 Walker A/P-loop; other site 935599001359 ATP binding site [chemical binding]; other site 935599001360 Q-loop/lid; other site 935599001361 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 935599001362 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 935599001363 ABC transporter signature motif; other site 935599001364 Walker B; other site 935599001365 D-loop; other site 935599001366 H-loop/switch region; other site 935599001367 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 935599001368 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 935599001369 NAD binding site [chemical binding]; other site 935599001370 substrate binding site [chemical binding]; other site 935599001371 catalytic Zn binding site [ion binding]; other site 935599001372 tetramer interface [polypeptide binding]; other site 935599001373 structural Zn binding site [ion binding]; other site 935599001374 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 935599001375 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 935599001376 macrolide transporter subunit MacA; Provisional; Region: PRK11578 935599001377 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935599001378 HlyD family secretion protein; Region: HlyD_3; pfam13437 935599001379 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 935599001380 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935599001381 Walker A/P-loop; other site 935599001382 ATP binding site [chemical binding]; other site 935599001383 Q-loop/lid; other site 935599001384 ABC transporter signature motif; other site 935599001385 Walker B; other site 935599001386 D-loop; other site 935599001387 H-loop/switch region; other site 935599001388 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935599001389 FtsX-like permease family; Region: FtsX; pfam02687 935599001390 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 935599001391 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 935599001392 dimerization domain [polypeptide binding]; other site 935599001393 dimer interface [polypeptide binding]; other site 935599001394 catalytic residues [active] 935599001395 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 935599001396 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 935599001397 ATP binding site [chemical binding]; other site 935599001398 putative Mg++ binding site [ion binding]; other site 935599001399 helicase superfamily c-terminal domain; Region: HELICc; smart00490 935599001400 ATP-binding site [chemical binding]; other site 935599001401 NnrS protein; Region: NnrS; cl01258 935599001402 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 935599001403 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 935599001404 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 935599001405 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 935599001406 nucleotide binding site [chemical binding]; other site 935599001407 Predicted transcriptional regulator [Transcription]; Region: COG2932 935599001408 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 935599001409 Catalytic site [active] 935599001410 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 935599001411 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 935599001412 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 935599001413 serine acetyltransferase; Provisional; Region: cysE; PRK11132 935599001414 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 935599001415 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 935599001416 trimer interface [polypeptide binding]; other site 935599001417 active site 935599001418 substrate binding site [chemical binding]; other site 935599001419 CoA binding site [chemical binding]; other site 935599001420 GrpE; Region: GrpE; pfam01025 935599001421 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 935599001422 dimer interface [polypeptide binding]; other site 935599001423 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 935599001424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 935599001425 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 935599001426 ApbE family; Region: ApbE; pfam02424 935599001427 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 935599001428 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 935599001429 catalytic loop [active] 935599001430 iron binding site [ion binding]; other site 935599001431 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 935599001432 FAD binding pocket [chemical binding]; other site 935599001433 FAD binding motif [chemical binding]; other site 935599001434 phosphate binding motif [ion binding]; other site 935599001435 beta-alpha-beta structure motif; other site 935599001436 NAD binding pocket [chemical binding]; other site 935599001437 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 935599001438 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 935599001439 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 935599001440 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 935599001441 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 935599001442 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 935599001443 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 935599001444 E3 interaction surface; other site 935599001445 lipoyl attachment site [posttranslational modification]; other site 935599001446 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 935599001447 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 935599001448 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 935599001449 transmembrane helices; other site 935599001450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 935599001451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 935599001452 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 935599001453 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 935599001454 putative DNA binding site [nucleotide binding]; other site 935599001455 putative Zn2+ binding site [ion binding]; other site 935599001456 AsnC family; Region: AsnC_trans_reg; pfam01037 935599001457 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 935599001458 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 935599001459 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 935599001460 lipoyl attachment site [posttranslational modification]; other site 935599001461 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 935599001462 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 935599001463 tRNA; other site 935599001464 putative tRNA binding site [nucleotide binding]; other site 935599001465 putative NADP binding site [chemical binding]; other site 935599001466 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 935599001467 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 935599001468 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 935599001469 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 935599001470 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 935599001471 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935599001472 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 935599001473 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 935599001474 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 935599001475 putative active site [active] 935599001476 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935599001477 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599001478 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599001479 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935599001480 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935599001481 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935599001482 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935599001483 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935599001484 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 935599001485 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 935599001486 metal binding site [ion binding]; metal-binding site 935599001487 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 935599001488 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 935599001489 ABC-ATPase subunit interface; other site 935599001490 dimer interface [polypeptide binding]; other site 935599001491 putative PBP binding regions; other site 935599001492 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 935599001493 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 935599001494 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 935599001495 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 935599001496 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 935599001497 RimM N-terminal domain; Region: RimM; pfam01782 935599001498 PRC-barrel domain; Region: PRC; pfam05239 935599001499 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 935599001500 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 935599001501 CoA binding domain; Region: CoA_binding_2; pfam13380 935599001502 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935599001503 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935599001504 Coenzyme A binding pocket [chemical binding]; other site 935599001505 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935599001506 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 935599001507 dimerization interface [polypeptide binding]; other site 935599001508 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 935599001509 dimer interface [polypeptide binding]; other site 935599001510 phosphorylation site [posttranslational modification] 935599001511 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 935599001512 ATP binding site [chemical binding]; other site 935599001513 Mg2+ binding site [ion binding]; other site 935599001514 G-X-G motif; other site 935599001515 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935599001516 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 935599001517 active site 935599001518 phosphorylation site [posttranslational modification] 935599001519 intermolecular recognition site; other site 935599001520 dimerization interface [polypeptide binding]; other site 935599001521 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 935599001522 DNA binding site [nucleotide binding] 935599001523 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 935599001524 O-Antigen ligase; Region: Wzy_C; pfam04932 935599001525 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 935599001526 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 935599001527 Maf-like protein; Region: Maf; pfam02545 935599001528 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 935599001529 active site 935599001530 dimer interface [polypeptide binding]; other site 935599001531 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 935599001532 sec-independent translocase; Provisional; Region: PRK00708 935599001533 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 935599001534 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 935599001535 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 935599001536 nucleotide binding site/active site [active] 935599001537 HIT family signature motif; other site 935599001538 catalytic residue [active] 935599001539 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 935599001540 metal binding site [ion binding]; metal-binding site 935599001541 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 935599001542 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 935599001543 putative NAD(P) binding site [chemical binding]; other site 935599001544 catalytic Zn binding site [ion binding]; other site 935599001545 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 935599001546 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 935599001547 putative active site [active] 935599001548 Zn binding site [ion binding]; other site 935599001549 Preprotein translocase subunit; Region: YajC; pfam02699 935599001550 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 935599001551 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 935599001552 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 935599001553 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 935599001554 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 935599001555 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 935599001556 Protein export membrane protein; Region: SecD_SecF; pfam02355 935599001557 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 935599001558 16S/18S rRNA binding site [nucleotide binding]; other site 935599001559 S13e-L30e interaction site [polypeptide binding]; other site 935599001560 25S rRNA binding site [nucleotide binding]; other site 935599001561 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 935599001562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935599001563 Walker A/P-loop; other site 935599001564 ATP binding site [chemical binding]; other site 935599001565 Q-loop/lid; other site 935599001566 ABC transporter signature motif; other site 935599001567 Walker B; other site 935599001568 D-loop; other site 935599001569 H-loop/switch region; other site 935599001570 TOBE domain; Region: TOBE_2; pfam08402 935599001571 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 935599001572 dimer interface [polypeptide binding]; other site 935599001573 conserved gate region; other site 935599001574 putative PBP binding loops; other site 935599001575 ABC-ATPase subunit interface; other site 935599001576 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 935599001577 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 935599001578 dimer interface [polypeptide binding]; other site 935599001579 conserved gate region; other site 935599001580 putative PBP binding loops; other site 935599001581 ABC-ATPase subunit interface; other site 935599001582 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 935599001583 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 935599001584 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 935599001585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935599001586 transcription termination factor Rho; Provisional; Region: rho; PRK09376 935599001587 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 935599001588 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 935599001589 RNA binding site [nucleotide binding]; other site 935599001590 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 935599001591 multimer interface [polypeptide binding]; other site 935599001592 Walker A motif; other site 935599001593 ATP binding site [chemical binding]; other site 935599001594 Walker B motif; other site 935599001595 phosphoenolpyruvate synthase; Validated; Region: PRK06464 935599001596 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 935599001597 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 935599001598 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 935599001599 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 935599001600 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 935599001601 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 935599001602 motif II; other site 935599001603 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 935599001604 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 935599001605 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 935599001606 dinuclear metal binding motif [ion binding]; other site 935599001607 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 935599001608 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 935599001609 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 935599001610 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 935599001611 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 935599001612 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 935599001613 trimer interface [polypeptide binding]; other site 935599001614 putative metal binding site [ion binding]; other site 935599001615 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 935599001616 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 935599001617 G1 box; other site 935599001618 putative GEF interaction site [polypeptide binding]; other site 935599001619 GTP/Mg2+ binding site [chemical binding]; other site 935599001620 Switch I region; other site 935599001621 G2 box; other site 935599001622 G3 box; other site 935599001623 Switch II region; other site 935599001624 G4 box; other site 935599001625 G5 box; other site 935599001626 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 935599001627 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 935599001628 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 935599001629 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 935599001630 substrate binding site [chemical binding]; other site 935599001631 glutamase interaction surface [polypeptide binding]; other site 935599001632 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 935599001633 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 935599001634 catalytic residues [active] 935599001635 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 935599001636 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 935599001637 putative active site [active] 935599001638 oxyanion strand; other site 935599001639 catalytic triad [active] 935599001640 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 935599001641 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 935599001642 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 935599001643 Walker A/P-loop; other site 935599001644 ATP binding site [chemical binding]; other site 935599001645 Q-loop/lid; other site 935599001646 ABC transporter signature motif; other site 935599001647 Walker B; other site 935599001648 D-loop; other site 935599001649 H-loop/switch region; other site 935599001650 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 935599001651 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 935599001652 dimer interface [polypeptide binding]; other site 935599001653 conserved gate region; other site 935599001654 putative PBP binding loops; other site 935599001655 ABC-ATPase subunit interface; other site 935599001656 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 935599001657 dimer interface [polypeptide binding]; other site 935599001658 conserved gate region; other site 935599001659 ABC-ATPase subunit interface; other site 935599001660 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 935599001661 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 935599001662 argininosuccinate lyase; Provisional; Region: PRK00855 935599001663 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 935599001664 active sites [active] 935599001665 tetramer interface [polypeptide binding]; other site 935599001666 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 935599001667 active site 935599001668 tetramer interface; other site 935599001669 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 935599001670 active site 935599001671 dimerization interface [polypeptide binding]; other site 935599001672 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 935599001673 dimer interface [polypeptide binding]; other site 935599001674 substrate binding site [chemical binding]; other site 935599001675 metal binding sites [ion binding]; metal-binding site 935599001676 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 935599001677 nudix motif; other site 935599001678 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935599001679 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 935599001680 RNAase interaction site [polypeptide binding]; other site 935599001681 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 935599001682 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 935599001683 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 935599001684 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935599001685 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 935599001686 Pretoxin HINT domain; Region: PT-HINT; pfam07591 935599001687 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 935599001688 thioester formation/cholesterol transfer; other site 935599001689 protein-splicing catalytic site; other site 935599001690 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 935599001691 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 935599001692 Pretoxin HINT domain; Region: PT-HINT; pfam07591 935599001693 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 935599001694 thioester formation/cholesterol transfer; other site 935599001695 protein-splicing catalytic site; other site 935599001696 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599001697 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599001698 Cation transport protein; Region: TrkH; cl17365 935599001699 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 935599001700 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 935599001701 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 935599001702 active site 935599001703 metal binding site [ion binding]; metal-binding site 935599001704 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 935599001705 homotrimer interaction site [polypeptide binding]; other site 935599001706 putative active site [active] 935599001707 Opacity family porin protein; Region: Opacity; pfam02462 935599001708 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 935599001709 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 935599001710 FeS/SAM binding site; other site 935599001711 HemN C-terminal domain; Region: HemN_C; pfam06969 935599001712 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 935599001713 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 935599001714 nucleotide binding pocket [chemical binding]; other site 935599001715 K-X-D-G motif; other site 935599001716 catalytic site [active] 935599001717 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 935599001718 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 935599001719 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 935599001720 Dimer interface [polypeptide binding]; other site 935599001721 BRCT sequence motif; other site 935599001722 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 935599001723 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 935599001724 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 935599001725 amidase catalytic site [active] 935599001726 Zn binding residues [ion binding]; other site 935599001727 substrate binding site [chemical binding]; other site 935599001728 YceG-like family; Region: YceG; pfam02618 935599001729 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 935599001730 dimerization interface [polypeptide binding]; other site 935599001731 thymidylate kinase; Validated; Region: tmk; PRK00698 935599001732 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 935599001733 TMP-binding site; other site 935599001734 ATP-binding site [chemical binding]; other site 935599001735 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 935599001736 Malic enzyme, N-terminal domain; Region: malic; pfam00390 935599001737 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 935599001738 putative NAD(P) binding site [chemical binding]; other site 935599001739 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 935599001740 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 935599001741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 935599001742 Uncharacterized conserved protein [Function unknown]; Region: COG2835 935599001743 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 935599001744 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 935599001745 Ligand binding site; other site 935599001746 oligomer interface; other site 935599001747 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 935599001748 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 935599001749 substrate binding site [chemical binding]; other site 935599001750 active site 935599001751 catalytic residues [active] 935599001752 heterodimer interface [polypeptide binding]; other site 935599001753 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 935599001754 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 935599001755 CNP1-like family; Region: CNP1; pfam08750 935599001756 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 935599001757 CPxP motif; other site 935599001758 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 935599001759 active site 935599001760 substrate binding pocket [chemical binding]; other site 935599001761 dimer interface [polypeptide binding]; other site 935599001762 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 935599001763 putative RNA binding site [nucleotide binding]; other site 935599001764 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 935599001765 homopentamer interface [polypeptide binding]; other site 935599001766 active site 935599001767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 935599001768 ribonuclease III; Reviewed; Region: rnc; PRK00102 935599001769 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 935599001770 dimerization interface [polypeptide binding]; other site 935599001771 active site 935599001772 metal binding site [ion binding]; metal-binding site 935599001773 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 935599001774 dsRNA binding site [nucleotide binding]; other site 935599001775 GTPase Era; Reviewed; Region: era; PRK00089 935599001776 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 935599001777 G1 box; other site 935599001778 GTP/Mg2+ binding site [chemical binding]; other site 935599001779 Switch I region; other site 935599001780 G2 box; other site 935599001781 Switch II region; other site 935599001782 G3 box; other site 935599001783 G4 box; other site 935599001784 G5 box; other site 935599001785 KH domain; Region: KH_2; pfam07650 935599001786 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 935599001787 active site 935599001788 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 935599001789 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 935599001790 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 935599001791 amidophosphoribosyltransferase; Provisional; Region: PRK09246 935599001792 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 935599001793 active site 935599001794 tetramer interface [polypeptide binding]; other site 935599001795 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935599001796 active site 935599001797 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 935599001798 Colicin V production protein; Region: Colicin_V; pfam02674 935599001799 cell division protein FtsN; Region: ftsN; TIGR02223 935599001800 Sporulation related domain; Region: SPOR; pfam05036 935599001801 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 935599001802 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935599001803 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935599001804 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935599001805 Walker A/P-loop; other site 935599001806 ATP binding site [chemical binding]; other site 935599001807 Q-loop/lid; other site 935599001808 ABC transporter signature motif; other site 935599001809 Walker B; other site 935599001810 D-loop; other site 935599001811 H-loop/switch region; other site 935599001812 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 935599001813 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 935599001814 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 935599001815 putative active site [active] 935599001816 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 935599001817 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 935599001818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599001819 catalytic residue [active] 935599001820 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 935599001821 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 935599001822 Autotransporter beta-domain; Region: Autotransporter; pfam03797 935599001823 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 935599001824 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 935599001825 Competence protein; Region: Competence; pfam03772 935599001826 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935599001827 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 935599001828 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 935599001829 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 935599001830 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 935599001831 RNA binding surface [nucleotide binding]; other site 935599001832 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935599001833 active site 935599001834 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 935599001835 Sodium Bile acid symporter family; Region: SBF; pfam01758 935599001836 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 935599001837 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 935599001838 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 935599001839 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 935599001840 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 935599001841 Predicted membrane protein/domain [Function unknown]; Region: COG1714 935599001842 hypothetical protein; Provisional; Region: PRK11820 935599001843 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 935599001844 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 935599001845 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 935599001846 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 935599001847 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935599001848 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 935599001849 DNA binding residues [nucleotide binding] 935599001850 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 935599001851 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 935599001852 putative active site [active] 935599001853 catalytic triad [active] 935599001854 putative dimer interface [polypeptide binding]; other site 935599001855 Protein of unknown function (DUF808); Region: DUF808; cl01002 935599001856 potassium/proton antiporter; Reviewed; Region: PRK05326 935599001857 potassium/proton antiporter; Reviewed; Region: PRK05326 935599001858 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 935599001859 Cytochrome c; Region: Cytochrom_C; pfam00034 935599001860 ferrochelatase; Reviewed; Region: hemH; PRK00035 935599001861 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 935599001862 C-terminal domain interface [polypeptide binding]; other site 935599001863 active site 935599001864 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 935599001865 active site 935599001866 N-terminal domain interface [polypeptide binding]; other site 935599001867 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 935599001868 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 935599001869 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 935599001870 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 935599001871 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 935599001872 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 935599001873 active site 935599001874 dimer interface [polypeptide binding]; other site 935599001875 motif 1; other site 935599001876 motif 2; other site 935599001877 motif 3; other site 935599001878 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 935599001879 anticodon binding site; other site 935599001880 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 935599001881 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 935599001882 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 935599001883 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 935599001884 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 935599001885 23S rRNA binding site [nucleotide binding]; other site 935599001886 L21 binding site [polypeptide binding]; other site 935599001887 L13 binding site [polypeptide binding]; other site 935599001888 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 935599001889 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 935599001890 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 935599001891 dimer interface [polypeptide binding]; other site 935599001892 motif 1; other site 935599001893 active site 935599001894 motif 2; other site 935599001895 motif 3; other site 935599001896 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 935599001897 additional DNA contacts [nucleotide binding]; other site 935599001898 mismatch recognition site; other site 935599001899 active site 935599001900 zinc binding site [ion binding]; other site 935599001901 DNA intercalation site [nucleotide binding]; other site 935599001902 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935599001903 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 935599001904 cofactor binding site; other site 935599001905 DNA binding site [nucleotide binding] 935599001906 substrate interaction site [chemical binding]; other site 935599001907 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 935599001908 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 935599001909 putative tRNA-binding site [nucleotide binding]; other site 935599001910 B3/4 domain; Region: B3_4; pfam03483 935599001911 tRNA synthetase B5 domain; Region: B5; smart00874 935599001912 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 935599001913 dimer interface [polypeptide binding]; other site 935599001914 motif 1; other site 935599001915 motif 3; other site 935599001916 motif 2; other site 935599001917 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 935599001918 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 935599001919 IHF - DNA interface [nucleotide binding]; other site 935599001920 IHF dimer interface [polypeptide binding]; other site 935599001921 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 935599001922 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 935599001923 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 935599001924 inhibitor-cofactor binding pocket; inhibition site 935599001925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599001926 catalytic residue [active] 935599001927 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 935599001928 AAA domain; Region: AAA_26; pfam13500 935599001929 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 935599001930 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 935599001931 UbiA prenyltransferase family; Region: UbiA; pfam01040 935599001932 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 935599001933 active site 935599001934 phosphorylation site [posttranslational modification] 935599001935 HPr kinase/phosphorylase; Provisional; Region: PRK05428 935599001936 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 935599001937 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 935599001938 Hpr binding site; other site 935599001939 active site 935599001940 homohexamer subunit interaction site [polypeptide binding]; other site 935599001941 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 935599001942 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 935599001943 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 935599001944 GTP/Mg2+ binding site [chemical binding]; other site 935599001945 G4 box; other site 935599001946 G5 box; other site 935599001947 G1 box; other site 935599001948 Switch I region; other site 935599001949 G2 box; other site 935599001950 G3 box; other site 935599001951 Switch II region; other site 935599001952 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 935599001953 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 935599001954 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 935599001955 Walker A/P-loop; other site 935599001956 ATP binding site [chemical binding]; other site 935599001957 Q-loop/lid; other site 935599001958 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 935599001959 ABC transporter signature motif; other site 935599001960 Walker B; other site 935599001961 D-loop; other site 935599001962 H-loop/switch region; other site 935599001963 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 935599001964 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 935599001965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 935599001966 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 935599001967 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 935599001968 S-adenosylmethionine binding site [chemical binding]; other site 935599001969 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 935599001970 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 935599001971 catalytic center binding site [active] 935599001972 ATP binding site [chemical binding]; other site 935599001973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 935599001974 Methyltransferase domain; Region: Methyltransf_31; pfam13847 935599001975 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 935599001976 S-adenosylmethionine binding site [chemical binding]; other site 935599001977 bacterial Hfq-like; Region: Hfq; cd01716 935599001978 hexamer interface [polypeptide binding]; other site 935599001979 Sm1 motif; other site 935599001980 RNA binding site [nucleotide binding]; other site 935599001981 Sm2 motif; other site 935599001982 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 935599001983 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 935599001984 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 935599001985 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 935599001986 catalytic triad [active] 935599001987 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 935599001988 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 935599001989 active site 935599001990 Int/Topo IB signature motif; other site 935599001991 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 935599001992 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 935599001993 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 935599001994 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 935599001995 NADP binding site [chemical binding]; other site 935599001996 active site 935599001997 putative substrate binding site [chemical binding]; other site 935599001998 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 935599001999 ATP binding site [chemical binding]; other site 935599002000 active site 935599002001 substrate binding site [chemical binding]; other site 935599002002 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 935599002003 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 935599002004 RNase E interface [polypeptide binding]; other site 935599002005 trimer interface [polypeptide binding]; other site 935599002006 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 935599002007 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 935599002008 RNase E interface [polypeptide binding]; other site 935599002009 trimer interface [polypeptide binding]; other site 935599002010 active site 935599002011 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 935599002012 putative nucleic acid binding region [nucleotide binding]; other site 935599002013 G-X-X-G motif; other site 935599002014 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 935599002015 RNA binding site [nucleotide binding]; other site 935599002016 domain interface; other site 935599002017 Uncharacterized conserved protein [Function unknown]; Region: COG2836 935599002018 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 935599002019 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 935599002020 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 935599002021 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 935599002022 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 935599002023 dimer interface [polypeptide binding]; other site 935599002024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599002025 catalytic residue [active] 935599002026 EamA-like transporter family; Region: EamA; pfam00892 935599002027 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 935599002028 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 935599002029 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 935599002030 Catalytic site [active] 935599002031 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 935599002032 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 935599002033 GTP-binding protein LepA; Provisional; Region: PRK05433 935599002034 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 935599002035 G1 box; other site 935599002036 putative GEF interaction site [polypeptide binding]; other site 935599002037 GTP/Mg2+ binding site [chemical binding]; other site 935599002038 Switch I region; other site 935599002039 G2 box; other site 935599002040 G3 box; other site 935599002041 Switch II region; other site 935599002042 G4 box; other site 935599002043 G5 box; other site 935599002044 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 935599002045 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 935599002046 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 935599002047 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 935599002048 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 935599002049 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 935599002050 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 935599002051 Walker A motif; other site 935599002052 ATP binding site [chemical binding]; other site 935599002053 Walker B motif; other site 935599002054 DNA polymerase III subunit delta'; Validated; Region: PRK08699 935599002055 DNA polymerase III subunit delta'; Validated; Region: PRK08485 935599002056 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 935599002057 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 935599002058 active site 935599002059 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 935599002060 Domain of unknown function (DUF333); Region: DUF333; pfam03891 935599002061 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 935599002062 putative GSH binding site [chemical binding]; other site 935599002063 catalytic residues [active] 935599002064 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935599002065 active site 935599002066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 935599002067 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 935599002068 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 935599002069 active site 935599002070 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 935599002071 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 935599002072 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 935599002073 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 935599002074 substrate binding site [chemical binding]; other site 935599002075 active site 935599002076 DNA repair protein RadA; Provisional; Region: PRK11823 935599002077 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 935599002078 Walker A motif/ATP binding site; other site 935599002079 ATP binding site [chemical binding]; other site 935599002080 Walker B motif; other site 935599002081 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 935599002082 Uncharacterized conserved protein [Function unknown]; Region: COG3439 935599002083 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 935599002084 active site residue [active] 935599002085 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 935599002086 Part of AAA domain; Region: AAA_19; pfam13245 935599002087 Family description; Region: UvrD_C_2; pfam13538 935599002088 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 935599002089 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 935599002090 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935599002091 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 935599002092 substrate binding pocket [chemical binding]; other site 935599002093 membrane-bound complex binding site; other site 935599002094 hinge residues; other site 935599002095 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 935599002096 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 935599002097 dimer interface [polypeptide binding]; other site 935599002098 conserved gate region; other site 935599002099 putative PBP binding loops; other site 935599002100 ABC-ATPase subunit interface; other site 935599002101 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935599002102 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935599002103 Walker A/P-loop; other site 935599002104 ATP binding site [chemical binding]; other site 935599002105 Q-loop/lid; other site 935599002106 ABC transporter signature motif; other site 935599002107 Walker B; other site 935599002108 D-loop; other site 935599002109 H-loop/switch region; other site 935599002110 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 935599002111 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 935599002112 active site 935599002113 substrate binding site [chemical binding]; other site 935599002114 metal binding site [ion binding]; metal-binding site 935599002115 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 935599002116 active site 935599002117 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 935599002118 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 935599002119 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 935599002120 putative active site [active] 935599002121 catalytic residue [active] 935599002122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 935599002123 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 935599002124 putative coenzyme Q binding site [chemical binding]; other site 935599002125 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 935599002126 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 935599002127 Walker A motif; other site 935599002128 ATP binding site [chemical binding]; other site 935599002129 Walker B motif; other site 935599002130 arginine finger; other site 935599002131 Peptidase family M41; Region: Peptidase_M41; pfam01434 935599002132 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 935599002133 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 935599002134 S-adenosylmethionine binding site [chemical binding]; other site 935599002135 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 935599002136 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 935599002137 dimer interface [polypeptide binding]; other site 935599002138 active site 935599002139 aspartate-rich active site metal binding site; other site 935599002140 allosteric magnesium binding site [ion binding]; other site 935599002141 Schiff base residues; other site 935599002142 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 935599002143 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 935599002144 homodimer interface [polypeptide binding]; other site 935599002145 substrate-cofactor binding pocket; other site 935599002146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599002147 catalytic residue [active] 935599002148 putative GTP cyclohydrolase; Provisional; Region: PRK13674 935599002149 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 935599002150 dimer interface [polypeptide binding]; other site 935599002151 FMN binding site [chemical binding]; other site 935599002152 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 935599002153 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 935599002154 RNA binding surface [nucleotide binding]; other site 935599002155 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 935599002156 active site 935599002157 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 935599002158 ATP-NAD kinase; Region: NAD_kinase; pfam01513 935599002159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 935599002160 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 935599002161 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 935599002162 putative NAD(P) binding site [chemical binding]; other site 935599002163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935599002164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935599002165 Bacterial transcriptional repressor; Region: TetR; pfam13972 935599002166 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 935599002167 FAD binding domain; Region: FAD_binding_4; pfam01565 935599002168 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 935599002169 multidrug efflux protein; Reviewed; Region: PRK01766 935599002170 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 935599002171 cation binding site [ion binding]; other site 935599002172 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 935599002173 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 935599002174 dimer interface [polypeptide binding]; other site 935599002175 motif 1; other site 935599002176 active site 935599002177 motif 2; other site 935599002178 motif 3; other site 935599002179 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 935599002180 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 935599002181 GDP-binding site [chemical binding]; other site 935599002182 ACT binding site; other site 935599002183 IMP binding site; other site 935599002184 heat shock protein HtpX; Provisional; Region: PRK05457 935599002185 adenylate kinase; Reviewed; Region: adk; PRK00279 935599002186 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 935599002187 AMP-binding site [chemical binding]; other site 935599002188 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 935599002189 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 935599002190 active site 935599002191 dimer interface [polypeptide binding]; other site 935599002192 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 935599002193 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 935599002194 putative ribose interaction site [chemical binding]; other site 935599002195 putative ADP binding site [chemical binding]; other site 935599002196 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 935599002197 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 935599002198 cofactor binding site; other site 935599002199 DNA binding site [nucleotide binding] 935599002200 substrate interaction site [chemical binding]; other site 935599002201 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 935599002202 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 935599002203 HNH endonuclease; Region: HNH_2; pfam13391 935599002204 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 935599002205 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 935599002206 NADP binding site [chemical binding]; other site 935599002207 homopentamer interface [polypeptide binding]; other site 935599002208 substrate binding site [chemical binding]; other site 935599002209 active site 935599002210 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 935599002211 Clp amino terminal domain; Region: Clp_N; pfam02861 935599002212 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 935599002213 Walker A motif; other site 935599002214 ATP binding site [chemical binding]; other site 935599002215 Walker B motif; other site 935599002216 arginine finger; other site 935599002217 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 935599002218 Walker A motif; other site 935599002219 ATP binding site [chemical binding]; other site 935599002220 Walker B motif; other site 935599002221 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 935599002222 Uncharacterized conserved protein [Function unknown]; Region: COG2127 935599002223 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 935599002224 DNA-binding site [nucleotide binding]; DNA binding site 935599002225 RNA-binding motif; other site 935599002226 peptidase PmbA; Provisional; Region: PRK11040 935599002227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 935599002228 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 935599002229 DHH family; Region: DHH; pfam01368 935599002230 DHHA1 domain; Region: DHHA1; pfam02272 935599002231 poly(A) polymerase; Region: pcnB; TIGR01942 935599002232 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 935599002233 active site 935599002234 NTP binding site [chemical binding]; other site 935599002235 metal binding triad [ion binding]; metal-binding site 935599002236 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 935599002237 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 935599002238 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 935599002239 PhoH-like protein; Region: PhoH; pfam02562 935599002240 Protein of unknown function (DUF541); Region: SIMPL; cl01077 935599002241 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 935599002242 trimer interface [polypeptide binding]; other site 935599002243 active site 935599002244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 935599002245 MORN repeat; Region: MORN; cl14787 935599002246 Putative exonuclease, RdgC; Region: RdgC; cl01122 935599002247 GTP-binding protein Der; Reviewed; Region: PRK00093 935599002248 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 935599002249 G1 box; other site 935599002250 GTP/Mg2+ binding site [chemical binding]; other site 935599002251 Switch I region; other site 935599002252 G2 box; other site 935599002253 Switch II region; other site 935599002254 G3 box; other site 935599002255 G4 box; other site 935599002256 G5 box; other site 935599002257 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 935599002258 G1 box; other site 935599002259 GTP/Mg2+ binding site [chemical binding]; other site 935599002260 Switch I region; other site 935599002261 G2 box; other site 935599002262 G3 box; other site 935599002263 Switch II region; other site 935599002264 G4 box; other site 935599002265 G5 box; other site 935599002266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 935599002267 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 935599002268 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 935599002269 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 935599002270 dimer interface [polypeptide binding]; other site 935599002271 motif 1; other site 935599002272 active site 935599002273 motif 2; other site 935599002274 motif 3; other site 935599002275 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 935599002276 anticodon binding site; other site 935599002277 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 935599002278 putative active site [active] 935599002279 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 935599002280 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935599002281 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 935599002282 probable active site [active] 935599002283 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 935599002284 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 935599002285 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 935599002286 S-adenosylmethionine binding site [chemical binding]; other site 935599002287 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 935599002288 oligomerization interface [polypeptide binding]; other site 935599002289 active site 935599002290 metal binding site [ion binding]; metal-binding site 935599002291 pantoate--beta-alanine ligase; Region: panC; TIGR00018 935599002292 Pantoate-beta-alanine ligase; Region: PanC; cd00560 935599002293 active site 935599002294 ATP-binding site [chemical binding]; other site 935599002295 pantoate-binding site; other site 935599002296 HXXH motif; other site 935599002297 TPR repeat; Region: TPR_11; pfam13414 935599002298 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 935599002299 binding surface 935599002300 TPR motif; other site 935599002301 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 935599002302 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 935599002303 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 935599002304 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 935599002305 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 935599002306 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 935599002307 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 935599002308 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935599002309 active site 935599002310 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 935599002311 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 935599002312 5S rRNA interface [nucleotide binding]; other site 935599002313 CTC domain interface [polypeptide binding]; other site 935599002314 L16 interface [polypeptide binding]; other site 935599002315 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 935599002316 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 935599002317 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 935599002318 threonine dehydratase; Reviewed; Region: PRK09224 935599002319 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 935599002320 tetramer interface [polypeptide binding]; other site 935599002321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599002322 catalytic residue [active] 935599002323 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 935599002324 putative Ile/Val binding site [chemical binding]; other site 935599002325 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 935599002326 putative Ile/Val binding site [chemical binding]; other site 935599002327 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 935599002328 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 935599002329 Walker A/P-loop; other site 935599002330 ATP binding site [chemical binding]; other site 935599002331 Q-loop/lid; other site 935599002332 ABC transporter signature motif; other site 935599002333 Walker B; other site 935599002334 D-loop; other site 935599002335 H-loop/switch region; other site 935599002336 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 935599002337 dimer interface [polypeptide binding]; other site 935599002338 conserved gate region; other site 935599002339 putative PBP binding loops; other site 935599002340 ABC-ATPase subunit interface; other site 935599002341 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 935599002342 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 935599002343 dimer interface [polypeptide binding]; other site 935599002344 conserved gate region; other site 935599002345 putative PBP binding loops; other site 935599002346 ABC-ATPase subunit interface; other site 935599002347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 935599002348 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 935599002349 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 935599002350 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 935599002351 replicative DNA helicase; Region: DnaB; TIGR00665 935599002352 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 935599002353 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 935599002354 Walker A motif; other site 935599002355 ATP binding site [chemical binding]; other site 935599002356 Walker B motif; other site 935599002357 DNA binding loops [nucleotide binding] 935599002358 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 935599002359 Type II transport protein GspH; Region: GspH; pfam12019 935599002360 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 935599002361 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 935599002362 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 935599002363 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 935599002364 PilX N-terminal; Region: PilX_N; pfam14341 935599002365 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 935599002366 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 935599002367 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 935599002368 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 935599002369 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 935599002370 trimer interface [polypeptide binding]; other site 935599002371 active site 935599002372 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 935599002373 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 935599002374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599002375 homodimer interface [polypeptide binding]; other site 935599002376 catalytic residue [active] 935599002377 hypothetical protein; Validated; Region: PRK02101 935599002378 integrase; Provisional; Region: PRK09692 935599002379 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 935599002380 active site 935599002381 Int/Topo IB signature motif; other site 935599002382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 935599002383 KilA-N domain; Region: KilA-N; pfam04383 935599002384 Predicted helicase [General function prediction only]; Region: COG4889 935599002385 Uncharacterized conserved protein [Function unknown]; Region: COG5532 935599002386 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 935599002387 non-specific DNA binding site [nucleotide binding]; other site 935599002388 Predicted transcriptional regulator [Transcription]; Region: COG2932 935599002389 salt bridge; other site 935599002390 sequence-specific DNA binding site [nucleotide binding]; other site 935599002391 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 935599002392 Catalytic site [active] 935599002393 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 935599002394 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 935599002395 active site 935599002396 metal binding site [ion binding]; metal-binding site 935599002397 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 935599002398 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 935599002399 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 935599002400 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 935599002401 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 935599002402 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 935599002403 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 935599002404 Phage capsid family; Region: Phage_capsid; pfam05065 935599002405 Phage tail protein; Region: Phage_tail_3; pfam08813 935599002406 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 935599002407 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 935599002408 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 935599002409 Phage-related minor tail protein [Function unknown]; Region: COG5281 935599002410 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 935599002411 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 935599002412 Phage minor tail protein; Region: Phage_min_tail; cl01940 935599002413 Phage minor tail protein L; Region: Phage_tail_L; pfam05100 935599002414 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 935599002415 MPN+ (JAMM) motif; other site 935599002416 Zinc-binding site [ion binding]; other site 935599002417 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935599002418 NlpC/P60 family; Region: NLPC_P60; pfam00877 935599002419 Phage-related protein, tail component [Function unknown]; Region: COG4723 935599002420 Phage-related protein, tail component [Function unknown]; Region: COG4733 935599002421 Putative phage tail protein; Region: Phage-tail_3; pfam13550 935599002422 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 935599002423 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 935599002424 Peptidase M15; Region: Peptidase_M15_3; cl01194 935599002425 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 935599002426 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 935599002427 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional; Region: PRK14844 935599002428 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 935599002429 Transposase domain (DUF772); Region: DUF772; pfam05598 935599002430 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599002431 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599002432 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 935599002433 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935599002434 HlyD family secretion protein; Region: HlyD_3; pfam13437 935599002435 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 935599002436 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 935599002437 putative active site [active] 935599002438 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935599002439 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935599002440 Walker A/P-loop; other site 935599002441 ATP binding site [chemical binding]; other site 935599002442 Q-loop/lid; other site 935599002443 ABC transporter signature motif; other site 935599002444 Walker B; other site 935599002445 D-loop; other site 935599002446 H-loop/switch region; other site 935599002447 Uncharacterized conserved protein [Function unknown]; Region: COG2850 935599002448 Cupin-like domain; Region: Cupin_8; pfam13621 935599002449 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599002450 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599002451 Transposase domain (DUF772); Region: DUF772; pfam05598 935599002452 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599002453 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599002454 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 935599002455 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 935599002456 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 935599002457 Cytochrome c556 [Energy production and conversion]; Region: COG3909 935599002458 malonic semialdehyde reductase; Provisional; Region: PRK10538 935599002459 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 935599002460 putative NAD(P) binding site [chemical binding]; other site 935599002461 homotetramer interface [polypeptide binding]; other site 935599002462 homodimer interface [polypeptide binding]; other site 935599002463 active site 935599002464 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 935599002465 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 935599002466 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935599002467 Helix-turn-helix domain; Region: HTH_38; pfam13936 935599002468 Homeodomain-like domain; Region: HTH_32; pfam13565 935599002469 Integrase core domain; Region: rve; pfam00665 935599002470 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 935599002471 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 935599002472 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 935599002473 dihydrodipicolinate synthase; Region: dapA; TIGR00674 935599002474 dimer interface [polypeptide binding]; other site 935599002475 active site 935599002476 catalytic residue [active] 935599002477 xanthine permease; Region: pbuX; TIGR03173 935599002478 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 935599002479 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 935599002480 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935599002481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 935599002482 TfoX N-terminal domain; Region: TfoX_N; cl17592 935599002483 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 935599002484 nucleoside/Zn binding site; other site 935599002485 dimer interface [polypeptide binding]; other site 935599002486 catalytic motif [active] 935599002487 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 935599002488 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 935599002489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 935599002490 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 935599002491 elongation factor P; Validated; Region: PRK00529 935599002492 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 935599002493 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 935599002494 RNA binding site [nucleotide binding]; other site 935599002495 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 935599002496 RNA binding site [nucleotide binding]; other site 935599002497 Methyltransferase domain; Region: Methyltransf_23; pfam13489 935599002498 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 935599002499 S-adenosylmethionine binding site [chemical binding]; other site 935599002500 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 935599002501 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 935599002502 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 935599002503 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 935599002504 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 935599002505 FAD binding site [chemical binding]; other site 935599002506 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 935599002507 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 935599002508 THF binding site; other site 935599002509 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 935599002510 substrate binding site [chemical binding]; other site 935599002511 THF binding site; other site 935599002512 zinc-binding site [ion binding]; other site 935599002513 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 935599002514 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 935599002515 catalytic triad [active] 935599002516 dimer interface [polypeptide binding]; other site 935599002517 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 935599002518 GSH binding site [chemical binding]; other site 935599002519 catalytic residues [active] 935599002520 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 935599002521 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935599002522 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 935599002523 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 935599002524 Iron-sulfur protein interface; other site 935599002525 proximal quinone binding site [chemical binding]; other site 935599002526 SdhD (CybS) interface [polypeptide binding]; other site 935599002527 proximal heme binding site [chemical binding]; other site 935599002528 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 935599002529 SdhC subunit interface [polypeptide binding]; other site 935599002530 proximal heme binding site [chemical binding]; other site 935599002531 cardiolipin binding site; other site 935599002532 Iron-sulfur protein interface; other site 935599002533 proximal quinone binding site [chemical binding]; other site 935599002534 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 935599002535 L-aspartate oxidase; Provisional; Region: PRK06175 935599002536 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 935599002537 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 935599002538 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 935599002539 Uncharacterized conserved protein [Function unknown]; Region: COG2938 935599002540 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 935599002541 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 935599002542 dimer interface [polypeptide binding]; other site 935599002543 active site 935599002544 citrylCoA binding site [chemical binding]; other site 935599002545 NADH binding [chemical binding]; other site 935599002546 cationic pore residues; other site 935599002547 oxalacetate/citrate binding site [chemical binding]; other site 935599002548 coenzyme A binding site [chemical binding]; other site 935599002549 catalytic triad [active] 935599002550 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 935599002551 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 935599002552 TPP-binding site [chemical binding]; other site 935599002553 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 935599002554 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 935599002555 E3 interaction surface; other site 935599002556 lipoyl attachment site [posttranslational modification]; other site 935599002557 e3 binding domain; Region: E3_binding; pfam02817 935599002558 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 935599002559 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 935599002560 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 935599002561 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 935599002562 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935599002563 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 935599002564 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 935599002565 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 935599002566 CoA-ligase; Region: Ligase_CoA; pfam00549 935599002567 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 935599002568 CoA binding domain; Region: CoA_binding; smart00881 935599002569 CoA-ligase; Region: Ligase_CoA; pfam00549 935599002570 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 935599002571 Predicted transcriptional regulator [Transcription]; Region: COG2378 935599002572 WYL domain; Region: WYL; pfam13280 935599002573 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 935599002574 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 935599002575 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 935599002576 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 935599002577 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 935599002578 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 935599002579 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 935599002580 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 935599002581 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 935599002582 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 935599002583 glutamine binding [chemical binding]; other site 935599002584 catalytic triad [active] 935599002585 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 935599002586 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 935599002587 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 935599002588 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935599002589 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 935599002590 Replication initiation factor; Region: Rep_trans; pfam02486 935599002591 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 935599002592 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 935599002593 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 935599002594 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 935599002595 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 935599002596 Predicted membrane protein [Function unknown]; Region: COG3686 935599002597 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 935599002598 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 935599002599 ligand binding site [chemical binding]; other site 935599002600 homodimer interface [polypeptide binding]; other site 935599002601 NAD(P) binding site [chemical binding]; other site 935599002602 trimer interface B [polypeptide binding]; other site 935599002603 trimer interface A [polypeptide binding]; other site 935599002604 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 935599002605 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 935599002606 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 935599002607 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 935599002608 motif II; other site 935599002609 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 935599002610 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 935599002611 putative ion selectivity filter; other site 935599002612 putative pore gating glutamate residue; other site 935599002613 potential frameshift: common BLAST hit: gi|121634784|ref|YP_975029.1| transposase 935599002614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 935599002615 Transposase; Region: DEDD_Tnp_IS110; pfam01548 935599002616 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 935599002617 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 935599002618 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 935599002619 Mor transcription activator family; Region: Mor; cl02360 935599002620 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 935599002621 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 935599002622 active site 935599002623 metal binding site [ion binding]; metal-binding site 935599002624 Uncharacterized conserved protein [Function unknown]; Region: COG3422 935599002625 Transposase domain (DUF772); Region: DUF772; pfam05598 935599002626 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599002627 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599002628 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 935599002629 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 935599002630 YadA-like C-terminal region; Region: YadA; pfam03895 935599002631 Rubredoxin [Energy production and conversion]; Region: COG1773 935599002632 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 935599002633 iron binding site [ion binding]; other site 935599002634 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 935599002635 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 935599002636 active site 935599002637 Uncharacterized conserved protein [Function unknown]; Region: COG2128 935599002638 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 935599002639 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 935599002640 D-lactate dehydrogenase; Provisional; Region: PRK11183 935599002641 FAD binding domain; Region: FAD_binding_4; pfam01565 935599002642 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 935599002643 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 935599002644 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 935599002645 FAD binding domain; Region: FAD_binding_4; pfam01565 935599002646 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 935599002647 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 935599002648 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 935599002649 Cysteine-rich domain; Region: CCG; pfam02754 935599002650 Cysteine-rich domain; Region: CCG; pfam02754 935599002651 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 935599002652 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 935599002653 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 935599002654 FMN binding site [chemical binding]; other site 935599002655 active site 935599002656 catalytic residues [active] 935599002657 substrate binding site [chemical binding]; other site 935599002658 Transposase domain (DUF772); Region: DUF772; pfam05598 935599002659 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599002660 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599002661 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 935599002662 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935599002663 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 935599002664 non-specific DNA binding site [nucleotide binding]; other site 935599002665 salt bridge; other site 935599002666 sequence-specific DNA binding site [nucleotide binding]; other site 935599002667 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935599002668 Helix-turn-helix domain; Region: HTH_38; pfam13936 935599002669 Homeodomain-like domain; Region: HTH_32; pfam13565 935599002670 Integrase core domain; Region: rve; pfam00665 935599002671 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 935599002672 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 935599002673 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 935599002674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 935599002675 HTH-like domain; Region: HTH_21; pfam13276 935599002676 Integrase core domain; Region: rve; pfam00665 935599002677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 935599002678 Smr domain; Region: Smr; pfam01713 935599002679 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599002680 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599002681 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935599002682 Helix-turn-helix domain; Region: HTH_38; pfam13936 935599002683 Homeodomain-like domain; Region: HTH_32; pfam13565 935599002684 Integrase core domain; Region: rve; pfam00665 935599002685 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 935599002686 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 935599002687 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935599002688 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935599002689 Coenzyme A binding pocket [chemical binding]; other site 935599002690 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 935599002691 ATP-grasp domain; Region: ATP-grasp; pfam02222 935599002692 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 935599002693 anthranilate synthase component I; Provisional; Region: PRK13565 935599002694 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 935599002695 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 935599002696 ABC transporter ATPase component; Reviewed; Region: PRK11147 935599002697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935599002698 Walker A/P-loop; other site 935599002699 ATP binding site [chemical binding]; other site 935599002700 Q-loop/lid; other site 935599002701 ABC transporter signature motif; other site 935599002702 Walker B; other site 935599002703 D-loop; other site 935599002704 H-loop/switch region; other site 935599002705 ABC transporter; Region: ABC_tran_2; pfam12848 935599002706 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935599002707 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 935599002708 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935599002709 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 935599002710 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 935599002711 dimer interface [polypeptide binding]; other site 935599002712 active site 935599002713 glycine-pyridoxal phosphate binding site [chemical binding]; other site 935599002714 folate binding site [chemical binding]; other site 935599002715 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 935599002716 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 935599002717 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599002718 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599002719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 935599002720 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 935599002721 AMP binding site [chemical binding]; other site 935599002722 metal binding site [ion binding]; metal-binding site 935599002723 active site 935599002724 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 935599002725 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 935599002726 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 935599002727 active site 935599002728 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 935599002729 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 935599002730 dimer interface [polypeptide binding]; other site 935599002731 ADP-ribose binding site [chemical binding]; other site 935599002732 active site 935599002733 nudix motif; other site 935599002734 metal binding site [ion binding]; metal-binding site 935599002735 CrcB-like protein; Region: CRCB; cl09114 935599002736 Predicted membrane protein [Function unknown]; Region: COG3235 935599002737 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 935599002738 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 935599002739 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 935599002740 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 935599002741 putative catalytic cysteine [active] 935599002742 glutamate 5-kinase; Region: proB; TIGR01027 935599002743 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 935599002744 nucleotide binding site [chemical binding]; other site 935599002745 homotetrameric interface [polypeptide binding]; other site 935599002746 putative phosphate binding site [ion binding]; other site 935599002747 putative allosteric binding site; other site 935599002748 PUA domain; Region: PUA; pfam01472 935599002749 2-isopropylmalate synthase; Validated; Region: PRK00915 935599002750 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 935599002751 active site 935599002752 catalytic residues [active] 935599002753 metal binding site [ion binding]; metal-binding site 935599002754 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 935599002755 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 935599002756 yecA family protein; Region: ygfB_yecA; TIGR02292 935599002757 SEC-C motif; Region: SEC-C; pfam02810 935599002758 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 935599002759 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 935599002760 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 935599002761 putative active site [active] 935599002762 Zn binding site [ion binding]; other site 935599002763 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 935599002764 feedback inhibition sensing region; other site 935599002765 homohexameric interface [polypeptide binding]; other site 935599002766 nucleotide binding site [chemical binding]; other site 935599002767 N-acetyl-L-glutamate binding site [chemical binding]; other site 935599002768 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 935599002769 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 935599002770 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 935599002771 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 935599002772 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 935599002773 ABC transporter; Region: ABC_tran; pfam00005 935599002774 Predicted transcriptional regulator [Transcription]; Region: COG2932 935599002775 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 935599002776 Catalytic site [active] 935599002777 ORF6C domain; Region: ORF6C; pfam10552 935599002778 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 935599002779 Integrase core domain; Region: rve; pfam00665 935599002780 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 935599002781 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 935599002782 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 935599002783 non-specific DNA binding site [nucleotide binding]; other site 935599002784 salt bridge; other site 935599002785 sequence-specific DNA binding site [nucleotide binding]; other site 935599002786 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 935599002787 DNA polymerase IV; Provisional; Region: PRK02794 935599002788 Eukaryotic Mediator 12 subunit domain; Region: Med12-LCEWAV; pfam12145 935599002789 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 935599002790 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935599002791 Helix-turn-helix domain; Region: HTH_38; pfam13936 935599002792 Homeodomain-like domain; Region: HTH_32; pfam13565 935599002793 Integrase core domain; Region: rve; pfam00665 935599002794 Baseplate J-like protein; Region: Baseplate_J; cl01294 935599002795 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 935599002796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 935599002797 Phage Tail Collar Domain; Region: Collar; pfam07484 935599002798 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 935599002799 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 935599002800 non-specific DNA binding site [nucleotide binding]; other site 935599002801 salt bridge; other site 935599002802 sequence-specific DNA binding site [nucleotide binding]; other site 935599002803 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 935599002804 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 935599002805 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 935599002806 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 935599002807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 935599002808 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 935599002809 short chain dehydrogenase; Provisional; Region: PRK08703 935599002810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935599002811 NAD(P) binding site [chemical binding]; other site 935599002812 active site 935599002813 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 935599002814 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 935599002815 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 935599002816 active site lid residues [active] 935599002817 substrate binding pocket [chemical binding]; other site 935599002818 catalytic residues [active] 935599002819 substrate-Mg2+ binding site; other site 935599002820 aspartate-rich region 1; other site 935599002821 aspartate-rich region 2; other site 935599002822 chaperone protein HscA; Provisional; Region: hscA; PRK05183 935599002823 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 935599002824 nucleotide binding site [chemical binding]; other site 935599002825 putative NEF/HSP70 interaction site [polypeptide binding]; other site 935599002826 SBD interface [polypeptide binding]; other site 935599002827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 935599002828 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 935599002829 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 935599002830 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 935599002831 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 935599002832 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 935599002833 catalytic loop [active] 935599002834 iron binding site [ion binding]; other site 935599002835 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 935599002836 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 935599002837 RNA binding surface [nucleotide binding]; other site 935599002838 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 935599002839 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 935599002840 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 935599002841 Ligand Binding Site [chemical binding]; other site 935599002842 TilS substrate binding domain; Region: TilS; pfam09179 935599002843 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 935599002844 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 935599002845 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935599002846 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 935599002847 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935599002848 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935599002849 biotin synthase; Region: bioB; TIGR00433 935599002850 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 935599002851 FeS/SAM binding site; other site 935599002852 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 935599002853 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 935599002854 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 935599002855 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 935599002856 sulfite reductase subunit beta; Provisional; Region: PRK13504 935599002857 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935599002858 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935599002859 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 935599002860 Flavodoxin; Region: Flavodoxin_1; pfam00258 935599002861 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 935599002862 FAD binding pocket [chemical binding]; other site 935599002863 FAD binding motif [chemical binding]; other site 935599002864 catalytic residues [active] 935599002865 NAD binding pocket [chemical binding]; other site 935599002866 phosphate binding motif [ion binding]; other site 935599002867 beta-alpha-beta structure motif; other site 935599002868 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 935599002869 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 935599002870 CysD dimerization site [polypeptide binding]; other site 935599002871 G1 box; other site 935599002872 putative GEF interaction site [polypeptide binding]; other site 935599002873 GTP/Mg2+ binding site [chemical binding]; other site 935599002874 Switch I region; other site 935599002875 G2 box; other site 935599002876 G3 box; other site 935599002877 Switch II region; other site 935599002878 G4 box; other site 935599002879 G5 box; other site 935599002880 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 935599002881 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 935599002882 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 935599002883 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 935599002884 Active Sites [active] 935599002885 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 935599002886 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 935599002887 Active Sites [active] 935599002888 siroheme synthase; Provisional; Region: cysG; PRK10637 935599002889 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 935599002890 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 935599002891 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 935599002892 active site 935599002893 SAM binding site [chemical binding]; other site 935599002894 homodimer interface [polypeptide binding]; other site 935599002895 Cytochrome b [Energy production and conversion]; Region: COG3658 935599002896 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 935599002897 putative substrate binding site [chemical binding]; other site 935599002898 putative ATP binding site [chemical binding]; other site 935599002899 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 935599002900 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 935599002901 G1 box; other site 935599002902 putative GEF interaction site [polypeptide binding]; other site 935599002903 GTP/Mg2+ binding site [chemical binding]; other site 935599002904 Switch I region; other site 935599002905 G2 box; other site 935599002906 G3 box; other site 935599002907 Switch II region; other site 935599002908 G4 box; other site 935599002909 G5 box; other site 935599002910 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 935599002911 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 935599002912 ribonuclease R; Region: RNase_R; TIGR02063 935599002913 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 935599002914 RNB domain; Region: RNB; pfam00773 935599002915 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 935599002916 RNA binding site [nucleotide binding]; other site 935599002917 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 935599002918 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 935599002919 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 935599002920 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 935599002921 active site 935599002922 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 935599002923 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935599002924 metal binding triad; other site 935599002925 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 935599002926 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935599002927 Zn2+ binding site [ion binding]; other site 935599002928 Mg2+ binding site [ion binding]; other site 935599002929 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 935599002930 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 935599002931 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935599002932 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 935599002933 non-specific DNA binding site [nucleotide binding]; other site 935599002934 salt bridge; other site 935599002935 sequence-specific DNA binding site [nucleotide binding]; other site 935599002936 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 935599002937 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 935599002938 heme binding site [chemical binding]; other site 935599002939 ferroxidase pore; other site 935599002940 ferroxidase diiron center [ion binding]; other site 935599002941 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 935599002942 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 935599002943 heme binding site [chemical binding]; other site 935599002944 ferroxidase pore; other site 935599002945 ferroxidase diiron center [ion binding]; other site 935599002946 lipoyl synthase; Provisional; Region: PRK05481 935599002947 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 935599002948 FeS/SAM binding site; other site 935599002949 lipoate-protein ligase B; Provisional; Region: PRK14342 935599002950 Uncharacterized conserved protein [Function unknown]; Region: COG2921 935599002951 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 935599002952 Domain of unknown function DUF20; Region: UPF0118; pfam01594 935599002953 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 935599002954 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 935599002955 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 935599002956 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 935599002957 ligand binding site [chemical binding]; other site 935599002958 active site 935599002959 UGI interface [polypeptide binding]; other site 935599002960 catalytic site [active] 935599002961 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 935599002962 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935599002963 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 935599002964 putative Zn2+ binding site [ion binding]; other site 935599002965 putative DNA binding site [nucleotide binding]; other site 935599002966 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 935599002967 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 935599002968 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935599002969 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935599002970 ABC transporter; Region: ABC_tran_2; pfam12848 935599002971 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935599002972 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 935599002973 homoserine dehydrogenase; Provisional; Region: PRK06349 935599002974 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 935599002975 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 935599002976 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 935599002977 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 935599002978 IHF dimer interface [polypeptide binding]; other site 935599002979 IHF - DNA interface [nucleotide binding]; other site 935599002980 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 935599002981 Found in ATP-dependent protease La (LON); Region: LON; smart00464 935599002982 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 935599002983 Walker A motif; other site 935599002984 ATP binding site [chemical binding]; other site 935599002985 Walker B motif; other site 935599002986 arginine finger; other site 935599002987 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 935599002988 Methyltransferase domain; Region: Methyltransf_23; pfam13489 935599002989 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 935599002990 S-adenosylmethionine binding site [chemical binding]; other site 935599002991 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 935599002992 AAA domain; Region: AAA_30; pfam13604 935599002993 Family description; Region: UvrD_C_2; pfam13538 935599002994 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 935599002995 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935599002996 Walker A/P-loop; other site 935599002997 ATP binding site [chemical binding]; other site 935599002998 Q-loop/lid; other site 935599002999 ABC transporter signature motif; other site 935599003000 Walker B; other site 935599003001 D-loop; other site 935599003002 H-loop/switch region; other site 935599003003 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 935599003004 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935599003005 FtsX-like permease family; Region: FtsX; pfam02687 935599003006 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 935599003007 RecR protein; Region: RecR; pfam02132 935599003008 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 935599003009 putative active site [active] 935599003010 putative metal-binding site [ion binding]; other site 935599003011 tetramer interface [polypeptide binding]; other site 935599003012 SurA N-terminal domain; Region: SurA_N_3; cl07813 935599003013 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 935599003014 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 935599003015 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 935599003016 ArsC family; Region: ArsC; pfam03960 935599003017 putative catalytic residues [active] 935599003018 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 935599003019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935599003020 Walker A/P-loop; other site 935599003021 ATP binding site [chemical binding]; other site 935599003022 ABC transporter signature motif; other site 935599003023 Walker B; other site 935599003024 D-loop; other site 935599003025 H-loop/switch region; other site 935599003026 ABC transporter; Region: ABC_tran_2; pfam12848 935599003027 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935599003028 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 935599003029 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 935599003030 active site 935599003031 NTP binding site [chemical binding]; other site 935599003032 metal binding triad [ion binding]; metal-binding site 935599003033 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 935599003034 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935599003035 Zn2+ binding site [ion binding]; other site 935599003036 Mg2+ binding site [ion binding]; other site 935599003037 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 935599003038 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 935599003039 Walker A motif; other site 935599003040 ATP binding site [chemical binding]; other site 935599003041 Walker B motif; other site 935599003042 arginine finger; other site 935599003043 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 935599003044 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 935599003045 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 935599003046 substrate binding site [chemical binding]; other site 935599003047 hexamer interface [polypeptide binding]; other site 935599003048 metal binding site [ion binding]; metal-binding site 935599003049 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 935599003050 dimer interface [polypeptide binding]; other site 935599003051 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 935599003052 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 935599003053 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 935599003054 Walker A motif; other site 935599003055 ATP binding site [chemical binding]; other site 935599003056 Walker B motif; other site 935599003057 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 935599003058 Lumazine binding domain; Region: Lum_binding; pfam00677 935599003059 Lumazine binding domain; Region: Lum_binding; pfam00677 935599003060 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 935599003061 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 935599003062 GTP binding site; other site 935599003063 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 935599003064 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 935599003065 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 935599003066 dimerization interface [polypeptide binding]; other site 935599003067 GAF domain; Region: GAF_3; pfam13492 935599003068 Histidine kinase; Region: HisKA_3; pfam07730 935599003069 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 935599003070 ATP binding site [chemical binding]; other site 935599003071 Mg2+ binding site [ion binding]; other site 935599003072 G-X-G motif; other site 935599003073 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935599003074 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 935599003075 active site 935599003076 phosphorylation site [posttranslational modification] 935599003077 intermolecular recognition site; other site 935599003078 dimerization interface [polypeptide binding]; other site 935599003079 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 935599003080 DNA binding residues [nucleotide binding] 935599003081 dimerization interface [polypeptide binding]; other site 935599003082 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 935599003083 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 935599003084 dimerization interface [polypeptide binding]; other site 935599003085 putative ATP binding site [chemical binding]; other site 935599003086 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 935599003087 dimerization interface [polypeptide binding]; other site 935599003088 active site 935599003089 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 935599003090 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 935599003091 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 935599003092 dimerization interface [polypeptide binding]; other site 935599003093 recombination factor protein RarA; Reviewed; Region: PRK13342 935599003094 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 935599003095 Walker A motif; other site 935599003096 ATP binding site [chemical binding]; other site 935599003097 Walker B motif; other site 935599003098 arginine finger; other site 935599003099 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 935599003100 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599003101 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599003102 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935599003103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935599003104 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 935599003105 dimerization interface [polypeptide binding]; other site 935599003106 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 935599003107 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 935599003108 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 935599003109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599003110 catalytic residue [active] 935599003111 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 935599003112 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 935599003113 FAD binding pocket [chemical binding]; other site 935599003114 FAD binding motif [chemical binding]; other site 935599003115 phosphate binding motif [ion binding]; other site 935599003116 beta-alpha-beta structure motif; other site 935599003117 NAD binding pocket [chemical binding]; other site 935599003118 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 935599003119 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 935599003120 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 935599003121 metal-binding site [ion binding] 935599003122 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935599003123 Soluble P-type ATPase [General function prediction only]; Region: COG4087 935599003124 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 935599003125 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 935599003126 HflX GTPase family; Region: HflX; cd01878 935599003127 G1 box; other site 935599003128 GTP/Mg2+ binding site [chemical binding]; other site 935599003129 Switch I region; other site 935599003130 G2 box; other site 935599003131 G3 box; other site 935599003132 Switch II region; other site 935599003133 G4 box; other site 935599003134 G5 box; other site 935599003135 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 935599003136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 935599003137 hypothetical protein; Reviewed; Region: PRK00024 935599003138 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 935599003139 MPN+ (JAMM) motif; other site 935599003140 Zinc-binding site [ion binding]; other site 935599003141 Glutamate-cysteine ligase; Region: GshA; pfam08886 935599003142 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 935599003143 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 935599003144 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 935599003145 substrate binding site [chemical binding]; other site 935599003146 ligand binding site [chemical binding]; other site 935599003147 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 935599003148 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 935599003149 substrate binding site [chemical binding]; other site 935599003150 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 935599003151 tartrate dehydrogenase; Region: TTC; TIGR02089 935599003152 Uncharacterized conserved protein [Function unknown]; Region: COG2353 935599003153 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 935599003154 Aspartase; Region: Aspartase; cd01357 935599003155 active sites [active] 935599003156 tetramer interface [polypeptide binding]; other site 935599003157 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 935599003158 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 935599003159 HSP70 interaction site [polypeptide binding]; other site 935599003160 Predicted membrane protein [Function unknown]; Region: COG3671 935599003161 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 935599003162 putative deacylase active site [active] 935599003163 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 935599003164 homotrimer interaction site [polypeptide binding]; other site 935599003165 putative active site [active] 935599003166 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 935599003167 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 935599003168 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 935599003169 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 935599003170 Ligand Binding Site [chemical binding]; other site 935599003171 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 935599003172 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599003173 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599003174 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 935599003175 substrate binding site [chemical binding]; other site 935599003176 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 935599003177 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 935599003178 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 935599003179 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 935599003180 metal binding site 2 [ion binding]; metal-binding site 935599003181 putative DNA binding helix; other site 935599003182 metal binding site 1 [ion binding]; metal-binding site 935599003183 dimer interface [polypeptide binding]; other site 935599003184 structural Zn2+ binding site [ion binding]; other site 935599003185 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 935599003186 Low molecular weight phosphatase family; Region: LMWPc; cd00115 935599003187 active site 935599003188 glycerate kinase; Region: TIGR00045 935599003189 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 935599003190 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 935599003191 S-adenosylmethionine binding site [chemical binding]; other site 935599003192 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 935599003193 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 935599003194 metal-binding site [ion binding] 935599003195 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 935599003196 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 935599003197 active site 935599003198 catalytic triad [active] 935599003199 oxyanion hole [active] 935599003200 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 935599003201 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 935599003202 active site 935599003203 oxyanion hole [active] 935599003204 catalytic triad [active] 935599003205 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 935599003206 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 935599003207 acyl-activating enzyme (AAE) consensus motif; other site 935599003208 putative AMP binding site [chemical binding]; other site 935599003209 putative active site [active] 935599003210 putative CoA binding site [chemical binding]; other site 935599003211 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 935599003212 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 935599003213 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 935599003214 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 935599003215 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935599003216 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 935599003217 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 935599003218 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 935599003219 active site 935599003220 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 935599003221 DEAD-like helicases superfamily; Region: DEXDc; smart00487 935599003222 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 935599003223 ATP binding site [chemical binding]; other site 935599003224 putative Mg++ binding site [ion binding]; other site 935599003225 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 935599003226 nucleotide binding region [chemical binding]; other site 935599003227 ATP-binding site [chemical binding]; other site 935599003228 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 935599003229 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 935599003230 tetramerization interface [polypeptide binding]; other site 935599003231 active site 935599003232 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 935599003233 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 935599003234 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 935599003235 enolase; Provisional; Region: eno; PRK00077 935599003236 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 935599003237 dimer interface [polypeptide binding]; other site 935599003238 metal binding site [ion binding]; metal-binding site 935599003239 substrate binding pocket [chemical binding]; other site 935599003240 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 935599003241 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 935599003242 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 935599003243 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 935599003244 catalytic loop [active] 935599003245 iron binding site [ion binding]; other site 935599003246 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 935599003247 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 935599003248 dimer interface [polypeptide binding]; other site 935599003249 putative radical transfer pathway; other site 935599003250 diiron center [ion binding]; other site 935599003251 tyrosyl radical; other site 935599003252 Abi-like protein; Region: Abi_2; cl01988 935599003253 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 935599003254 ATP cone domain; Region: ATP-cone; pfam03477 935599003255 Class I ribonucleotide reductase; Region: RNR_I; cd01679 935599003256 active site 935599003257 dimer interface [polypeptide binding]; other site 935599003258 catalytic residues [active] 935599003259 effector binding site; other site 935599003260 R2 peptide binding site; other site 935599003261 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 935599003262 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 935599003263 putative acyl-acceptor binding pocket; other site 935599003264 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 935599003265 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 935599003266 DNA binding site [nucleotide binding] 935599003267 catalytic residue [active] 935599003268 H2TH interface [polypeptide binding]; other site 935599003269 putative catalytic residues [active] 935599003270 turnover-facilitating residue; other site 935599003271 intercalation triad [nucleotide binding]; other site 935599003272 8OG recognition residue [nucleotide binding]; other site 935599003273 putative reading head residues; other site 935599003274 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 935599003275 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 935599003276 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 935599003277 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 935599003278 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935599003279 catalytic residue [active] 935599003280 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935599003281 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 935599003282 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935599003283 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 935599003284 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 935599003285 RNA binding surface [nucleotide binding]; other site 935599003286 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 935599003287 active site 935599003288 uracil binding [chemical binding]; other site 935599003289 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 935599003290 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 935599003291 CMP-binding site; other site 935599003292 The sites determining sugar specificity; other site 935599003293 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 935599003294 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 935599003295 RNA binding site [nucleotide binding]; other site 935599003296 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 935599003297 RNA binding site [nucleotide binding]; other site 935599003298 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 935599003299 RNA binding site [nucleotide binding]; other site 935599003300 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 935599003301 RNA binding site [nucleotide binding]; other site 935599003302 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 935599003303 RNA binding site [nucleotide binding]; other site 935599003304 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 935599003305 RNA binding site [nucleotide binding]; other site 935599003306 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 935599003307 IHF dimer interface [polypeptide binding]; other site 935599003308 IHF - DNA interface [nucleotide binding]; other site 935599003309 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 935599003310 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 935599003311 DNA binding residues [nucleotide binding] 935599003312 putative dimer interface [polypeptide binding]; other site 935599003313 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 935599003314 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 935599003315 substrate binding site [chemical binding]; other site 935599003316 catalytic Zn binding site [ion binding]; other site 935599003317 NAD binding site [chemical binding]; other site 935599003318 structural Zn binding site [ion binding]; other site 935599003319 dimer interface [polypeptide binding]; other site 935599003320 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 935599003321 S-formylglutathione hydrolase; Region: PLN02442 935599003322 Predicted ATPase [General function prediction only]; Region: COG1485 935599003323 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 935599003324 active site 935599003325 multimer interface [polypeptide binding]; other site 935599003326 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 935599003327 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 935599003328 FeS/SAM binding site; other site 935599003329 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 935599003330 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 935599003331 binding surface 935599003332 TPR motif; other site 935599003333 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 935599003334 TPR motif; other site 935599003335 binding surface 935599003336 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 935599003337 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 935599003338 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 935599003339 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 935599003340 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 935599003341 oligomer interface [polypeptide binding]; other site 935599003342 active site residues [active] 935599003343 trigger factor; Provisional; Region: tig; PRK01490 935599003344 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935599003345 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 935599003346 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 935599003347 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 935599003348 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 935599003349 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 935599003350 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 935599003351 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 935599003352 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 935599003353 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 935599003354 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 935599003355 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 935599003356 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 935599003357 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 935599003358 Primosomal replication protein N [DNA replication, recombination, and repair]; Region: PriB; COG2965 935599003359 generic binding surface I; other site 935599003360 generic binding surface II; other site 935599003361 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 935599003362 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 935599003363 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935599003364 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935599003365 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 935599003366 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 935599003367 metal-binding site [ion binding] 935599003368 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935599003369 Soluble P-type ATPase [General function prediction only]; Region: COG4087 935599003370 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 935599003371 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 935599003372 GIY-YIG motif/motif A; other site 935599003373 active site 935599003374 catalytic site [active] 935599003375 putative DNA binding site [nucleotide binding]; other site 935599003376 metal binding site [ion binding]; metal-binding site 935599003377 UvrB/uvrC motif; Region: UVR; pfam02151 935599003378 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 935599003379 Helix-hairpin-helix motif; Region: HHH; pfam00633 935599003380 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 935599003381 S-adenosylmethionine binding site [chemical binding]; other site 935599003382 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 935599003383 excinuclease ABC subunit B; Provisional; Region: PRK05298 935599003384 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 935599003385 ATP-binding site [chemical binding]; other site 935599003386 ATP binding site [chemical binding]; other site 935599003387 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 935599003388 nucleotide binding region [chemical binding]; other site 935599003389 ATP-binding site [chemical binding]; other site 935599003390 Ultra-violet resistance protein B; Region: UvrB; pfam12344 935599003391 UvrB/uvrC motif; Region: UVR; pfam02151 935599003392 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 935599003393 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 935599003394 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 935599003395 protein binding site [polypeptide binding]; other site 935599003396 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 935599003397 Catalytic dyad [active] 935599003398 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 935599003399 Peptidase family M23; Region: Peptidase_M23; pfam01551 935599003400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 935599003401 CreA protein; Region: CreA; pfam05981 935599003402 Putative transcriptional regulator [Transcription]; Region: COG1678 935599003403 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 935599003404 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 935599003405 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 935599003406 prolyl-tRNA synthetase; Provisional; Region: PRK09194 935599003407 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 935599003408 dimer interface [polypeptide binding]; other site 935599003409 motif 1; other site 935599003410 active site 935599003411 motif 2; other site 935599003412 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 935599003413 putative deacylase active site [active] 935599003414 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 935599003415 active site 935599003416 motif 3; other site 935599003417 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 935599003418 anticodon binding site; other site 935599003419 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 935599003420 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 935599003421 dimer interface [polypeptide binding]; other site 935599003422 TPP-binding site [chemical binding]; other site 935599003423 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 935599003424 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 935599003425 E3 interaction surface; other site 935599003426 lipoyl attachment site [posttranslational modification]; other site 935599003427 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 935599003428 E3 interaction surface; other site 935599003429 lipoyl attachment site [posttranslational modification]; other site 935599003430 e3 binding domain; Region: E3_binding; pfam02817 935599003431 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 935599003432 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 935599003433 E3 interaction surface; other site 935599003434 lipoyl attachment site [posttranslational modification]; other site 935599003435 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 935599003436 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 935599003437 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935599003438 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 935599003439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 935599003440 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 935599003441 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 935599003442 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 935599003443 N-terminal plug; other site 935599003444 ligand-binding site [chemical binding]; other site 935599003445 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 935599003446 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 935599003447 active site 935599003448 dimerization interface [polypeptide binding]; other site 935599003449 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 935599003450 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 935599003451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 935599003452 16S rRNA methyltransferase B; Provisional; Region: PRK10901 935599003453 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 935599003454 S-adenosylmethionine binding site [chemical binding]; other site 935599003455 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 935599003456 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 935599003457 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 935599003458 NAD(P) binding site [chemical binding]; other site 935599003459 catalytic residues [active] 935599003460 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 935599003461 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 935599003462 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 935599003463 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 935599003464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 935599003465 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 935599003466 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 935599003467 GatB domain; Region: GatB_Yqey; smart00845 935599003468 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 935599003469 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 935599003470 catalytic loop [active] 935599003471 iron binding site [ion binding]; other site 935599003472 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 935599003473 FAD binding pocket [chemical binding]; other site 935599003474 FAD binding motif [chemical binding]; other site 935599003475 phosphate binding motif [ion binding]; other site 935599003476 beta-alpha-beta structure motif; other site 935599003477 NAD binding pocket [chemical binding]; other site 935599003478 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 935599003479 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 935599003480 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 935599003481 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 935599003482 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 935599003483 RNA binding surface [nucleotide binding]; other site 935599003484 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 935599003485 probable active site [active] 935599003486 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 935599003487 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 935599003488 putative substrate translocation pore; other site 935599003489 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 935599003490 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 935599003491 generic binding surface II; other site 935599003492 generic binding surface I; other site 935599003493 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 935599003494 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 935599003495 homodimer interface [polypeptide binding]; other site 935599003496 NAD binding pocket [chemical binding]; other site 935599003497 ATP binding pocket [chemical binding]; other site 935599003498 Mg binding site [ion binding]; other site 935599003499 active-site loop [active] 935599003500 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 935599003501 Hemerythrin-like domain; Region: Hr-like; cd12108 935599003502 Fe binding site [ion binding]; other site 935599003503 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 935599003504 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935599003505 catalytic residues [active] 935599003506 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 935599003507 S-adenosylmethionine binding site [chemical binding]; other site 935599003508 helicase 45; Provisional; Region: PTZ00424 935599003509 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 935599003510 ATP binding site [chemical binding]; other site 935599003511 Mg++ binding site [ion binding]; other site 935599003512 motif III; other site 935599003513 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 935599003514 nucleotide binding region [chemical binding]; other site 935599003515 ATP-binding site [chemical binding]; other site 935599003516 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 935599003517 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 935599003518 inhibitor-cofactor binding pocket; inhibition site 935599003519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599003520 catalytic residue [active] 935599003521 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 935599003522 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 935599003523 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 935599003524 Walker A motif; other site 935599003525 ATP binding site [chemical binding]; other site 935599003526 Walker B motif; other site 935599003527 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 935599003528 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 935599003529 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 935599003530 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 935599003531 RNA binding site [nucleotide binding]; other site 935599003532 active site 935599003533 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 935599003534 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 935599003535 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 935599003536 DNA methylase; Region: N6_N4_Mtase; pfam01555 935599003537 DNA methylase; Region: N6_N4_Mtase; pfam01555 935599003538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 935599003539 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 935599003540 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 935599003541 phosphate binding site [ion binding]; other site 935599003542 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 935599003543 Rrf2 family protein; Region: rrf2_super; TIGR00738 935599003544 cysteine desulfurase; Provisional; Region: PRK14012 935599003545 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 935599003546 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935599003547 catalytic residue [active] 935599003548 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 935599003549 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 935599003550 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 935599003551 trimerization site [polypeptide binding]; other site 935599003552 active site 935599003553 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 935599003554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 935599003555 co-chaperone HscB; Provisional; Region: hscB; PRK03578 935599003556 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 935599003557 HSP70 interaction site [polypeptide binding]; other site 935599003558 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 935599003559 DNA gyrase subunit A; Validated; Region: PRK05560 935599003560 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 935599003561 CAP-like domain; other site 935599003562 active site 935599003563 primary dimer interface [polypeptide binding]; other site 935599003564 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935599003565 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935599003566 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935599003567 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935599003568 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935599003569 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 935599003570 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 935599003571 active site 935599003572 dimer interface [polypeptide binding]; other site 935599003573 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 935599003574 dimer interface [polypeptide binding]; other site 935599003575 active site 935599003576 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 935599003577 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935599003578 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 935599003579 putative active site [active] 935599003580 glucokinase; Provisional; Region: glk; PRK00292 935599003581 glucokinase, proteobacterial type; Region: glk; TIGR00749 935599003582 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 935599003583 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 935599003584 putative active site [active] 935599003585 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 935599003586 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 935599003587 phosphogluconate dehydratase; Validated; Region: PRK09054 935599003588 6-phosphogluconate dehydratase; Region: edd; TIGR01196 935599003589 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 935599003590 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 935599003591 active site 935599003592 intersubunit interface [polypeptide binding]; other site 935599003593 catalytic residue [active] 935599003594 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 935599003595 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 935599003596 minor groove reading motif; other site 935599003597 helix-hairpin-helix signature motif; other site 935599003598 substrate binding pocket [chemical binding]; other site 935599003599 active site 935599003600 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 935599003601 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 935599003602 DNA binding and oxoG recognition site [nucleotide binding] 935599003603 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 935599003604 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 935599003605 E-class dimer interface [polypeptide binding]; other site 935599003606 P-class dimer interface [polypeptide binding]; other site 935599003607 active site 935599003608 Cu2+ binding site [ion binding]; other site 935599003609 Zn2+ binding site [ion binding]; other site 935599003610 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599003611 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 935599003612 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 935599003613 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 935599003614 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935599003615 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 935599003616 Walker A/P-loop; other site 935599003617 ATP binding site [chemical binding]; other site 935599003618 Q-loop/lid; other site 935599003619 ABC transporter signature motif; other site 935599003620 Walker B; other site 935599003621 D-loop; other site 935599003622 H-loop/switch region; other site 935599003623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935599003624 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935599003625 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935599003626 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935599003627 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935599003628 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935599003629 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935599003630 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935599003631 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 935599003632 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 935599003633 aminopeptidase N; Provisional; Region: pepN; PRK14015 935599003634 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 935599003635 active site 935599003636 Zn binding site [ion binding]; other site 935599003637 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 935599003638 active site 935599003639 catalytic site [active] 935599003640 substrate binding site [chemical binding]; other site 935599003641 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 935599003642 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 935599003643 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935599003644 putative acyl-acceptor binding pocket; other site 935599003645 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 935599003646 active site 935599003647 putative DNA-binding cleft [nucleotide binding]; other site 935599003648 dimer interface [polypeptide binding]; other site 935599003649 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 935599003650 DNA-binding protein Fis; Provisional; Region: PRK01905 935599003651 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 935599003652 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 935599003653 FMN binding site [chemical binding]; other site 935599003654 active site 935599003655 catalytic residues [active] 935599003656 substrate binding site [chemical binding]; other site 935599003657 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 935599003658 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 935599003659 ATP binding site [chemical binding]; other site 935599003660 Mg++ binding site [ion binding]; other site 935599003661 motif III; other site 935599003662 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 935599003663 nucleotide binding region [chemical binding]; other site 935599003664 ATP-binding site [chemical binding]; other site 935599003665 Fic family protein [Function unknown]; Region: COG3177 935599003666 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 935599003667 Fic/DOC family; Region: Fic; pfam02661 935599003668 Protein of unknown function (DUF723); Region: DUF723; pfam05265 935599003669 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 935599003670 Catalytic site [active] 935599003671 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 935599003672 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 935599003673 dimer interface [polypeptide binding]; other site 935599003674 putative anticodon binding site; other site 935599003675 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 935599003676 motif 1; other site 935599003677 active site 935599003678 motif 2; other site 935599003679 motif 3; other site 935599003680 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 935599003681 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 935599003682 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 935599003683 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 935599003684 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 935599003685 active site 935599003686 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 935599003687 eyelet of channel; other site 935599003688 trimer interface [polypeptide binding]; other site 935599003689 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 935599003690 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 935599003691 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 935599003692 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 935599003693 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 935599003694 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 935599003695 hinge; other site 935599003696 active site 935599003697 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935599003698 NlpC/P60 family; Region: NLPC_P60; pfam00877 935599003699 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 935599003700 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 935599003701 putative active site [active] 935599003702 catalytic site [active] 935599003703 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 935599003704 putative active site [active] 935599003705 catalytic site [active] 935599003706 putative transporter; Provisional; Region: PRK10504 935599003707 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 935599003708 putative substrate translocation pore; other site 935599003709 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 935599003710 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 935599003711 Cysteine-rich domain; Region: CCG; pfam02754 935599003712 Cysteine-rich domain; Region: CCG; pfam02754 935599003713 Uncharacterized conserved protein [Function unknown]; Region: COG1556 935599003714 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 935599003715 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 935599003716 4Fe-4S binding domain; Region: Fer4; pfam00037 935599003717 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 935599003718 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 935599003719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 935599003720 Tetratricopeptide repeat; Region: TPR_6; pfam13174 935599003721 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 935599003722 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 935599003723 S-adenosylmethionine binding site [chemical binding]; other site 935599003724 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 935599003725 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 935599003726 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 935599003727 ATP binding site [chemical binding]; other site 935599003728 Mg2+ binding site [ion binding]; other site 935599003729 G-X-G motif; other site 935599003730 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 935599003731 ATP binding site [chemical binding]; other site 935599003732 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 935599003733 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 935599003734 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 935599003735 Walker A motif; other site 935599003736 ATP binding site [chemical binding]; other site 935599003737 Walker B motif; other site 935599003738 arginine finger; other site 935599003739 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 935599003740 hypothetical protein; Validated; Region: PRK00153 935599003741 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935599003742 Helix-turn-helix domain; Region: HTH_38; pfam13936 935599003743 Homeodomain-like domain; Region: HTH_32; pfam13565 935599003744 Integrase core domain; Region: rve; pfam00665 935599003745 recombinase A; Provisional; Region: recA; PRK09354 935599003746 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 935599003747 hexamer interface [polypeptide binding]; other site 935599003748 Walker A motif; other site 935599003749 ATP binding site [chemical binding]; other site 935599003750 Walker B motif; other site 935599003751 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 935599003752 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 935599003753 active site 935599003754 catalytic residue [active] 935599003755 dimer interface [polypeptide binding]; other site 935599003756 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 935599003757 Family description; Region: UvrD_C_2; pfam13538 935599003758 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 935599003759 active site 935599003760 DNA polymerase IV; Validated; Region: PRK02406 935599003761 DNA binding site [nucleotide binding] 935599003762 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 935599003763 Transposase domain (DUF772); Region: DUF772; pfam05598 935599003764 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599003765 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599003766 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 935599003767 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 935599003768 FAD binding pocket [chemical binding]; other site 935599003769 FAD binding motif [chemical binding]; other site 935599003770 phosphate binding motif [ion binding]; other site 935599003771 beta-alpha-beta structure motif; other site 935599003772 NAD binding pocket [chemical binding]; other site 935599003773 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 935599003774 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 935599003775 active site 935599003776 catalytic site [active] 935599003777 substrate binding site [chemical binding]; other site 935599003778 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 935599003779 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 935599003780 FMN binding site [chemical binding]; other site 935599003781 substrate binding site [chemical binding]; other site 935599003782 putative catalytic residue [active] 935599003783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 935599003784 FixH; Region: FixH; pfam05751 935599003785 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 935599003786 4Fe-4S binding domain; Region: Fer4_5; pfam12801 935599003787 4Fe-4S binding domain; Region: Fer4_3; pfam12798 935599003788 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 935599003789 transketolase; Reviewed; Region: PRK12753 935599003790 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 935599003791 TPP-binding site [chemical binding]; other site 935599003792 dimer interface [polypeptide binding]; other site 935599003793 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 935599003794 PYR/PP interface [polypeptide binding]; other site 935599003795 dimer interface [polypeptide binding]; other site 935599003796 TPP binding site [chemical binding]; other site 935599003797 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935599003798 fumarate hydratase; Reviewed; Region: fumC; PRK00485 935599003799 Class II fumarases; Region: Fumarase_classII; cd01362 935599003800 active site 935599003801 tetramer interface [polypeptide binding]; other site 935599003802 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935599003803 EamA-like transporter family; Region: EamA; pfam00892 935599003804 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 935599003805 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 935599003806 dimer interface [polypeptide binding]; other site 935599003807 ssDNA binding site [nucleotide binding]; other site 935599003808 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935599003809 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 935599003810 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935599003811 putative substrate translocation pore; other site 935599003812 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 935599003813 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 935599003814 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935599003815 catalytic residue [active] 935599003816 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 935599003817 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 935599003818 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 935599003819 Protein of unknown function (DUF560); Region: DUF560; pfam04575 935599003820 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 935599003821 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 935599003822 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 935599003823 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 935599003824 active site 935599003825 HIGH motif; other site 935599003826 dimer interface [polypeptide binding]; other site 935599003827 KMSKS motif; other site 935599003828 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 935599003829 Clp amino terminal domain; Region: Clp_N; pfam02861 935599003830 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 935599003831 Walker A motif; other site 935599003832 ATP binding site [chemical binding]; other site 935599003833 Walker B motif; other site 935599003834 arginine finger; other site 935599003835 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 935599003836 Walker A motif; other site 935599003837 ATP binding site [chemical binding]; other site 935599003838 Walker B motif; other site 935599003839 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 935599003840 aminotransferase AlaT; Validated; Region: PRK09265 935599003841 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 935599003842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599003843 homodimer interface [polypeptide binding]; other site 935599003844 catalytic residue [active] 935599003845 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 935599003846 active site 1 [active] 935599003847 dimer interface [polypeptide binding]; other site 935599003848 hexamer interface [polypeptide binding]; other site 935599003849 active site 2 [active] 935599003850 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 935599003851 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 935599003852 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 935599003853 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 935599003854 NAD(P) binding site [chemical binding]; other site 935599003855 phosphoglycolate phosphatase; Provisional; Region: PRK13222 935599003856 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 935599003857 motif II; other site 935599003858 recombination regulator RecX; Reviewed; Region: recX; PRK00117 935599003859 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 935599003860 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935599003861 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935599003862 Peptidase family M23; Region: Peptidase_M23; pfam01551 935599003863 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 935599003864 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 935599003865 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 935599003866 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 935599003867 Transporter associated domain; Region: CorC_HlyC; smart01091 935599003868 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 935599003869 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 935599003870 tetramerization interface [polypeptide binding]; other site 935599003871 NAD(P) binding site [chemical binding]; other site 935599003872 catalytic residues [active] 935599003873 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 935599003874 carbon starvation protein A; Provisional; Region: PRK15015 935599003875 Carbon starvation protein CstA; Region: CstA; pfam02554 935599003876 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 935599003877 Uncharacterized small protein [Function unknown]; Region: COG2879 935599003878 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 935599003879 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 935599003880 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 935599003881 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599003882 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599003883 aspartate kinase; Reviewed; Region: PRK06635 935599003884 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 935599003885 putative nucleotide binding site [chemical binding]; other site 935599003886 putative catalytic residues [active] 935599003887 putative Mg ion binding site [ion binding]; other site 935599003888 putative aspartate binding site [chemical binding]; other site 935599003889 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 935599003890 putative allosteric regulatory site; other site 935599003891 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 935599003892 ribonuclease PH; Reviewed; Region: rph; PRK00173 935599003893 Ribonuclease PH; Region: RNase_PH_bact; cd11362 935599003894 hexamer interface [polypeptide binding]; other site 935599003895 active site 935599003896 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 935599003897 Ligand Binding Site [chemical binding]; other site 935599003898 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 935599003899 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 935599003900 putative ATP binding site [chemical binding]; other site 935599003901 putative substrate interface [chemical binding]; other site 935599003902 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 935599003903 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 935599003904 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 935599003905 active site 935599003906 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 935599003907 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 935599003908 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 935599003909 active site 935599003910 HIGH motif; other site 935599003911 KMSK motif region; other site 935599003912 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 935599003913 tRNA binding surface [nucleotide binding]; other site 935599003914 anticodon binding site; other site 935599003915 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 935599003916 Sulfatase; Region: Sulfatase; cl17466 935599003917 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 935599003918 dimer interface [polypeptide binding]; other site 935599003919 conserved gate region; other site 935599003920 putative PBP binding loops; other site 935599003921 ABC-ATPase subunit interface; other site 935599003922 Staphylococcal nuclease homologues; Region: SNc; smart00318 935599003923 Catalytic site; other site 935599003924 Staphylococcal nuclease homologue; Region: SNase; pfam00565 935599003925 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 935599003926 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935599003927 active site 935599003928 dimer interface [polypeptide binding]; other site 935599003929 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 935599003930 homotrimer interaction site [polypeptide binding]; other site 935599003931 zinc binding site [ion binding]; other site 935599003932 CDP-binding sites; other site 935599003933 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 935599003934 substrate binding site; other site 935599003935 dimer interface; other site 935599003936 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 935599003937 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 935599003938 active site 935599003939 catalytic site [active] 935599003940 substrate binding site [chemical binding]; other site 935599003941 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935599003942 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 935599003943 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 935599003944 propionate/acetate kinase; Provisional; Region: PRK12379 935599003945 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 935599003946 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 935599003947 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 935599003948 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 935599003949 DsbD alpha interface [polypeptide binding]; other site 935599003950 catalytic residues [active] 935599003951 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 935599003952 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 935599003953 active site lid residues [active] 935599003954 substrate binding pocket [chemical binding]; other site 935599003955 catalytic residues [active] 935599003956 substrate-Mg2+ binding site; other site 935599003957 aspartate-rich region 1; other site 935599003958 aspartate-rich region 2; other site 935599003959 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 935599003960 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935599003961 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 935599003962 FAD binding domain; Region: FAD_binding_4; pfam01565 935599003963 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 935599003964 SmpB-tmRNA interface; other site 935599003965 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 935599003966 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 935599003967 putative active site [active] 935599003968 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 935599003969 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 935599003970 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 935599003971 DNA binding site [nucleotide binding] 935599003972 active site 935599003973 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 935599003974 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 935599003975 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 935599003976 metal binding site [ion binding]; metal-binding site 935599003977 dimer interface [polypeptide binding]; other site 935599003978 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 935599003979 Hemerythrin-like domain; Region: Hr-like; cd12108 935599003980 Fe binding site [ion binding]; other site 935599003981 Azurin [Energy production and conversion]; Region: COG3241 935599003982 Protein of unknown function (DUF721); Region: DUF721; pfam05258 935599003983 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 935599003984 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 935599003985 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 935599003986 SEC-C motif; Region: SEC-C; pfam02810 935599003987 DNA primase; Validated; Region: dnaG; PRK05667 935599003988 CHC2 zinc finger; Region: zf-CHC2; pfam01807 935599003989 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 935599003990 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 935599003991 active site 935599003992 metal binding site [ion binding]; metal-binding site 935599003993 interdomain interaction site; other site 935599003994 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 935599003995 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 935599003996 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 935599003997 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 935599003998 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 935599003999 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 935599004000 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935599004001 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 935599004002 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 935599004003 DNA binding residues [nucleotide binding] 935599004004 Transposase domain (DUF772); Region: DUF772; pfam05598 935599004005 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599004006 DDE superfamily endonuclease; Region: DDE_4; cl17710 935599004007 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 935599004008 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 935599004009 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 935599004010 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 935599004011 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 935599004012 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599004013 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599004014 CTP synthetase; Validated; Region: pyrG; PRK05380 935599004015 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 935599004016 Catalytic site [active] 935599004017 active site 935599004018 UTP binding site [chemical binding]; other site 935599004019 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 935599004020 active site 935599004021 putative oxyanion hole; other site 935599004022 catalytic triad [active] 935599004023 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 935599004024 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 935599004025 acyl-activating enzyme (AAE) consensus motif; other site 935599004026 putative AMP binding site [chemical binding]; other site 935599004027 putative active site [active] 935599004028 putative CoA binding site [chemical binding]; other site 935599004029 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 935599004030 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 935599004031 Ligand Binding Site [chemical binding]; other site 935599004032 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 935599004033 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 935599004034 glutathione synthetase; Provisional; Region: PRK05246 935599004035 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 935599004036 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 935599004037 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 935599004038 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 935599004039 active site 935599004040 HIGH motif; other site 935599004041 nucleotide binding site [chemical binding]; other site 935599004042 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 935599004043 KMSKS motif; other site 935599004044 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 935599004045 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935599004046 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 935599004047 putative DNA binding site [nucleotide binding]; other site 935599004048 putative Zn2+ binding site [ion binding]; other site 935599004049 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935599004050 Predicted membrane protein [Function unknown]; Region: COG2431 935599004051 Transcriptional regulators [Transcription]; Region: GntR; COG1802 935599004052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935599004053 DNA-binding site [nucleotide binding]; DNA binding site 935599004054 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 935599004055 OsmC-like protein; Region: OsmC; cl00767 935599004056 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 935599004057 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 935599004058 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 935599004059 active site 935599004060 substrate binding site [chemical binding]; other site 935599004061 cosubstrate binding site; other site 935599004062 catalytic site [active] 935599004063 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 935599004064 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 935599004065 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935599004066 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 935599004067 multifunctional aminopeptidase A; Provisional; Region: PRK00913 935599004068 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 935599004069 interface (dimer of trimers) [polypeptide binding]; other site 935599004070 Substrate-binding/catalytic site; other site 935599004071 Zn-binding sites [ion binding]; other site 935599004072 Predicted permeases [General function prediction only]; Region: COG0795 935599004073 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 935599004074 Predicted permeases [General function prediction only]; Region: COG0795 935599004075 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 935599004076 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 935599004077 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 935599004078 substrate binding site [chemical binding]; other site 935599004079 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 935599004080 substrate binding site [chemical binding]; other site 935599004081 ligand binding site [chemical binding]; other site 935599004082 ornithine carbamoyltransferase; Validated; Region: PRK02102 935599004083 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 935599004084 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 935599004085 ketol-acid reductoisomerase; Provisional; Region: PRK05479 935599004086 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 935599004087 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 935599004088 Uncharacterized conserved protein [Function unknown]; Region: COG1359 935599004089 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 935599004090 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 935599004091 putative valine binding site [chemical binding]; other site 935599004092 dimer interface [polypeptide binding]; other site 935599004093 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 935599004094 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 935599004095 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 935599004096 PYR/PP interface [polypeptide binding]; other site 935599004097 dimer interface [polypeptide binding]; other site 935599004098 TPP binding site [chemical binding]; other site 935599004099 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935599004100 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 935599004101 TPP-binding site [chemical binding]; other site 935599004102 dimer interface [polypeptide binding]; other site 935599004103 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 935599004104 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935599004105 Cu(I) binding site [ion binding]; other site 935599004106 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 935599004107 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 935599004108 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 935599004109 GIY-YIG motif/motif A; other site 935599004110 putative active site [active] 935599004111 putative metal binding site [ion binding]; other site 935599004112 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 935599004113 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 935599004114 NAD binding site [chemical binding]; other site 935599004115 dimerization interface [polypeptide binding]; other site 935599004116 product binding site; other site 935599004117 substrate binding site [chemical binding]; other site 935599004118 zinc binding site [ion binding]; other site 935599004119 catalytic residues [active] 935599004120 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 935599004121 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 935599004122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599004123 homodimer interface [polypeptide binding]; other site 935599004124 catalytic residue [active] 935599004125 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 935599004126 putative active site pocket [active] 935599004127 4-fold oligomerization interface [polypeptide binding]; other site 935599004128 metal binding residues [ion binding]; metal-binding site 935599004129 3-fold/trimer interface [polypeptide binding]; other site 935599004130 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 935599004131 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 935599004132 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935599004133 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 935599004134 Transposase domain (DUF772); Region: DUF772; pfam05598 935599004135 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599004136 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599004137 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 935599004138 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 935599004139 putative inner membrane peptidase; Provisional; Region: PRK11778 935599004140 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 935599004141 tandem repeat interface [polypeptide binding]; other site 935599004142 oligomer interface [polypeptide binding]; other site 935599004143 active site residues [active] 935599004144 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 935599004145 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 935599004146 Cupin; Region: Cupin_6; pfam12852 935599004147 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935599004148 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935599004149 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 935599004150 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 935599004151 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935599004152 EamA-like transporter family; Region: EamA; pfam00892 935599004153 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 935599004154 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 935599004155 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 935599004156 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 935599004157 motif 1; other site 935599004158 active site 935599004159 motif 2; other site 935599004160 motif 3; other site 935599004161 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 935599004162 DHHA1 domain; Region: DHHA1; pfam02272 935599004163 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599004164 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599004165 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935599004166 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 935599004167 cofactor binding site; other site 935599004168 DNA binding site [nucleotide binding] 935599004169 substrate interaction site [chemical binding]; other site 935599004170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 935599004171 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 935599004172 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 935599004173 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 935599004174 gating phenylalanine in ion channel; other site 935599004175 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 935599004176 catalytic core [active] 935599004177 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 935599004178 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 935599004179 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 935599004180 CAP-like domain; other site 935599004181 active site 935599004182 primary dimer interface [polypeptide binding]; other site 935599004183 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 935599004184 dimer interface [polypeptide binding]; other site 935599004185 phosphorylation site [posttranslational modification] 935599004186 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 935599004187 Mg2+ binding site [ion binding]; other site 935599004188 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 935599004189 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 935599004190 active site 935599004191 phosphorylation site [posttranslational modification] 935599004192 intermolecular recognition site; other site 935599004193 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 935599004194 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 935599004195 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 935599004196 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 935599004197 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 935599004198 homodimer interface [polypeptide binding]; other site 935599004199 substrate-cofactor binding pocket; other site 935599004200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599004201 catalytic residue [active] 935599004202 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 935599004203 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935599004204 substrate binding pocket [chemical binding]; other site 935599004205 membrane-bound complex binding site; other site 935599004206 hinge residues; other site 935599004207 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 935599004208 Fumarase C-terminus; Region: Fumerase_C; pfam05683 935599004209 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 935599004210 TrkA-N domain; Region: TrkA_N; pfam02254 935599004211 TrkA-C domain; Region: TrkA_C; pfam02080 935599004212 TrkA-N domain; Region: TrkA_N; pfam02254 935599004213 TrkA-C domain; Region: TrkA_C; pfam02080 935599004214 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935599004215 Homeodomain-like domain; Region: HTH_32; pfam13565 935599004216 Integrase core domain; Region: rve; pfam00665 935599004217 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 935599004218 dimer interface [polypeptide binding]; other site 935599004219 substrate binding site [chemical binding]; other site 935599004220 ATP binding site [chemical binding]; other site 935599004221 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599004222 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599004223 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 935599004224 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 935599004225 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 935599004226 RNA/DNA hybrid binding site [nucleotide binding]; other site 935599004227 active site 935599004228 HIT domain; Region: HIT; pfam01230 935599004229 HIT family signature motif; other site 935599004230 catalytic residue [active] 935599004231 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 935599004232 dimer interface [polypeptide binding]; other site 935599004233 catalytic triad [active] 935599004234 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 935599004235 catalytic residues [active] 935599004236 dimer interface [polypeptide binding]; other site 935599004237 Uncharacterized conserved protein [Function unknown]; Region: COG1262 935599004238 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 935599004239 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 935599004240 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 935599004241 putative FMN binding site [chemical binding]; other site 935599004242 putative metal dependent hydrolase; Provisional; Region: PRK11598 935599004243 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 935599004244 Sulfatase; Region: Sulfatase; pfam00884 935599004245 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 935599004246 homodimer interface [polypeptide binding]; other site 935599004247 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 935599004248 substrate-cofactor binding pocket; other site 935599004249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599004250 catalytic residue [active] 935599004251 ribosome maturation protein RimP; Reviewed; Region: PRK00092 935599004252 Sm and related proteins; Region: Sm_like; cl00259 935599004253 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 935599004254 putative oligomer interface [polypeptide binding]; other site 935599004255 putative RNA binding site [nucleotide binding]; other site 935599004256 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 935599004257 NusA N-terminal domain; Region: NusA_N; pfam08529 935599004258 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 935599004259 RNA binding site [nucleotide binding]; other site 935599004260 homodimer interface [polypeptide binding]; other site 935599004261 NusA-like KH domain; Region: KH_5; pfam13184 935599004262 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 935599004263 G-X-X-G motif; other site 935599004264 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 935599004265 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 935599004266 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 935599004267 translation initiation factor IF-2; Region: IF-2; TIGR00487 935599004268 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 935599004269 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 935599004270 G1 box; other site 935599004271 putative GEF interaction site [polypeptide binding]; other site 935599004272 GTP/Mg2+ binding site [chemical binding]; other site 935599004273 Switch I region; other site 935599004274 G2 box; other site 935599004275 G3 box; other site 935599004276 Switch II region; other site 935599004277 G4 box; other site 935599004278 G5 box; other site 935599004279 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 935599004280 Translation-initiation factor 2; Region: IF-2; pfam11987 935599004281 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 935599004282 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 935599004283 G1 box; other site 935599004284 GTP/Mg2+ binding site [chemical binding]; other site 935599004285 G2 box; other site 935599004286 Switch I region; other site 935599004287 G3 box; other site 935599004288 Switch II region; other site 935599004289 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 935599004290 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 935599004291 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 935599004292 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 935599004293 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 935599004294 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 935599004295 hypothetical protein; Validated; Region: PRK00110 935599004296 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 935599004297 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 935599004298 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 935599004299 putative DNA binding site [nucleotide binding]; other site 935599004300 putative Zn2+ binding site [ion binding]; other site 935599004301 AsnC family; Region: AsnC_trans_reg; pfam01037 935599004302 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 935599004303 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 935599004304 active site 935599004305 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935599004306 substrate binding site [chemical binding]; other site 935599004307 catalytic residues [active] 935599004308 dimer interface [polypeptide binding]; other site 935599004309 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 935599004310 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 935599004311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 935599004312 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 935599004313 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 935599004314 S-adenosylmethionine binding site [chemical binding]; other site 935599004315 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 935599004316 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 935599004317 comEA protein; Region: comE; TIGR01259 935599004318 Helix-hairpin-helix motif; Region: HHH; pfam00633 935599004319 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 935599004320 Flavoprotein; Region: Flavoprotein; pfam02441 935599004321 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 935599004322 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 935599004323 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935599004324 Zn2+ binding site [ion binding]; other site 935599004325 Mg2+ binding site [ion binding]; other site 935599004326 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 935599004327 synthetase active site [active] 935599004328 NTP binding site [chemical binding]; other site 935599004329 metal binding site [ion binding]; metal-binding site 935599004330 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 935599004331 ACT domain; Region: ACT_4; pfam13291 935599004332 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 935599004333 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 935599004334 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 935599004335 catalytic site [active] 935599004336 G-X2-G-X-G-K; other site 935599004337 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935599004338 active site 935599004339 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 935599004340 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 935599004341 active site 935599004342 motif I; other site 935599004343 motif II; other site 935599004344 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 935599004345 putative protease; Provisional; Region: PRK15452 935599004346 Peptidase family U32; Region: Peptidase_U32; pfam01136 935599004347 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 935599004348 putative active site [active] 935599004349 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 935599004350 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 935599004351 heme binding pocket [chemical binding]; other site 935599004352 heme ligand [chemical binding]; other site 935599004353 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 935599004354 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 935599004355 Paraquat-inducible protein A; Region: PqiA; pfam04403 935599004356 Paraquat-inducible protein A; Region: PqiA; pfam04403 935599004357 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 935599004358 mce related protein; Region: MCE; pfam02470 935599004359 mce related protein; Region: MCE; pfam02470 935599004360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 935599004361 Protein of unknown function (DUF330); Region: DUF330; pfam03886 935599004362 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 935599004363 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 935599004364 active site 935599004365 catalytic triad [active] 935599004366 oxyanion hole [active] 935599004367 switch loop; other site 935599004368 glycine dehydrogenase; Provisional; Region: PRK05367 935599004369 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 935599004370 tetramer interface [polypeptide binding]; other site 935599004371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599004372 catalytic residue [active] 935599004373 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 935599004374 tetramer interface [polypeptide binding]; other site 935599004375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599004376 catalytic residue [active] 935599004377 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 935599004378 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 935599004379 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 935599004380 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 935599004381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599004382 homodimer interface [polypeptide binding]; other site 935599004383 catalytic residue [active] 935599004384 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 935599004385 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 935599004386 S-adenosylmethionine binding site [chemical binding]; other site 935599004387 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 935599004388 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 935599004389 Tetramer interface [polypeptide binding]; other site 935599004390 active site 935599004391 FMN-binding site [chemical binding]; other site 935599004392 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 935599004393 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 935599004394 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 935599004395 ATP binding site [chemical binding]; other site 935599004396 Mg2+ binding site [ion binding]; other site 935599004397 G-X-G motif; other site 935599004398 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 935599004399 anchoring element; other site 935599004400 dimer interface [polypeptide binding]; other site 935599004401 ATP binding site [chemical binding]; other site 935599004402 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 935599004403 active site 935599004404 metal binding site [ion binding]; metal-binding site 935599004405 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 935599004406 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 935599004407 putative active site [active] 935599004408 Ap4A binding site [chemical binding]; other site 935599004409 nudix motif; other site 935599004410 putative metal binding site [ion binding]; other site 935599004411 seryl-tRNA synthetase; Provisional; Region: PRK05431 935599004412 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 935599004413 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 935599004414 dimer interface [polypeptide binding]; other site 935599004415 active site 935599004416 motif 1; other site 935599004417 motif 2; other site 935599004418 motif 3; other site 935599004419 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 935599004420 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 935599004421 putative ligand binding site [chemical binding]; other site 935599004422 putative NAD binding site [chemical binding]; other site 935599004423 catalytic site [active] 935599004424 peptide chain release factor 1; Validated; Region: prfA; PRK00591 935599004425 This domain is found in peptide chain release factors; Region: PCRF; smart00937 935599004426 RF-1 domain; Region: RF-1; pfam00472 935599004427 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 935599004428 active site 935599004429 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 935599004430 active site 935599004431 homodimer interface [polypeptide binding]; other site 935599004432 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935599004433 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 935599004434 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 935599004435 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 935599004436 active site 935599004437 substrate binding site [chemical binding]; other site 935599004438 metal binding site [ion binding]; metal-binding site 935599004439 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 935599004440 dihydropteroate synthase; Region: DHPS; TIGR01496 935599004441 substrate binding pocket [chemical binding]; other site 935599004442 dimer interface [polypeptide binding]; other site 935599004443 inhibitor binding site; inhibition site 935599004444 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 935599004445 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 935599004446 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 935599004447 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 935599004448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 935599004449 Predicted membrane protein [Function unknown]; Region: COG4648 935599004450 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 935599004451 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935599004452 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 935599004453 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 935599004454 dimer interface [polypeptide binding]; other site 935599004455 active site 935599004456 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 935599004457 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 935599004458 putative metal binding site; other site 935599004459 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935599004460 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 935599004461 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 935599004462 Na2 binding site [ion binding]; other site 935599004463 putative substrate binding site 1 [chemical binding]; other site 935599004464 Na binding site 1 [ion binding]; other site 935599004465 putative substrate binding site 2 [chemical binding]; other site 935599004466 thymidylate synthase; Reviewed; Region: thyA; PRK01827 935599004467 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 935599004468 dimerization interface [polypeptide binding]; other site 935599004469 active site 935599004470 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599004471 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599004472 glutamate dehydrogenase; Provisional; Region: PRK09414 935599004473 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 935599004474 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 935599004475 NAD(P) binding site [chemical binding]; other site 935599004476 Transcriptional regulators [Transcription]; Region: FadR; COG2186 935599004477 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935599004478 DNA-binding site [nucleotide binding]; DNA binding site 935599004479 FCD domain; Region: FCD; pfam07729 935599004480 L-lactate permease; Region: Lactate_perm; cl00701 935599004481 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 935599004482 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 935599004483 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 935599004484 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935599004485 HlyD family secretion protein; Region: HlyD_3; pfam13437 935599004486 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 935599004487 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935599004488 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 935599004489 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 935599004490 AbgT putative transporter family; Region: ABG_transport; pfam03806 935599004491 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 935599004492 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 935599004493 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 935599004494 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 935599004495 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 935599004496 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 935599004497 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 935599004498 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 935599004499 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 935599004500 Low-spin heme binding site [chemical binding]; other site 935599004501 Putative water exit pathway; other site 935599004502 Binuclear center (active site) [active] 935599004503 Putative proton exit pathway; other site 935599004504 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 935599004505 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 935599004506 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 935599004507 protein binding site [polypeptide binding]; other site 935599004508 TIGR01244 family protein; Region: TIGR01244 935599004509 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 935599004510 TolR protein; Region: tolR; TIGR02801 935599004511 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 935599004512 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 935599004513 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 935599004514 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 935599004515 Peptidase family M50; Region: Peptidase_M50; pfam02163 935599004516 active site 935599004517 putative substrate binding region [chemical binding]; other site 935599004518 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 935599004519 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 935599004520 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 935599004521 C-terminal domain interface [polypeptide binding]; other site 935599004522 GSH binding site (G-site) [chemical binding]; other site 935599004523 catalytic residues [active] 935599004524 putative dimer interface [polypeptide binding]; other site 935599004525 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 935599004526 N-terminal domain interface [polypeptide binding]; other site 935599004527 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 935599004528 HD domain; Region: HD_4; pfam13328 935599004529 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 935599004530 synthetase active site [active] 935599004531 NTP binding site [chemical binding]; other site 935599004532 metal binding site [ion binding]; metal-binding site 935599004533 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 935599004534 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 935599004535 DDE superfamily endonuclease; Region: DDE_3; pfam13358 935599004536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 935599004537 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 935599004538 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 935599004539 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935599004540 HlyD family secretion protein; Region: HlyD_3; pfam13437 935599004541 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 935599004542 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 935599004543 Replication initiation factor; Region: Rep_trans; pfam02486 935599004544 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 935599004545 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 935599004546 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 935599004547 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 935599004548 G1 box; other site 935599004549 GTP/Mg2+ binding site [chemical binding]; other site 935599004550 G2 box; other site 935599004551 Switch I region; other site 935599004552 G3 box; other site 935599004553 Switch II region; other site 935599004554 G4 box; other site 935599004555 G5 box; other site 935599004556 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 935599004557 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 935599004558 active site 935599004559 phosphorylation site [posttranslational modification] 935599004560 intermolecular recognition site; other site 935599004561 dimerization interface [polypeptide binding]; other site 935599004562 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 935599004563 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 935599004564 S-adenosylmethionine binding site [chemical binding]; other site 935599004565 Protein of unknown function (DUF452); Region: DUF452; cl01062 935599004566 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 935599004567 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 935599004568 substrate-cofactor binding pocket; other site 935599004569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599004570 catalytic residue [active] 935599004571 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935599004572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 935599004573 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 935599004574 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 935599004575 transmembrane helices; other site 935599004576 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 935599004577 agmatinase; Region: agmatinase; TIGR01230 935599004578 oligomer interface [polypeptide binding]; other site 935599004579 putative active site [active] 935599004580 Mn binding site [ion binding]; other site 935599004581 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 935599004582 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 935599004583 dimer interface [polypeptide binding]; other site 935599004584 active site 935599004585 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935599004586 catalytic residues [active] 935599004587 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 935599004588 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 935599004589 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 935599004590 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 935599004591 dimer interface [polypeptide binding]; other site 935599004592 anticodon binding site; other site 935599004593 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 935599004594 homodimer interface [polypeptide binding]; other site 935599004595 motif 1; other site 935599004596 active site 935599004597 motif 2; other site 935599004598 GAD domain; Region: GAD; pfam02938 935599004599 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 935599004600 motif 3; other site 935599004601 Uncharacterized conserved protein [Function unknown]; Region: COG2928 935599004602 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 935599004603 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 935599004604 dimerization interface [polypeptide binding]; other site 935599004605 substrate binding site [chemical binding]; other site 935599004606 active site 935599004607 calcium binding site [ion binding]; other site 935599004608 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 935599004609 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 935599004610 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 935599004611 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 935599004612 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 935599004613 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 935599004614 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 935599004615 Fic family protein [Function unknown]; Region: COG3177 935599004616 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 935599004617 Fic/DOC family; Region: Fic; pfam02661 935599004618 glutamate racemase; Provisional; Region: PRK00865 935599004619 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 935599004620 AMIN domain; Region: AMIN; pfam11741 935599004621 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 935599004622 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 935599004623 active site 935599004624 metal binding site [ion binding]; metal-binding site 935599004625 Fic family protein [Function unknown]; Region: COG3177 935599004626 Fic/DOC family; Region: Fic; pfam02661 935599004627 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 935599004628 active site 935599004629 8-oxo-dGMP binding site [chemical binding]; other site 935599004630 nudix motif; other site 935599004631 metal binding site [ion binding]; metal-binding site 935599004632 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 935599004633 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 935599004634 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 935599004635 potential frameshift: common BLAST hit: gi|254805522|ref|YP_003083743.1| putative taurine catabolism dioxygenase TauD 935599004636 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 935599004637 active site 935599004638 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 935599004639 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 935599004640 active site 935599004641 hydrophilic channel; other site 935599004642 dimerization interface [polypeptide binding]; other site 935599004643 catalytic residues [active] 935599004644 active site lid [active] 935599004645 Recombination protein O N terminal; Region: RecO_N; pfam11967 935599004646 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 935599004647 Recombination protein O C terminal; Region: RecO_C; pfam02565 935599004648 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 935599004649 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 935599004650 Prephenate dehydratase; Region: PDT; pfam00800 935599004651 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 935599004652 putative L-Phe binding site [chemical binding]; other site 935599004653 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 935599004654 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 935599004655 putative substrate translocation pore; other site 935599004656 EamA-like transporter family; Region: EamA; pfam00892 935599004657 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 935599004658 EamA-like transporter family; Region: EamA; pfam00892 935599004659 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 935599004660 Predicted amidohydrolase [General function prediction only]; Region: COG0388 935599004661 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 935599004662 putative active site [active] 935599004663 catalytic triad [active] 935599004664 dimer interface [polypeptide binding]; other site 935599004665 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 935599004666 prephenate dehydrogenase; Validated; Region: PRK08507 935599004667 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 935599004668 Transcriptional regulator; Region: Rrf2; cl17282 935599004669 Rrf2 family protein; Region: rrf2_super; TIGR00738 935599004670 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 935599004671 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 935599004672 propionate/acetate kinase; Provisional; Region: PRK12379 935599004673 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 935599004674 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 935599004675 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 935599004676 substrate binding site [chemical binding]; other site 935599004677 ligand binding site [chemical binding]; other site 935599004678 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 935599004679 substrate binding site [chemical binding]; other site 935599004680 Protein of unknown function (DUF819); Region: DUF819; cl02317 935599004681 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 935599004682 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 935599004683 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 935599004684 dimer interface [polypeptide binding]; other site 935599004685 active site 935599004686 citrylCoA binding site [chemical binding]; other site 935599004687 oxalacetate/citrate binding site [chemical binding]; other site 935599004688 coenzyme A binding site [chemical binding]; other site 935599004689 catalytic triad [active] 935599004690 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 935599004691 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 935599004692 tetramer interface [polypeptide binding]; other site 935599004693 active site 935599004694 Mg2+/Mn2+ binding site [ion binding]; other site 935599004695 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 935599004696 cell division protein FtsZ; Validated; Region: PRK09330 935599004697 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 935599004698 nucleotide binding site [chemical binding]; other site 935599004699 SulA interaction site; other site 935599004700 cell division protein FtsA; Region: ftsA; TIGR01174 935599004701 Cell division protein FtsA; Region: FtsA; smart00842 935599004702 Cell division protein FtsA; Region: FtsA; pfam14450 935599004703 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 935599004704 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 935599004705 Cell division protein FtsQ; Region: FtsQ; pfam03799 935599004706 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 935599004707 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 935599004708 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935599004709 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 935599004710 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935599004711 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935599004712 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935599004713 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 935599004714 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 935599004715 active site 935599004716 homodimer interface [polypeptide binding]; other site 935599004717 cell division protein FtsW; Region: ftsW; TIGR02614 935599004718 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 935599004719 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935599004720 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935599004721 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 935599004722 Sel1-like repeats; Region: SEL1; smart00671 935599004723 Sel1-like repeats; Region: SEL1; smart00671 935599004724 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 935599004725 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 935599004726 Mg++ binding site [ion binding]; other site 935599004727 putative catalytic motif [active] 935599004728 putative substrate binding site [chemical binding]; other site 935599004729 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 935599004730 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935599004731 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 935599004732 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935599004733 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935599004734 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 935599004735 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935599004736 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935599004737 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935599004738 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 935599004739 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 935599004740 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935599004741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 935599004742 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 935599004743 MraW methylase family; Region: Methyltransf_5; cl17771 935599004744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 935599004745 MraZ protein; Region: MraZ; pfam02381 935599004746 MraZ protein; Region: MraZ; pfam02381 935599004747 Uncharacterized conserved protein [Function unknown]; Region: COG1565 935599004748 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 935599004749 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 935599004750 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 935599004751 catalytic residues [active] 935599004752 hinge region; other site 935599004753 alpha helical domain; other site 935599004754 cell division protein FtsN; Region: ftsN; TIGR02223 935599004755 Sporulation related domain; Region: SPOR; pfam05036 935599004756 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 935599004757 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 935599004758 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 935599004759 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 935599004760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 935599004761 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 935599004762 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 935599004763 Na binding site [ion binding]; other site 935599004764 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 935599004765 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 935599004766 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 935599004767 Glutamate binding site [chemical binding]; other site 935599004768 NAD binding site [chemical binding]; other site 935599004769 catalytic residues [active] 935599004770 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 935599004771 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 935599004772 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 935599004773 putative catalytic site [active] 935599004774 putative phosphate binding site [ion binding]; other site 935599004775 active site 935599004776 metal binding site A [ion binding]; metal-binding site 935599004777 DNA binding site [nucleotide binding] 935599004778 putative AP binding site [nucleotide binding]; other site 935599004779 putative metal binding site B [ion binding]; other site 935599004780 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 935599004781 dimerization interface [polypeptide binding]; other site 935599004782 putative DNA binding site [nucleotide binding]; other site 935599004783 putative Zn2+ binding site [ion binding]; other site 935599004784 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 935599004785 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 935599004786 dimerization interface [polypeptide binding]; other site 935599004787 active site 935599004788 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 935599004789 quinolinate synthetase; Provisional; Region: PRK09375 935599004790 L-aspartate oxidase; Provisional; Region: PRK06175 935599004791 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 935599004792 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 935599004793 Transposase domain (DUF772); Region: DUF772; pfam05598 935599004794 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599004795 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 935599004796 Transposase domain (DUF772); Region: DUF772; pfam05598 935599004797 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 935599004798 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599004799 beta-phosphoglucomutase; Region: bPGM; TIGR01990 935599004800 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 935599004801 motif II; other site 935599004802 maltose phosphorylase; Provisional; Region: PRK13807 935599004803 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 935599004804 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 935599004805 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 935599004806 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 935599004807 active site 935599004808 catalytic residues [active] 935599004809 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 935599004810 putative substrate translocation pore; other site 935599004811 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935599004812 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 935599004813 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935599004814 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935599004815 ABC transporter; Region: ABC_tran_2; pfam12848 935599004816 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935599004817 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 935599004818 tetramer interfaces [polypeptide binding]; other site 935599004819 binuclear metal-binding site [ion binding]; other site 935599004820 thiamine-monophosphate kinase; Region: thiL; TIGR01379 935599004821 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 935599004822 ATP binding site [chemical binding]; other site 935599004823 dimerization interface [polypeptide binding]; other site 935599004824 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 935599004825 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 935599004826 ligand binding site [chemical binding]; other site 935599004827 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 935599004828 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935599004829 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 935599004830 substrate binding site [chemical binding]; other site 935599004831 dimerization interface [polypeptide binding]; other site 935599004832 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 935599004833 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 935599004834 ligand binding site [chemical binding]; other site 935599004835 flexible hinge region; other site 935599004836 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 935599004837 putative switch regulator; other site 935599004838 non-specific DNA interactions [nucleotide binding]; other site 935599004839 DNA binding site [nucleotide binding] 935599004840 sequence specific DNA binding site [nucleotide binding]; other site 935599004841 putative cAMP binding site [chemical binding]; other site 935599004842 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 935599004843 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 935599004844 FeS/SAM binding site; other site 935599004845 HemN C-terminal domain; Region: HemN_C; pfam06969 935599004846 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 935599004847 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 935599004848 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 935599004849 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935599004850 Pretoxin HINT domain; Region: PT-HINT; pfam07591 935599004851 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 935599004852 thioester formation/cholesterol transfer; other site 935599004853 protein-splicing catalytic site; other site 935599004854 Pretoxin HINT domain; Region: PT-HINT; pfam07591 935599004855 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 935599004856 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 935599004857 GIY-YIG motif/motif A; other site 935599004858 putative active site [active] 935599004859 putative metal binding site [ion binding]; other site 935599004860 AmpG-like permease; Region: 2A0125; TIGR00901 935599004861 glutamine synthetase; Provisional; Region: glnA; PRK09469 935599004862 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 935599004863 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 935599004864 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 935599004865 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 935599004866 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 935599004867 shikimate binding site; other site 935599004868 NAD(P) binding site [chemical binding]; other site 935599004869 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 935599004870 Transglycosylase; Region: Transgly; cl17702 935599004871 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 935599004872 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 935599004873 Walker A/P-loop; other site 935599004874 ATP binding site [chemical binding]; other site 935599004875 Q-loop/lid; other site 935599004876 ABC transporter signature motif; other site 935599004877 Walker B; other site 935599004878 D-loop; other site 935599004879 H-loop/switch region; other site 935599004880 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 935599004881 OstA-like protein; Region: OstA; pfam03968 935599004882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 935599004883 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 935599004884 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 935599004885 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 935599004886 active site 935599004887 motif I; other site 935599004888 motif II; other site 935599004889 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 935599004890 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 935599004891 putative active site [active] 935599004892 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 935599004893 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 935599004894 putative active site [active] 935599004895 transaldolase; Provisional; Region: PRK03903 935599004896 catalytic residue [active] 935599004897 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 935599004898 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 935599004899 active site 935599004900 HIGH motif; other site 935599004901 nucleotide binding site [chemical binding]; other site 935599004902 active site 935599004903 KMSKS motif; other site 935599004904 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 935599004905 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 935599004906 FMN binding site [chemical binding]; other site 935599004907 active site 935599004908 catalytic residues [active] 935599004909 substrate binding site [chemical binding]; other site 935599004910 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 935599004911 putative active site [active] 935599004912 dimerization interface [polypeptide binding]; other site 935599004913 putative tRNAtyr binding site [nucleotide binding]; other site 935599004914 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 935599004915 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 935599004916 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 935599004917 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 935599004918 YciI-like protein; Reviewed; Region: PRK11370 935599004919 intracellular septation protein A; Reviewed; Region: PRK00259 935599004920 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 935599004921 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935599004922 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 935599004923 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 935599004924 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 935599004925 dimer interface [polypeptide binding]; other site 935599004926 active site 935599004927 metal binding site [ion binding]; metal-binding site 935599004928 glutathione binding site [chemical binding]; other site 935599004929 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 935599004930 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 935599004931 TPR motif; other site 935599004932 binding surface 935599004933 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 935599004934 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 935599004935 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 935599004936 homodimer interface [polypeptide binding]; other site 935599004937 substrate-cofactor binding pocket; other site 935599004938 catalytic residue [active] 935599004939 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 935599004940 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 935599004941 NAD binding site [chemical binding]; other site 935599004942 homotetramer interface [polypeptide binding]; other site 935599004943 homodimer interface [polypeptide binding]; other site 935599004944 substrate binding site [chemical binding]; other site 935599004945 active site 935599004946 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 935599004947 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 935599004948 trimer interface [polypeptide binding]; other site 935599004949 active site 935599004950 substrate binding site [chemical binding]; other site 935599004951 CoA binding site [chemical binding]; other site 935599004952 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 935599004953 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 935599004954 active site 935599004955 dimer interface [polypeptide binding]; other site 935599004956 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 935599004957 dimer interface [polypeptide binding]; other site 935599004958 active site 935599004959 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 935599004960 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 935599004961 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 935599004962 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 935599004963 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 935599004964 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 935599004965 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 935599004966 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 935599004967 CoA-binding site [chemical binding]; other site 935599004968 ATP-binding [chemical binding]; other site 935599004969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 935599004970 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 935599004971 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 935599004972 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 935599004973 Walker A motif; other site 935599004974 ATP binding site [chemical binding]; other site 935599004975 Walker B motif; other site 935599004976 Predicted membrane protein [Function unknown]; Region: COG2707 935599004977 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 935599004978 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 935599004979 substrate binding pocket [chemical binding]; other site 935599004980 chain length determination region; other site 935599004981 substrate-Mg2+ binding site; other site 935599004982 catalytic residues [active] 935599004983 aspartate-rich region 1; other site 935599004984 active site lid residues [active] 935599004985 aspartate-rich region 2; other site 935599004986 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 935599004987 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 935599004988 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 935599004989 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 935599004990 hypothetical protein; Provisional; Region: PRK09126 935599004991 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 935599004992 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 935599004993 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 935599004994 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 935599004995 putative substrate translocation pore; other site 935599004996 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 935599004997 HlyD family secretion protein; Region: HlyD_3; pfam13437 935599004998 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 935599004999 hypothetical protein; Provisional; Region: PRK11212 935599005000 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 935599005001 Peptidase family M23; Region: Peptidase_M23; pfam01551 935599005002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 935599005003 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 935599005004 binding surface 935599005005 Tetratricopeptide repeat; Region: TPR_16; pfam13432 935599005006 TPR motif; other site 935599005007 Protein of unknown function (DUF560); Region: DUF560; pfam04575 935599005008 Predicted membrane protein [Function unknown]; Region: COG1981 935599005009 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 935599005010 putative active site [active] 935599005011 putative metal binding residues [ion binding]; other site 935599005012 signature motif; other site 935599005013 putative dimer interface [polypeptide binding]; other site 935599005014 putative phosphate binding site [ion binding]; other site 935599005015 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 935599005016 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 935599005017 folate binding site [chemical binding]; other site 935599005018 NADP+ binding site [chemical binding]; other site 935599005019 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 935599005020 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 935599005021 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 935599005022 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 935599005023 Helix-hairpin-helix motif; Region: HHH; pfam00633 935599005024 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 935599005025 signal recognition particle protein; Provisional; Region: PRK10867 935599005026 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 935599005027 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 935599005028 P loop; other site 935599005029 GTP binding site [chemical binding]; other site 935599005030 Signal peptide binding domain; Region: SRP_SPB; pfam02978 935599005031 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 935599005032 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 935599005033 catalytic residues [active] 935599005034 hinge region; other site 935599005035 alpha helical domain; other site 935599005036 Uncharacterized conserved protein [Function unknown]; Region: COG1432 935599005037 LabA_like proteins; Region: LabA_like; cd06167 935599005038 putative metal binding site [ion binding]; other site 935599005039 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 935599005040 dimer interface [polypeptide binding]; other site 935599005041 FMN binding site [chemical binding]; other site 935599005042 Predicted membrane protein [Function unknown]; Region: COG2259 935599005043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935599005044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935599005045 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 935599005046 putative effector binding pocket; other site 935599005047 dimerization interface [polypeptide binding]; other site 935599005048 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 935599005049 DNA photolyase; Region: DNA_photolyase; pfam00875 935599005050 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599005051 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599005052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 935599005053 SEC-C motif; Region: SEC-C; pfam02810 935599005054 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 935599005055 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 935599005056 active site 935599005057 RNA methyltransferase, RsmE family; Region: TIGR00046 935599005058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 935599005059 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 935599005060 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 935599005061 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 935599005062 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 935599005063 active site 935599005064 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 935599005065 active site 935599005066 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 935599005067 DALR anticodon binding domain; Region: DALR_1; pfam05746 935599005068 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 935599005069 dimer interface [polypeptide binding]; other site 935599005070 motif 1; other site 935599005071 active site 935599005072 motif 2; other site 935599005073 motif 3; other site 935599005074 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 935599005075 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 935599005076 gamma subunit interface [polypeptide binding]; other site 935599005077 epsilon subunit interface [polypeptide binding]; other site 935599005078 LBP interface [polypeptide binding]; other site 935599005079 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 935599005080 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 935599005081 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 935599005082 alpha subunit interaction interface [polypeptide binding]; other site 935599005083 Walker A motif; other site 935599005084 ATP binding site [chemical binding]; other site 935599005085 Walker B motif; other site 935599005086 inhibitor binding site; inhibition site 935599005087 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 935599005088 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 935599005089 core domain interface [polypeptide binding]; other site 935599005090 delta subunit interface [polypeptide binding]; other site 935599005091 epsilon subunit interface [polypeptide binding]; other site 935599005092 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 935599005093 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 935599005094 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 935599005095 beta subunit interaction interface [polypeptide binding]; other site 935599005096 Walker A motif; other site 935599005097 ATP binding site [chemical binding]; other site 935599005098 Walker B motif; other site 935599005099 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 935599005100 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 935599005101 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 935599005102 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 935599005103 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 935599005104 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 935599005105 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 935599005106 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 935599005107 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 935599005108 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 935599005109 ParB-like nuclease domain; Region: ParBc; pfam02195 935599005110 KorB domain; Region: KorB; pfam08535 935599005111 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 935599005112 Flavoprotein; Region: Flavoprotein; pfam02441 935599005113 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 935599005114 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 935599005115 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 935599005116 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 935599005117 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 935599005118 Walker A/P-loop; other site 935599005119 ATP binding site [chemical binding]; other site 935599005120 Q-loop/lid; other site 935599005121 ABC transporter signature motif; other site 935599005122 Walker B; other site 935599005123 D-loop; other site 935599005124 H-loop/switch region; other site 935599005125 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 935599005126 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 935599005127 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935599005128 catalytic residue [active] 935599005129 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 935599005130 Uncharacterized conserved protein [Function unknown]; Region: COG1610 935599005131 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 935599005132 stringent starvation protein A; Provisional; Region: sspA; PRK09481 935599005133 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 935599005134 C-terminal domain interface [polypeptide binding]; other site 935599005135 putative GSH binding site (G-site) [chemical binding]; other site 935599005136 dimer interface [polypeptide binding]; other site 935599005137 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 935599005138 dimer interface [polypeptide binding]; other site 935599005139 N-terminal domain interface [polypeptide binding]; other site 935599005140 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 935599005141 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 935599005142 Cadmium resistance transporter; Region: Cad; pfam03596 935599005143 ribosomal protein L31; Region: L31; TIGR00105 935599005144 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 935599005145 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 935599005146 catalytic residues [active] 935599005147 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 935599005148 active site 935599005149 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 935599005150 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 935599005151 anti sigma factor interaction site; other site 935599005152 regulatory phosphorylation site [posttranslational modification]; other site 935599005153 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 935599005154 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 935599005155 mce related protein; Region: MCE; pfam02470 935599005156 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 935599005157 Permease; Region: Permease; pfam02405 935599005158 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 935599005159 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 935599005160 Walker A/P-loop; other site 935599005161 ATP binding site [chemical binding]; other site 935599005162 Q-loop/lid; other site 935599005163 ABC transporter signature motif; other site 935599005164 Walker B; other site 935599005165 D-loop; other site 935599005166 H-loop/switch region; other site 935599005167 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 935599005168 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 935599005169 NAD binding site [chemical binding]; other site 935599005170 catalytic residues [active] 935599005171 substrate binding site [chemical binding]; other site 935599005172 aminodeoxychorismate synthase; Provisional; Region: PRK07508 935599005173 chorismate binding enzyme; Region: Chorismate_bind; cl10555 935599005174 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 935599005175 homodimer interface [polypeptide binding]; other site 935599005176 substrate-cofactor binding pocket; other site 935599005177 Aminotransferase class IV; Region: Aminotran_4; pfam01063 935599005178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935599005179 catalytic residue [active] 935599005180 Protein of unknown function (DUF560); Region: DUF560; pfam04575 935599005181 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 935599005182 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 935599005183 N-terminal plug; other site 935599005184 ligand-binding site [chemical binding]; other site 935599005185 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 935599005186 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 935599005187 ring oligomerisation interface [polypeptide binding]; other site 935599005188 ATP/Mg binding site [chemical binding]; other site 935599005189 stacking interactions; other site 935599005190 hinge regions; other site 935599005191 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 935599005192 oligomerisation interface [polypeptide binding]; other site 935599005193 mobile loop; other site 935599005194 roof hairpin; other site 935599005195 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935599005196 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 935599005197 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 935599005198 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 935599005199 Na2 binding site [ion binding]; other site 935599005200 putative substrate binding site 1 [chemical binding]; other site 935599005201 Na binding site 1 [ion binding]; other site 935599005202 putative substrate binding site 2 [chemical binding]; other site 935599005203 diaminopimelate decarboxylase; Region: lysA; TIGR01048 935599005204 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 935599005205 active site 935599005206 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935599005207 substrate binding site [chemical binding]; other site 935599005208 catalytic residues [active] 935599005209 dimer interface [polypeptide binding]; other site 935599005210 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 935599005211 putative iron binding site [ion binding]; other site 935599005212 S-ribosylhomocysteinase; Provisional; Region: PRK02260 935599005213 DNA polymerase I; Provisional; Region: PRK05755 935599005214 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 935599005215 active site 935599005216 metal binding site 1 [ion binding]; metal-binding site 935599005217 putative 5' ssDNA interaction site; other site 935599005218 metal binding site 3; metal-binding site 935599005219 metal binding site 2 [ion binding]; metal-binding site 935599005220 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 935599005221 putative DNA binding site [nucleotide binding]; other site 935599005222 putative metal binding site [ion binding]; other site 935599005223 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 935599005224 active site 935599005225 catalytic site [active] 935599005226 substrate binding site [chemical binding]; other site 935599005227 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 935599005228 active site 935599005229 DNA binding site [nucleotide binding] 935599005230 catalytic site [active] 935599005231 Fic/DOC family; Region: Fic; pfam02661 935599005232 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 935599005233 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 935599005234 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 935599005235 Autotransporter beta-domain; Region: Autotransporter; pfam03797 935599005236 Predicted membrane protein [Function unknown]; Region: COG5346 935599005237 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 935599005238 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 935599005239 trmE is a tRNA modification GTPase; Region: trmE; cd04164 935599005240 G1 box; other site 935599005241 GTP/Mg2+ binding site [chemical binding]; other site 935599005242 Switch I region; other site 935599005243 G2 box; other site 935599005244 Switch II region; other site 935599005245 G3 box; other site 935599005246 G4 box; other site 935599005247 G5 box; other site 935599005248 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 935599005249 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 935599005250 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 935599005251 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 935599005252 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 935599005253 putative ligand binding residues [chemical binding]; other site 935599005254 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935599005255 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 935599005256 ABC-ATPase subunit interface; other site 935599005257 dimer interface [polypeptide binding]; other site 935599005258 putative PBP binding regions; other site 935599005259 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 935599005260 ABC-ATPase subunit interface; other site 935599005261 dimer interface [polypeptide binding]; other site 935599005262 putative PBP binding regions; other site 935599005263 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 935599005264 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 935599005265 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935599005266 Walker A/P-loop; other site 935599005267 ATP binding site [chemical binding]; other site 935599005268 Q-loop/lid; other site 935599005269 ABC transporter signature motif; other site 935599005270 Walker B; other site 935599005271 D-loop; other site 935599005272 H-loop/switch region; other site 935599005273 YadA-like C-terminal region; Region: YadA; pfam03895 935599005274 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 935599005275 Nitrogen regulatory protein P-II; Region: P-II; smart00938 935599005276 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 935599005277 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 935599005278 dimerization interface [polypeptide binding]; other site 935599005279 ATP binding site [chemical binding]; other site 935599005280 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 935599005281 dimerization interface [polypeptide binding]; other site 935599005282 ATP binding site [chemical binding]; other site 935599005283 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 935599005284 putative active site [active] 935599005285 catalytic triad [active] 935599005286 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 935599005287 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 935599005288 MgtE intracellular N domain; Region: MgtE_N; smart00924 935599005289 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 935599005290 Divalent cation transporter; Region: MgtE; cl00786 935599005291 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 935599005292 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 935599005293 dimerization interface [polypeptide binding]; other site 935599005294 domain crossover interface; other site 935599005295 redox-dependent activation switch; other site 935599005296 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935599005297 NlpC/P60 family; Region: NLPC_P60; pfam00877 935599005298 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 935599005299 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 935599005300 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 935599005301 heterotetramer interface [polypeptide binding]; other site 935599005302 active site pocket [active] 935599005303 cleavage site 935599005304 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 935599005305 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 935599005306 putative ion selectivity filter; other site 935599005307 putative pore gating glutamate residue; other site 935599005308 putative H+/Cl- coupling transport residue; other site 935599005309 DEAD-like helicases superfamily; Region: DEXDc; smart00487 935599005310 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 935599005311 ATP binding site [chemical binding]; other site 935599005312 putative Mg++ binding site [ion binding]; other site 935599005313 nucleotide binding region [chemical binding]; other site 935599005314 helicase superfamily c-terminal domain; Region: HELICc; smart00490 935599005315 ATP-binding site [chemical binding]; other site 935599005316 AAA domain; Region: AAA_21; pfam13304 935599005317 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935599005318 ABC transporter signature motif; other site 935599005319 Walker B; other site 935599005320 D-loop; other site 935599005321 H-loop/switch region; other site 935599005322 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 935599005323 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 935599005324 Sulfatase; Region: Sulfatase; pfam00884 935599005325 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 935599005326 Helicase associated domain (HA2); Region: HA2; pfam04408 935599005327 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 935599005328 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 935599005329 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 935599005330 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 935599005331 mismatch recognition site; other site 935599005332 additional DNA contacts [nucleotide binding]; other site 935599005333 active site 935599005334 zinc binding site [ion binding]; other site 935599005335 DNA intercalation site [nucleotide binding]; other site 935599005336 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 935599005337 Mg2+ binding site [ion binding]; other site 935599005338 G-X-G motif; other site 935599005339 TIGR02391 family protein; Region: hypoth_ymh 935599005340 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935599005341 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 935599005342 cofactor binding site; other site 935599005343 DNA binding site [nucleotide binding] 935599005344 substrate interaction site [chemical binding]; other site 935599005345 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 935599005346 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935599005347 Helix-turn-helix domain; Region: HTH_38; pfam13936 935599005348 Homeodomain-like domain; Region: HTH_32; pfam13565 935599005349 Integrase core domain; Region: rve; pfam00665 935599005350 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 935599005351 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 935599005352 Helix-hairpin-helix motif; Region: HHH; pfam00633 935599005353 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935599005354 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935599005355 active site 935599005356 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 935599005357 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 935599005358 active site 935599005359 (T/H)XGH motif; other site 935599005360 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 935599005361 YccA-like proteins; Region: YccA_like; cd10433 935599005362 oxidative damage protection protein; Provisional; Region: PRK05408 935599005363 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 935599005364 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 935599005365 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 935599005366 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 935599005367 active site 935599005368 (T/H)XGH motif; other site 935599005369 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 935599005370 active site clefts [active] 935599005371 zinc binding site [ion binding]; other site 935599005372 dimer interface [polypeptide binding]; other site 935599005373 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 935599005374 fructuronate transporter; Provisional; Region: PRK10034; cl15264 935599005375 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 935599005376 ATP-binding site [chemical binding]; other site 935599005377 Gluconate-6-phosphate binding site [chemical binding]; other site 935599005378 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 935599005379 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 935599005380 putative active site [active] 935599005381 putative substrate binding site [chemical binding]; other site 935599005382 ATP binding site [chemical binding]; other site 935599005383 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 935599005384 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 935599005385 S-adenosylmethionine binding site [chemical binding]; other site 935599005386 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 935599005387 aromatic amino acid transport protein; Region: araaP; TIGR00837 935599005388 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 935599005389 Sulfatase; Region: Sulfatase; cl17466 935599005390 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 935599005391 putative trimer interface [polypeptide binding]; other site 935599005392 putative CoA binding site [chemical binding]; other site 935599005393 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 935599005394 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 935599005395 active site 935599005396 motif I; other site 935599005397 motif II; other site 935599005398 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 935599005399 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 935599005400 putative acyl-acceptor binding pocket; other site 935599005401 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 935599005402 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 935599005403 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 935599005404 dimerization interface 3.5A [polypeptide binding]; other site 935599005405 active site 935599005406 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 935599005407 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 935599005408 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 935599005409 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 935599005410 trimer interface [polypeptide binding]; other site 935599005411 eyelet of channel; other site 935599005412 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 935599005413 ThiC-associated domain; Region: ThiC-associated; pfam13667 935599005414 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 935599005415 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 935599005416 nudix motif; other site 935599005417 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 935599005418 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 935599005419 Walker A/P-loop; other site 935599005420 ATP binding site [chemical binding]; other site 935599005421 Q-loop/lid; other site 935599005422 ABC transporter signature motif; other site 935599005423 Walker B; other site 935599005424 D-loop; other site 935599005425 H-loop/switch region; other site 935599005426 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 935599005427 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 935599005428 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 935599005429 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 935599005430 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 935599005431 dimerization domain swap beta strand [polypeptide binding]; other site 935599005432 regulatory protein interface [polypeptide binding]; other site 935599005433 active site 935599005434 regulatory phosphorylation site [posttranslational modification]; other site 935599005435 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 935599005436 active pocket/dimerization site; other site 935599005437 active site 935599005438 phosphorylation site [posttranslational modification] 935599005439 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935599005440 active site 935599005441 DNA ligase; Provisional; Region: PRK09125 935599005442 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 935599005443 DNA binding site [nucleotide binding] 935599005444 active site 935599005445 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 935599005446 DNA binding site [nucleotide binding] 935599005447 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 935599005448 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 935599005449 RmuC family; Region: RmuC; pfam02646 935599005450 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 935599005451 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 935599005452 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 935599005453 Qi binding site; other site 935599005454 intrachain domain interface; other site 935599005455 interchain domain interface [polypeptide binding]; other site 935599005456 heme bH binding site [chemical binding]; other site 935599005457 heme bL binding site [chemical binding]; other site 935599005458 Qo binding site; other site 935599005459 interchain domain interface [polypeptide binding]; other site 935599005460 intrachain domain interface; other site 935599005461 Qi binding site; other site 935599005462 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 935599005463 Qo binding site; other site 935599005464 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 935599005465 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 935599005466 [2Fe-2S] cluster binding site [ion binding]; other site 935599005467 Uncharacterized conserved protein [Function unknown]; Region: COG0327 935599005468 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 935599005469 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 935599005470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935599005471 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 935599005472 putative dimerization interface [polypeptide binding]; other site 935599005473 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 935599005474 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 935599005475 23S rRNA interface [nucleotide binding]; other site 935599005476 L3 interface [polypeptide binding]; other site 935599005477 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 935599005478 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 935599005479 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 935599005480 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 935599005481 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 935599005482 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 935599005483 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 935599005484 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 935599005485 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 935599005486 ATP binding site [chemical binding]; other site 935599005487 substrate interface [chemical binding]; other site 935599005488 hypothetical protein; Provisional; Region: PRK04325 935599005489 Predicted permease [General function prediction only]; Region: COG2056 935599005490 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 935599005491 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 935599005492 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 935599005493 S-adenosylmethionine binding site [chemical binding]; other site 935599005494 protease TldD; Provisional; Region: tldD; PRK10735 935599005495 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 935599005496 Na binding site [ion binding]; other site 935599005497 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 935599005498 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 935599005499 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 935599005500 thiamine phosphate binding site [chemical binding]; other site 935599005501 active site 935599005502 pyrophosphate binding site [ion binding]; other site 935599005503 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 935599005504 thiS-thiF/thiG interaction site; other site 935599005505 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 935599005506 ThiS interaction site; other site 935599005507 putative active site [active] 935599005508 tetramer interface [polypeptide binding]; other site 935599005509 Sporulation related domain; Region: SPOR; pfam05036 935599005510 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 935599005511 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 935599005512 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 935599005513 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 935599005514 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 935599005515 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 935599005516 active site 935599005517 HIGH motif; other site 935599005518 nucleotide binding site [chemical binding]; other site 935599005519 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 935599005520 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 935599005521 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 935599005522 homodimer interface [polypeptide binding]; other site 935599005523 NADP binding site [chemical binding]; other site 935599005524 substrate binding site [chemical binding]; other site 935599005525 RDD family; Region: RDD; pfam06271 935599005526 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 935599005527 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 935599005528 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 935599005529 putative active site [active] 935599005530 putative catalytic site [active] 935599005531 putative DNA binding site [nucleotide binding]; other site 935599005532 putative phosphate binding site [ion binding]; other site 935599005533 metal binding site A [ion binding]; metal-binding site 935599005534 putative AP binding site [nucleotide binding]; other site 935599005535 putative metal binding site B [ion binding]; other site 935599005536 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 935599005537 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 935599005538 active site 935599005539 HIGH motif; other site 935599005540 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 935599005541 KMSKS motif; other site 935599005542 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 935599005543 tRNA binding surface [nucleotide binding]; other site 935599005544 anticodon binding site; other site 935599005545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935599005546 AAA domain; Region: AAA_21; pfam13304 935599005547 Walker A/P-loop; other site 935599005548 ATP binding site [chemical binding]; other site 935599005549 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935599005550 ABC transporter signature motif; other site 935599005551 Walker B; other site 935599005552 D-loop; other site 935599005553 H-loop/switch region; other site 935599005554 GTPase CgtA; Reviewed; Region: obgE; PRK12299 935599005555 GTP1/OBG; Region: GTP1_OBG; pfam01018 935599005556 Obg GTPase; Region: Obg; cd01898 935599005557 G1 box; other site 935599005558 GTP/Mg2+ binding site [chemical binding]; other site 935599005559 Switch I region; other site 935599005560 G2 box; other site 935599005561 G3 box; other site 935599005562 Switch II region; other site 935599005563 G4 box; other site 935599005564 G5 box; other site 935599005565 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 935599005566 Predicted methyltransferases [General function prediction only]; Region: COG0313 935599005567 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 935599005568 putative SAM binding site [chemical binding]; other site 935599005569 putative homodimer interface [polypeptide binding]; other site 935599005570 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 935599005571 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 935599005572 dimer interface [polypeptide binding]; other site 935599005573 active site 935599005574 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 935599005575 BON domain; Region: BON; pfam04972 935599005576 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 935599005577 active site 935599005578 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 935599005579 non-specific DNA binding site [nucleotide binding]; other site 935599005580 salt bridge; other site 935599005581 sequence-specific DNA binding site [nucleotide binding]; other site 935599005582 malate:quinone oxidoreductase; Validated; Region: PRK05257 935599005583 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 935599005584 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935599005585 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 935599005586 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 935599005587 rRNA interaction site [nucleotide binding]; other site 935599005588 S8 interaction site; other site 935599005589 putative laminin-1 binding site; other site 935599005590 elongation factor Ts; Provisional; Region: tsf; PRK09377 935599005591 UBA/TS-N domain; Region: UBA; pfam00627 935599005592 Elongation factor TS; Region: EF_TS; pfam00889 935599005593 Elongation factor TS; Region: EF_TS; pfam00889 935599005594 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 935599005595 putative nucleotide binding site [chemical binding]; other site 935599005596 uridine monophosphate binding site [chemical binding]; other site 935599005597 homohexameric interface [polypeptide binding]; other site 935599005598 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935599005599 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 935599005600 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 935599005601 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935599005602 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 935599005603 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 935599005604 tandem repeat interface [polypeptide binding]; other site 935599005605 oligomer interface [polypeptide binding]; other site 935599005606 active site residues [active] 935599005607 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 935599005608 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 935599005609 putative MPT binding site; other site 935599005610 argininosuccinate synthase; Validated; Region: PRK05370 935599005611 argininosuccinate synthase; Provisional; Region: PRK13820 935599005612 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 935599005613 serine/threonine transporter SstT; Provisional; Region: PRK13628 935599005614 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 935599005615 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 935599005616 Surface antigen; Region: Bac_surface_Ag; pfam01103 935599005617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 935599005618 Family of unknown function (DUF490); Region: DUF490; pfam04357 935599005619 Family of unknown function (DUF490); Region: DUF490; pfam04357 935599005620 Family of unknown function (DUF490); Region: DUF490; pfam04357 935599005621 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 935599005622 POT family; Region: PTR2; cl17359 935599005623 peptide chain release factor 2; Validated; Region: prfB; PRK00578 935599005624 This domain is found in peptide chain release factors; Region: PCRF; smart00937 935599005625 RF-1 domain; Region: RF-1; pfam00472 935599005626 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 935599005627 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 935599005628 active site 935599005629 nucleophile elbow; other site 935599005630 Predicted membrane protein [Function unknown]; Region: COG2259 935599005631 Protein of unknown function (DUF692); Region: DUF692; pfam05114 935599005632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 935599005633 RNA polymerase sigma factor; Provisional; Region: PRK12532 935599005634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935599005635 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 935599005636 DNA binding residues [nucleotide binding] 935599005637 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 935599005638 Helix-turn-helix domain; Region: HTH_38; pfam13936 935599005639 Homeodomain-like domain; Region: HTH_32; pfam13565 935599005640 Integrase core domain; Region: rve; pfam00665 935599005641 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 935599005642 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 935599005643 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 935599005644 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 935599005645 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 935599005646 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 935599005647 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 935599005648 Uncharacterized conserved protein [Function unknown]; Region: COG1739 935599005649 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 935599005650 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 935599005651 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 935599005652 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 935599005653 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 935599005654 Ligand binding site [chemical binding]; other site 935599005655 Electron transfer flavoprotein domain; Region: ETF; pfam01012 935599005656 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 935599005657 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 935599005658 putative active site [active] 935599005659 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 935599005660 Isochorismatase family; Region: Isochorismatase; pfam00857 935599005661 catalytic triad [active] 935599005662 metal binding site [ion binding]; metal-binding site 935599005663 conserved cis-peptide bond; other site 935599005664 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 935599005665 homodimer interaction site [polypeptide binding]; other site 935599005666 cofactor binding site; other site 935599005667 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 935599005668 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 935599005669 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 935599005670 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 935599005671 MutS domain I; Region: MutS_I; pfam01624 935599005672 MutS domain II; Region: MutS_II; pfam05188 935599005673 MutS domain III; Region: MutS_III; pfam05192 935599005674 MutS domain V; Region: MutS_V; pfam00488 935599005675 Walker A/P-loop; other site 935599005676 ATP binding site [chemical binding]; other site 935599005677 Q-loop/lid; other site 935599005678 ABC transporter signature motif; other site 935599005679 Walker B; other site 935599005680 D-loop; other site 935599005681 H-loop/switch region; other site