-- dump date 20140619_163742 -- class Genbank::misc_feature -- table misc_feature_note -- id note 942513000001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 942513000002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 942513000003 Coenzyme A binding pocket [chemical binding]; other site 942513000004 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 942513000005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 942513000006 active site 942513000007 HIGH motif; other site 942513000008 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 942513000009 active site 942513000010 KMSKS motif; other site 942513000011 Uncharacterized conserved protein [Function unknown]; Region: COG1434 942513000012 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 942513000013 putative active site [active] 942513000014 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 942513000015 ArsC family; Region: ArsC; pfam03960 942513000016 catalytic residues [active] 942513000017 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 942513000018 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 942513000019 catalytic residues [active] 942513000020 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 942513000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 942513000022 Walker A/P-loop; other site 942513000023 ATP binding site [chemical binding]; other site 942513000024 Q-loop/lid; other site 942513000025 ABC transporter signature motif; other site 942513000026 Walker B; other site 942513000027 D-loop; other site 942513000028 H-loop/switch region; other site 942513000029 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 942513000030 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 942513000031 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 942513000032 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 942513000033 Phosphoglycerate kinase; Region: PGK; pfam00162 942513000034 substrate binding site [chemical binding]; other site 942513000035 hinge regions; other site 942513000036 ADP binding site [chemical binding]; other site 942513000037 catalytic site [active] 942513000038 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 942513000039 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 942513000040 hinge; other site 942513000041 active site 942513000042 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 942513000043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 942513000044 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 942513000045 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 942513000046 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 942513000047 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 942513000048 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 942513000049 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 942513000050 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 942513000051 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 942513000055 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 942513000056 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 942513000057 Predicted membrane protein [Function unknown]; Region: COG3205 942513000058 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 942513000059 glycerate dehydrogenase; Provisional; Region: PRK06487 942513000060 putative ligand binding site [chemical binding]; other site 942513000061 putative NAD binding site [chemical binding]; other site 942513000062 catalytic site [active] 942513000063 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 942513000064 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 942513000065 active site 942513000066 HIGH motif; other site 942513000067 KMSKS motif; other site 942513000068 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 942513000069 tRNA binding surface [nucleotide binding]; other site 942513000070 anticodon binding site; other site 942513000071 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 942513000072 dimer interface [polypeptide binding]; other site 942513000073 putative tRNA-binding site [nucleotide binding]; other site 942513000074 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 942513000075 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 942513000076 glutaminase active site [active] 942513000077 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 942513000078 dimer interface [polypeptide binding]; other site 942513000079 active site 942513000080 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 942513000081 dimer interface [polypeptide binding]; other site 942513000082 active site 942513000083 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 942513000084 MltA specific insert domain; Region: MltA; pfam03562 942513000085 3D domain; Region: 3D; pfam06725 942513000086 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 942513000087 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 942513000088 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 942513000089 Imelysin; Region: Peptidase_M75; pfam09375 942513000090 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 942513000091 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 942513000092 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 942513000093 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 942513000094 PhnA protein; Region: PhnA; pfam03831 942513000095 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 942513000096 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 942513000097 Substrate binding site; other site 942513000098 Mg++ binding site; other site 942513000099 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 942513000100 active site 942513000101 substrate binding site [chemical binding]; other site 942513000102 CoA binding site [chemical binding]; other site 942513000104 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 942513000105 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 942513000106 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 942513000107 Conserved TM helix; Region: TM_helix; pfam05552 942513000108 Mechanosensitive ion channel; Region: MS_channel; pfam00924 942513000109 Competence-damaged protein; Region: CinA; pfam02464 942513000110 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 942513000111 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 942513000112 catalytic residues [active] 942513000113 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 942513000114 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 942513000115 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 942513000116 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 942513000117 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 942513000118 P loop; other site 942513000119 GTP binding site [chemical binding]; other site 942513000120 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 942513000121 GIY-YIG motif/motif A; other site 942513000122 putative active site [active] 942513000123 putative metal binding site [ion binding]; other site 942513000124 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 942513000125 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 942513000126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 942513000127 Family of unknown function (DUF490); Region: DUF490; pfam04357 942513000128 Family of unknown function (DUF490); Region: DUF490; pfam04357 942513000129 Family of unknown function (DUF490); Region: DUF490; pfam04357 942513000130 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 942513000131 Surface antigen; Region: Bac_surface_Ag; pfam01103 942513000133 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 942513000134 argininosuccinate synthase; Validated; Region: PRK05370 942513000135 argininosuccinate synthase; Provisional; Region: PRK13820 942513000136 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 942513000137 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 942513000138 putative MPT binding site; other site 942513000139 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 942513000140 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 942513000141 tandem repeat interface [polypeptide binding]; other site 942513000142 oligomer interface [polypeptide binding]; other site 942513000143 active site residues [active] 942513000145 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 942513000149 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 942513000151 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 942513000152 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 942513000153 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 942513000154 putative nucleotide binding site [chemical binding]; other site 942513000155 uridine monophosphate binding site [chemical binding]; other site 942513000156 homohexameric interface [polypeptide binding]; other site 942513000157 elongation factor Ts; Provisional; Region: tsf; PRK09377 942513000158 UBA/TS-N domain; Region: UBA; pfam00627 942513000159 Elongation factor TS; Region: EF_TS; pfam00889 942513000160 Elongation factor TS; Region: EF_TS; pfam00889 942513000161 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 942513000162 rRNA interaction site [nucleotide binding]; other site 942513000163 S8 interaction site; other site 942513000164 putative laminin-1 binding site; other site 942513000165 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 942513000166 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 942513000167 malate:quinone oxidoreductase; Validated; Region: PRK05257 942513000168 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 942513000169 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 942513000170 non-specific DNA binding site [nucleotide binding]; other site 942513000171 salt bridge; other site 942513000172 sequence-specific DNA binding site [nucleotide binding]; other site 942513000173 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 942513000174 active site 942513000175 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 942513000176 BON domain; Region: BON; pfam04972 942513000177 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 942513000178 dimer interface [polypeptide binding]; other site 942513000179 active site 942513000180 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 942513000181 Predicted methyltransferases [General function prediction only]; Region: COG0313 942513000182 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 942513000183 putative SAM binding site [chemical binding]; other site 942513000184 putative homodimer interface [polypeptide binding]; other site 942513000187 GTPase CgtA; Reviewed; Region: obgE; PRK12299 942513000188 GTP1/OBG; Region: GTP1_OBG; pfam01018 942513000189 Obg GTPase; Region: Obg; cd01898 942513000190 G1 box; other site 942513000191 GTP/Mg2+ binding site [chemical binding]; other site 942513000192 Switch I region; other site 942513000193 G2 box; other site 942513000194 G3 box; other site 942513000195 Switch II region; other site 942513000196 G4 box; other site 942513000197 G5 box; other site 942513000198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 942513000199 AAA domain; Region: AAA_21; pfam13304 942513000200 Walker A/P-loop; other site 942513000201 ATP binding site [chemical binding]; other site 942513000202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 942513000203 ABC transporter signature motif; other site 942513000204 Walker B; other site 942513000205 D-loop; other site 942513000206 H-loop/switch region; other site 942513000207 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 942513000208 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 942513000209 active site 942513000210 HIGH motif; other site 942513000211 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 942513000212 KMSKS motif; other site 942513000213 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 942513000214 tRNA binding surface [nucleotide binding]; other site 942513000215 anticodon binding site; other site 942513000216 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 942513000217 putative active site [active] 942513000218 putative catalytic site [active] 942513000219 putative DNA binding site [nucleotide binding]; other site 942513000220 putative phosphate binding site [ion binding]; other site 942513000221 metal binding site A [ion binding]; metal-binding site 942513000222 putative AP binding site [nucleotide binding]; other site 942513000223 putative metal binding site B [ion binding]; other site 942513000224 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 942513000225 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 942513000226 RDD family; Region: RDD; pfam06271 942513000227 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 942513000228 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 942513000229 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 942513000230 homodimer interface [polypeptide binding]; other site 942513000231 NADP binding site [chemical binding]; other site 942513000232 substrate binding site [chemical binding]; other site 942513000233 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 942513000234 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 942513000235 active site 942513000236 HIGH motif; other site 942513000237 nucleotide binding site [chemical binding]; other site 942513000238 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 942513000239 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 942513000240 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 942513000241 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 942513000242 Sporulation related domain; Region: SPOR; pfam05036 942513000243 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 942513000244 ThiS interaction site; other site 942513000245 putative active site [active] 942513000246 tetramer interface [polypeptide binding]; other site 942513000247 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513000248 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513000249 Homeodomain-like domain; Region: HTH_32; pfam13565 942513000250 Integrase core domain; Region: rve; pfam00665 942513000251 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 942513000252 thiS-thiF/thiG interaction site; other site 942513000253 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 942513000254 thiamine phosphate binding site [chemical binding]; other site 942513000255 active site 942513000256 pyrophosphate binding site [ion binding]; other site 942513000257 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 942513000258 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 942513000259 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 942513000260 Na binding site [ion binding]; other site 942513000261 protease TldD; Provisional; Region: tldD; PRK10735 942513000263 Predicted permease [General function prediction only]; Region: COG2056 942513000264 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 942513000265 hypothetical protein; Provisional; Region: PRK04325 942513000266 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 942513000267 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 942513000268 ATP binding site [chemical binding]; other site 942513000269 substrate interface [chemical binding]; other site 942513000270 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 942513000271 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 942513000272 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 942513000273 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 942513000274 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 942513000275 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 942513000276 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 942513000277 23S rRNA interface [nucleotide binding]; other site 942513000278 L3 interface [polypeptide binding]; other site 942513000279 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 942513000280 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 942513000281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 942513000282 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 942513000283 putative dimerization interface [polypeptide binding]; other site 942513000284 Uncharacterized conserved protein [Function unknown]; Region: COG0327 942513000285 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 942513000286 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 942513000287 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 942513000288 [2Fe-2S] cluster binding site [ion binding]; other site 942513000289 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 942513000290 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 942513000291 Qi binding site; other site 942513000292 intrachain domain interface; other site 942513000293 interchain domain interface [polypeptide binding]; other site 942513000294 heme bH binding site [chemical binding]; other site 942513000295 heme bL binding site [chemical binding]; other site 942513000296 Qo binding site; other site 942513000297 interchain domain interface [polypeptide binding]; other site 942513000298 intrachain domain interface; other site 942513000299 Qi binding site; other site 942513000300 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 942513000301 Qo binding site; other site 942513000302 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 942513000303 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 942513000304 RmuC family; Region: RmuC; pfam02646 942513000305 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 942513000306 DNA ligase; Provisional; Region: PRK09125 942513000307 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 942513000308 DNA binding site [nucleotide binding] 942513000309 active site 942513000310 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 942513000311 DNA binding site [nucleotide binding] 942513000312 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 942513000313 active site 942513000314 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 942513000315 active pocket/dimerization site; other site 942513000316 active site 942513000317 phosphorylation site [posttranslational modification] 942513000318 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 942513000319 dimerization domain swap beta strand [polypeptide binding]; other site 942513000320 regulatory protein interface [polypeptide binding]; other site 942513000321 active site 942513000322 regulatory phosphorylation site [posttranslational modification]; other site 942513000323 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 942513000324 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 942513000325 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 942513000326 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 942513000327 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 942513000328 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 942513000329 Walker A/P-loop; other site 942513000330 ATP binding site [chemical binding]; other site 942513000331 Q-loop/lid; other site 942513000332 ABC transporter signature motif; other site 942513000333 Walker B; other site 942513000334 D-loop; other site 942513000335 H-loop/switch region; other site 942513000336 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 942513000337 nudix motif; other site 942513000338 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 942513000339 ThiC-associated domain; Region: ThiC-associated; pfam13667 942513000340 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 942513000341 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 942513000342 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 942513000343 trimer interface [polypeptide binding]; other site 942513000344 eyelet of channel; other site 942513000345 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 942513000346 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 942513000347 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 942513000348 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 942513000349 dimerization interface 3.5A [polypeptide binding]; other site 942513000350 active site 942513000351 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 942513000352 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 942513000353 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 942513000354 putative acyl-acceptor binding pocket; other site 942513000355 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 942513000356 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 942513000357 active site 942513000358 motif I; other site 942513000359 motif II; other site 942513000360 putative acyl transferase; Provisional; Region: PRK10502 942513000361 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 942513000362 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 942513000363 Sulfatase; Region: Sulfatase; cl17466 942513000365 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 942513000366 aromatic amino acid transport protein; Region: araaP; TIGR00837 942513000367 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 942513000368 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 942513000369 S-adenosylmethionine binding site [chemical binding]; other site 942513000370 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 942513000371 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 942513000372 putative active site [active] 942513000373 putative substrate binding site [chemical binding]; other site 942513000374 ATP binding site [chemical binding]; other site 942513000375 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 942513000376 ATP-binding site [chemical binding]; other site 942513000377 Gluconate-6-phosphate binding site [chemical binding]; other site 942513000378 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 942513000379 fructuronate transporter; Provisional; Region: PRK10034; cl15264 942513000380 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 942513000381 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 942513000382 dimer interface [polypeptide binding]; other site 942513000383 conserved gate region; other site 942513000384 ABC-ATPase subunit interface; other site 942513000385 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 942513000386 dimer interface [polypeptide binding]; other site 942513000387 ABC-ATPase subunit interface; other site 942513000388 putative PBP binding loops; other site 942513000389 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 942513000390 active site clefts [active] 942513000391 zinc binding site [ion binding]; other site 942513000392 dimer interface [polypeptide binding]; other site 942513000393 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 942513000394 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 942513000395 active site 942513000396 (T/H)XGH motif; other site 942513000397 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 942513000398 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 942513000399 oxidative damage protection protein; Provisional; Region: PRK05408 942513000400 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 942513000401 YccA-like proteins; Region: YccA_like; cd10433 942513000402 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 942513000403 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 942513000404 active site 942513000405 (T/H)XGH motif; other site 942513000406 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 942513000407 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 942513000408 active site 942513000409 comEA protein; Region: comE; TIGR01259 942513000410 Helix-hairpin-helix motif; Region: HHH; pfam00633 942513000411 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 942513000412 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 942513000413 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 942513000414 cofactor binding site; other site 942513000415 DNA binding site [nucleotide binding] 942513000416 substrate interaction site [chemical binding]; other site 942513000417 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 942513000418 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 942513000419 Mg2+ binding site [ion binding]; other site 942513000420 G-X-G motif; other site 942513000421 TIGR02391 family protein; Region: hypoth_ymh 942513000422 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 942513000423 additional DNA contacts [nucleotide binding]; other site 942513000424 mismatch recognition site; other site 942513000425 active site 942513000426 zinc binding site [ion binding]; other site 942513000427 DNA intercalation site [nucleotide binding]; other site 942513000429 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 942513000430 Sulfatase; Region: Sulfatase; pfam00884 942513000432 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 942513000433 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 942513000434 putative ion selectivity filter; other site 942513000435 putative pore gating glutamate residue; other site 942513000436 putative H+/Cl- coupling transport residue; other site 942513000437 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 942513000438 heterotetramer interface [polypeptide binding]; other site 942513000439 active site pocket [active] 942513000440 cleavage site 942513000441 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 942513000442 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 942513000443 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 942513000444 NlpC/P60 family; Region: NLPC_P60; pfam00877 942513000445 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 942513000446 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 942513000447 dimerization interface [polypeptide binding]; other site 942513000448 domain crossover interface; other site 942513000449 redox-dependent activation switch; other site 942513000450 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 942513000451 MgtE intracellular N domain; Region: MgtE_N; smart00924 942513000452 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 942513000453 Divalent cation transporter; Region: MgtE; pfam01769 942513000454 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 942513000455 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 942513000456 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 942513000457 dimerization interface [polypeptide binding]; other site 942513000458 ATP binding site [chemical binding]; other site 942513000459 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 942513000460 dimerization interface [polypeptide binding]; other site 942513000461 ATP binding site [chemical binding]; other site 942513000462 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 942513000463 putative active site [active] 942513000464 catalytic triad [active] 942513000465 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 942513000466 Nitrogen regulatory protein P-II; Region: P-II; smart00938 942513000467 YadA-like C-terminal region; Region: YadA; pfam03895 942513000468 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 942513000469 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 942513000470 Walker A/P-loop; other site 942513000471 ATP binding site [chemical binding]; other site 942513000472 Q-loop/lid; other site 942513000473 ABC transporter signature motif; other site 942513000474 Walker B; other site 942513000475 D-loop; other site 942513000476 H-loop/switch region; other site 942513000477 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 942513000478 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 942513000479 ABC-ATPase subunit interface; other site 942513000480 dimer interface [polypeptide binding]; other site 942513000481 putative PBP binding regions; other site 942513000482 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 942513000483 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 942513000484 ABC-ATPase subunit interface; other site 942513000485 dimer interface [polypeptide binding]; other site 942513000486 putative PBP binding regions; other site 942513000487 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 942513000488 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 942513000489 putative ligand binding residues [chemical binding]; other site 942513000490 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 942513000491 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 942513000492 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 942513000493 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 942513000494 trmE is a tRNA modification GTPase; Region: trmE; cd04164 942513000495 G1 box; other site 942513000496 GTP/Mg2+ binding site [chemical binding]; other site 942513000497 Switch I region; other site 942513000498 G2 box; other site 942513000499 Switch II region; other site 942513000500 G3 box; other site 942513000501 G4 box; other site 942513000502 G5 box; other site 942513000503 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 942513000504 Predicted membrane protein [Function unknown]; Region: COG5346 942513000505 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 942513000506 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 942513000507 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 942513000508 Autotransporter beta-domain; Region: Autotransporter; pfam03797 942513000509 Transposase domain (DUF772); Region: DUF772; pfam05598 942513000510 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513000511 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 942513000512 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 942513000513 Fic/DOC family; Region: Fic; pfam02661 942513000515 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 942513000516 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 942513000517 DNA polymerase I; Provisional; Region: PRK05755 942513000518 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 942513000519 active site 942513000520 metal binding site 1 [ion binding]; metal-binding site 942513000521 putative 5' ssDNA interaction site; other site 942513000522 metal binding site 3; metal-binding site 942513000523 metal binding site 2 [ion binding]; metal-binding site 942513000524 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 942513000525 putative DNA binding site [nucleotide binding]; other site 942513000526 putative metal binding site [ion binding]; other site 942513000527 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 942513000528 active site 942513000529 catalytic site [active] 942513000530 substrate binding site [chemical binding]; other site 942513000531 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 942513000532 active site 942513000533 DNA binding site [nucleotide binding] 942513000534 catalytic site [active] 942513000535 S-ribosylhomocysteinase; Provisional; Region: PRK02260 942513000537 conserved hypothetical integral membrane protein; Region: TIGR00698 942513000538 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 942513000539 putative iron binding site [ion binding]; other site 942513000540 diaminopimelate decarboxylase; Region: lysA; TIGR01048 942513000541 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 942513000542 active site 942513000543 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 942513000544 substrate binding site [chemical binding]; other site 942513000545 catalytic residues [active] 942513000546 dimer interface [polypeptide binding]; other site 942513000547 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 942513000548 Na2 binding site [ion binding]; other site 942513000549 putative substrate binding site 1 [chemical binding]; other site 942513000550 Na binding site 1 [ion binding]; other site 942513000551 putative substrate binding site 2 [chemical binding]; other site 942513000552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 942513000553 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 942513000554 oligomerisation interface [polypeptide binding]; other site 942513000555 mobile loop; other site 942513000556 roof hairpin; other site 942513000557 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 942513000558 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 942513000559 ring oligomerisation interface [polypeptide binding]; other site 942513000560 ATP/Mg binding site [chemical binding]; other site 942513000561 stacking interactions; other site 942513000562 hinge regions; other site 942513000563 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 942513000564 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 942513000565 N-terminal plug; other site 942513000566 ligand-binding site [chemical binding]; other site 942513000567 Protein of unknown function (DUF560); Region: DUF560; pfam04575 942513000568 aminodeoxychorismate synthase; Provisional; Region: PRK07508 942513000569 chorismate binding enzyme; Region: Chorismate_bind; cl10555 942513000570 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 942513000571 homodimer interface [polypeptide binding]; other site 942513000572 substrate-cofactor binding pocket; other site 942513000573 Aminotransferase class IV; Region: Aminotran_4; pfam01063 942513000574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513000575 catalytic residue [active] 942513000577 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 942513000578 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 942513000579 NAD binding site [chemical binding]; other site 942513000580 catalytic residues [active] 942513000581 substrate binding site [chemical binding]; other site 942513000582 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 942513000583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 942513000584 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 942513000585 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 942513000586 Walker A/P-loop; other site 942513000587 ATP binding site [chemical binding]; other site 942513000588 Q-loop/lid; other site 942513000589 ABC transporter signature motif; other site 942513000590 Walker B; other site 942513000591 D-loop; other site 942513000592 H-loop/switch region; other site 942513000593 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 942513000594 Permease; Region: Permease; pfam02405 942513000595 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 942513000596 mce related protein; Region: MCE; pfam02470 942513000597 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 942513000598 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 942513000599 anti sigma factor interaction site; other site 942513000600 regulatory phosphorylation site [posttranslational modification]; other site 942513000601 VacJ like lipoprotein; Region: VacJ; cl01073 942513000602 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 942513000603 active site 942513000604 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 942513000605 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 942513000606 catalytic residues [active] 942513000607 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 942513000608 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 942513000609 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 942513000610 trimer interface [polypeptide binding]; other site 942513000611 active site 942513000612 substrate binding site [chemical binding]; other site 942513000613 CoA binding site [chemical binding]; other site 942513000614 ribosomal protein L31; Region: L31; TIGR00105 942513000615 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 942513000616 Cadmium resistance transporter; Region: Cad; pfam03596 942513000617 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 942513000618 stringent starvation protein A; Provisional; Region: sspA; PRK09481 942513000619 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 942513000620 C-terminal domain interface [polypeptide binding]; other site 942513000621 putative GSH binding site (G-site) [chemical binding]; other site 942513000622 dimer interface [polypeptide binding]; other site 942513000623 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 942513000624 dimer interface [polypeptide binding]; other site 942513000625 N-terminal domain interface [polypeptide binding]; other site 942513000626 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 942513000627 Uncharacterized conserved protein [Function unknown]; Region: COG1610 942513000628 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 942513000629 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 942513000630 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 942513000631 N-acetyl-D-glucosamine binding site [chemical binding]; other site 942513000632 catalytic residue [active] 942513000633 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 942513000634 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 942513000635 Walker A/P-loop; other site 942513000636 ATP binding site [chemical binding]; other site 942513000637 Q-loop/lid; other site 942513000638 ABC transporter signature motif; other site 942513000639 Walker B; other site 942513000640 D-loop; other site 942513000641 H-loop/switch region; other site 942513000642 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 942513000643 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 942513000644 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 942513000645 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 942513000646 Flavoprotein; Region: Flavoprotein; pfam02441 942513000647 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 942513000648 ParB-like nuclease domain; Region: ParBc; pfam02195 942513000649 KorB domain; Region: KorB; pfam08535 942513000650 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513000651 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513000652 Homeodomain-like domain; Region: HTH_32; pfam13565 942513000653 Integrase core domain; Region: rve; pfam00665 942513000654 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 942513000655 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 942513000656 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 942513000657 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 942513000658 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 942513000659 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 942513000660 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 942513000661 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 942513000662 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 942513000663 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 942513000664 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 942513000665 beta subunit interaction interface [polypeptide binding]; other site 942513000666 Walker A motif; other site 942513000667 ATP binding site [chemical binding]; other site 942513000668 Walker B motif; other site 942513000669 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 942513000670 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 942513000671 core domain interface [polypeptide binding]; other site 942513000672 delta subunit interface [polypeptide binding]; other site 942513000673 epsilon subunit interface [polypeptide binding]; other site 942513000674 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 942513000675 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 942513000676 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 942513000677 alpha subunit interaction interface [polypeptide binding]; other site 942513000678 Walker A motif; other site 942513000679 ATP binding site [chemical binding]; other site 942513000680 Walker B motif; other site 942513000681 inhibitor binding site; inhibition site 942513000682 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 942513000683 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 942513000684 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 942513000685 gamma subunit interface [polypeptide binding]; other site 942513000686 epsilon subunit interface [polypeptide binding]; other site 942513000687 LBP interface [polypeptide binding]; other site 942513000688 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 942513000689 dimer interface [polypeptide binding]; other site 942513000690 motif 1; other site 942513000691 active site 942513000692 motif 2; other site 942513000693 motif 3; other site 942513000694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3171 942513000695 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 942513000696 DALR anticodon binding domain; Region: DALR_1; pfam05746 942513000697 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 942513000698 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 942513000699 active site 942513000700 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 942513000701 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 942513000702 RNA methyltransferase, RsmE family; Region: TIGR00046 942513000703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 942513000704 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 942513000705 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 942513000706 active site 942513000707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 942513000708 SEC-C motif; Region: SEC-C; pfam02810 942513000709 Transposase domain (DUF772); Region: DUF772; pfam05598 942513000710 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513000711 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 942513000712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 942513000714 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 942513000715 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 942513000716 NAD(P) binding site [chemical binding]; other site 942513000717 homotetramer interface [polypeptide binding]; other site 942513000718 homodimer interface [polypeptide binding]; other site 942513000719 active site 942513000720 GMP synthase; Reviewed; Region: guaA; PRK00074 942513000721 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 942513000722 AMP/PPi binding site [chemical binding]; other site 942513000723 candidate oxyanion hole; other site 942513000724 catalytic triad [active] 942513000725 potential glutamine specificity residues [chemical binding]; other site 942513000726 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 942513000727 ATP Binding subdomain [chemical binding]; other site 942513000728 Ligand Binding sites [chemical binding]; other site 942513000729 Dimerization subdomain; other site 942513000730 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 942513000731 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 942513000732 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 942513000733 Walker A/P-loop; other site 942513000734 ATP binding site [chemical binding]; other site 942513000735 Q-loop/lid; other site 942513000736 ABC transporter signature motif; other site 942513000737 Walker B; other site 942513000738 D-loop; other site 942513000739 H-loop/switch region; other site 942513000740 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 942513000741 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 942513000742 Predicted membrane protein [Function unknown]; Region: COG3326 942513000743 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 942513000744 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 942513000745 dimer interface [polypeptide binding]; other site 942513000746 active site 942513000747 CoA binding pocket [chemical binding]; other site 942513000749 putative phosphate acyltransferase; Provisional; Region: PRK05331 942513000750 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 942513000751 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 942513000752 active site 942513000753 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 942513000754 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 942513000755 Maf-like protein; Region: Maf; pfam02545 942513000756 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 942513000757 active site 942513000758 dimer interface [polypeptide binding]; other site 942513000759 Predicted methyltransferases [General function prediction only]; Region: COG0313 942513000760 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 942513000761 putative SAM binding site [chemical binding]; other site 942513000762 homodimer interface [polypeptide binding]; other site 942513000763 membrane protein insertase; Provisional; Region: PRK01318 942513000764 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 942513000765 hypothetical protein; Provisional; Region: PRK14373 942513000766 ribonuclease P; Reviewed; Region: rnpA; PRK04390 942513000767 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 942513000768 DnaA N-terminal domain; Region: DnaA_N; pfam11638 942513000769 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 942513000770 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 942513000771 Walker A motif; other site 942513000772 ATP binding site [chemical binding]; other site 942513000773 Walker B motif; other site 942513000774 arginine finger; other site 942513000775 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 942513000776 DnaA box-binding interface [nucleotide binding]; other site 942513000777 DNA polymerase III subunit beta; Validated; Region: PRK05643 942513000778 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 942513000779 putative DNA binding surface [nucleotide binding]; other site 942513000780 dimer interface [polypeptide binding]; other site 942513000781 beta-clamp/clamp loader binding surface; other site 942513000782 beta-clamp/translesion DNA polymerase binding surface; other site 942513000783 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 942513000784 polyphosphate kinase; Provisional; Region: PRK05443 942513000785 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 942513000786 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 942513000787 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 942513000788 putative domain interface [polypeptide binding]; other site 942513000789 putative active site [active] 942513000790 catalytic site [active] 942513000791 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 942513000792 putative domain interface [polypeptide binding]; other site 942513000793 putative active site [active] 942513000794 catalytic site [active] 942513000795 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 942513000796 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 942513000797 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 942513000798 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 942513000799 HIGH motif; other site 942513000800 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 942513000801 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 942513000802 active site 942513000803 KMSKS motif; other site 942513000804 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 942513000805 tRNA binding surface [nucleotide binding]; other site 942513000806 Dam-replacing family; Region: DRP; pfam06044 942513000807 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 942513000808 Predicted transcriptional regulator [Transcription]; Region: COG2944 942513000809 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 942513000810 non-specific DNA binding site [nucleotide binding]; other site 942513000811 salt bridge; other site 942513000812 sequence-specific DNA binding site [nucleotide binding]; other site 942513000813 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 942513000814 triosephosphate isomerase; Provisional; Region: PRK14567 942513000815 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 942513000816 substrate binding site [chemical binding]; other site 942513000817 dimer interface [polypeptide binding]; other site 942513000818 catalytic triad [active] 942513000819 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 942513000820 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 942513000821 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 942513000822 S-adenosylmethionine binding site [chemical binding]; other site 942513000823 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 942513000824 active site residue [active] 942513000825 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 942513000826 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 942513000827 N-terminal plug; other site 942513000828 ligand-binding site [chemical binding]; other site 942513000829 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 942513000830 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 942513000831 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 942513000832 putative ligand binding residues [chemical binding]; other site 942513000833 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 942513000834 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 942513000835 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 942513000836 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 942513000837 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 942513000838 putative feedback inhibition sensing region; other site 942513000839 putative nucleotide binding site [chemical binding]; other site 942513000840 putative substrate binding site [chemical binding]; other site 942513000841 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 942513000842 Coenzyme A binding pocket [chemical binding]; other site 942513000843 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 942513000844 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 942513000845 active site 942513000846 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 942513000847 active site 942513000848 Fe-S cluster binding site [ion binding]; other site 942513000849 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 942513000850 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 942513000851 Coenzyme A binding pocket [chemical binding]; other site 942513000852 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 942513000853 Glycoprotease family; Region: Peptidase_M22; pfam00814 942513000854 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 942513000855 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 942513000856 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 942513000857 intersubunit interface [polypeptide binding]; other site 942513000858 active site 942513000859 zinc binding site [ion binding]; other site 942513000860 Na+ binding site [ion binding]; other site 942513000861 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 942513000862 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 942513000863 active site 942513000864 Int/Topo IB signature motif; other site 942513000865 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 942513000866 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 942513000867 TPP-binding site; other site 942513000868 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 942513000869 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 942513000870 PYR/PP interface [polypeptide binding]; other site 942513000871 dimer interface [polypeptide binding]; other site 942513000872 TPP binding site [chemical binding]; other site 942513000873 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 942513000874 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 942513000875 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 942513000876 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 942513000877 FeS/SAM binding site; other site 942513000878 TRAM domain; Region: TRAM; pfam01938 942513000879 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 942513000880 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 942513000881 inhibitor-cofactor binding pocket; inhibition site 942513000882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513000883 catalytic residue [active] 942513000884 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 942513000885 catalytic site [active] 942513000886 putative active site [active] 942513000887 putative substrate binding site [chemical binding]; other site 942513000888 dimer interface [polypeptide binding]; other site 942513000889 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 942513000890 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 942513000891 S-adenosylmethionine binding site [chemical binding]; other site 942513000892 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 942513000893 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 942513000894 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 942513000895 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 942513000896 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 942513000897 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 942513000898 carboxyltransferase (CT) interaction site; other site 942513000899 biotinylation site [posttranslational modification]; other site 942513000900 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 942513000901 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 942513000902 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 942513000903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 942513000904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 942513000905 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 942513000906 putative effector binding pocket; other site 942513000907 dimerization interface [polypeptide binding]; other site 942513000908 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 942513000909 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 942513000910 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 942513000911 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 942513000912 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 942513000913 ATP-grasp domain; Region: ATP-grasp_4; cl17255 942513000914 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 942513000915 IMP binding site; other site 942513000916 dimer interface [polypeptide binding]; other site 942513000917 interdomain contacts; other site 942513000918 partial ornithine binding site; other site 942513000919 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 942513000920 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 942513000921 active site 942513000922 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 942513000923 putative active site [active] 942513000925 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 942513000926 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 942513000927 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 942513000928 catalytic site [active] 942513000929 subunit interface [polypeptide binding]; other site 942513000930 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 942513000931 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 942513000932 antiporter inner membrane protein; Provisional; Region: PRK11670 942513000933 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 942513000934 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 942513000935 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 942513000936 catalytic residues [active] 942513000937 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 942513000938 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 942513000939 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 942513000940 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 942513000941 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 942513000942 Substrate binding site; other site 942513000943 metal-binding site 942513000944 Predicted membrane protein [Function unknown]; Region: COG2510 942513000945 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 942513000946 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 942513000947 Potassium binding sites [ion binding]; other site 942513000948 Cesium cation binding sites [ion binding]; other site 942513000949 GTP-binding protein YchF; Reviewed; Region: PRK09601 942513000950 YchF GTPase; Region: YchF; cd01900 942513000951 G1 box; other site 942513000952 GTP/Mg2+ binding site [chemical binding]; other site 942513000953 Switch I region; other site 942513000954 G2 box; other site 942513000955 Switch II region; other site 942513000956 G3 box; other site 942513000957 G4 box; other site 942513000958 G5 box; other site 942513000959 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 942513000960 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 942513000961 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 942513000962 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 942513000963 active site 942513000964 HIGH motif; other site 942513000965 dimer interface [polypeptide binding]; other site 942513000966 KMSKS motif; other site 942513000967 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 942513000968 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 942513000969 active site 942513000970 Riboflavin kinase; Region: Flavokinase; smart00904 942513000971 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 942513000972 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 942513000973 active site 942513000974 HIGH motif; other site 942513000975 nucleotide binding site [chemical binding]; other site 942513000976 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 942513000977 active site 942513000978 KMSKS motif; other site 942513000979 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 942513000980 tRNA binding surface [nucleotide binding]; other site 942513000981 anticodon binding site; other site 942513000982 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 942513000983 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 942513000984 lipoprotein signal peptidase; Provisional; Region: PRK14787 942513000985 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 942513000986 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 942513000990 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 942513000991 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 942513000992 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 942513000993 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 942513000994 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 942513000995 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 942513000996 putative active site [active] 942513000997 putative PHP Thumb interface [polypeptide binding]; other site 942513000998 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 942513000999 generic binding surface II; other site 942513001000 generic binding surface I; other site 942513001001 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 942513001002 RNA binding surface [nucleotide binding]; other site 942513001003 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 942513001004 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 942513001005 active site 942513001006 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 942513001007 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]; Region: COG3977 942513001008 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 942513001009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513001010 homodimer interface [polypeptide binding]; other site 942513001011 catalytic residue [active] 942513001012 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 942513001013 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 942513001014 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 942513001015 NAD(P) binding site [chemical binding]; other site 942513001016 homodimer interface [polypeptide binding]; other site 942513001017 substrate binding site [chemical binding]; other site 942513001018 active site 942513001019 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 942513001020 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 942513001021 inhibitor-cofactor binding pocket; inhibition site 942513001022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513001023 catalytic residue [active] 942513001024 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 942513001025 Bacterial sugar transferase; Region: Bac_transf; pfam02397 942513001026 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 942513001027 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 942513001028 putative trimer interface [polypeptide binding]; other site 942513001029 putative CoA binding site [chemical binding]; other site 942513001031 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 942513001032 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 942513001033 putative ADP-binding pocket [chemical binding]; other site 942513001034 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 942513001035 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 942513001036 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 942513001037 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 942513001038 catalytic motif [active] 942513001039 Zn binding site [ion binding]; other site 942513001040 RibD C-terminal domain; Region: RibD_C; cl17279 942513001041 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 942513001042 ATP cone domain; Region: ATP-cone; pfam03477 942513001043 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 942513001044 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 942513001045 putative active site [active] 942513001046 putative dimer interface [polypeptide binding]; other site 942513001047 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 942513001048 active site 942513001049 dimer interface [polypeptide binding]; other site 942513001050 metal binding site [ion binding]; metal-binding site 942513001051 shikimate kinase; Reviewed; Region: aroK; PRK00131 942513001052 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 942513001053 ADP binding site [chemical binding]; other site 942513001054 magnesium binding site [ion binding]; other site 942513001055 putative shikimate binding site; other site 942513001056 AMIN domain; Region: AMIN; pfam11741 942513001057 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 942513001058 Secretin and TonB N terminus short domain; Region: STN; pfam07660 942513001059 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 942513001060 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 942513001061 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 942513001062 Pilus assembly protein, PilP; Region: PilP; pfam04351 942513001063 Pilus assembly protein, PilO; Region: PilO; cl01234 942513001064 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 942513001065 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 942513001066 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 942513001067 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 942513001068 Transglycosylase; Region: Transgly; pfam00912 942513001069 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 942513001070 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 942513001071 G1 box; other site 942513001072 GTP/Mg2+ binding site [chemical binding]; other site 942513001073 Switch I region; other site 942513001074 G2 box; other site 942513001075 G3 box; other site 942513001076 Switch II region; other site 942513001077 G4 box; other site 942513001078 G5 box; other site 942513001079 Cytochrome c553 [Energy production and conversion]; Region: COG2863 942513001080 Cytochrome c; Region: Cytochrom_C; cl11414 942513001081 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 942513001082 ResB-like family; Region: ResB; pfam05140 942513001083 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 942513001084 UGMP family protein; Validated; Region: PRK09604 942513001085 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 942513001086 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 942513001087 putative acyl-acceptor binding pocket; other site 942513001088 S-adenosylmethionine synthetase; Validated; Region: PRK05250 942513001089 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 942513001090 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 942513001091 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 942513001093 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 942513001094 Predicted flavoprotein [General function prediction only]; Region: COG0431 942513001095 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 942513001096 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 942513001097 Citrate transporter; Region: CitMHS; pfam03600 942513001099 ribonuclease G; Provisional; Region: PRK11712 942513001100 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 942513001101 homodimer interface [polypeptide binding]; other site 942513001102 oligonucleotide binding site [chemical binding]; other site 942513001103 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 942513001104 GSH binding site [chemical binding]; other site 942513001105 catalytic residues [active] 942513001106 protein-export chaperone SecB; Region: secB; TIGR00809 942513001107 SecA binding site; other site 942513001108 Preprotein binding site; other site 942513001109 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 942513001110 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 942513001111 generic binding surface II; other site 942513001112 ssDNA binding site; other site 942513001113 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 942513001114 ATP binding site [chemical binding]; other site 942513001115 putative Mg++ binding site [ion binding]; other site 942513001116 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 942513001117 nucleotide binding region [chemical binding]; other site 942513001118 ATP-binding site [chemical binding]; other site 942513001119 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 942513001120 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 942513001121 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 942513001123 Uncharacterized conserved protein [Function unknown]; Region: COG2850 942513001126 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 942513001127 putative active site [active] 942513001128 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 942513001129 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 942513001130 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 942513001131 haemagglutination activity domain; Region: Haemagg_act; pfam05860 942513001132 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 942513001133 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 942513001134 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 942513001135 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 942513001142 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 942513001143 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 942513001145 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 942513001146 Ligand Binding Site [chemical binding]; other site 942513001147 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 942513001148 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 942513001149 active site 942513001150 Predicted membrane protein [Function unknown]; Region: COG3759 942513001151 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 942513001152 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 942513001153 FeS/SAM binding site; other site 942513001154 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 942513001155 beta-hexosaminidase; Provisional; Region: PRK05337 942513001156 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 942513001157 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 942513001158 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 942513001159 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 942513001160 protein binding site [polypeptide binding]; other site 942513001161 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 942513001162 protein binding site [polypeptide binding]; other site 942513001163 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 942513001164 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 942513001165 minor groove reading motif; other site 942513001166 helix-hairpin-helix signature motif; other site 942513001167 substrate binding pocket [chemical binding]; other site 942513001168 active site 942513001169 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 942513001170 Predicted membrane protein [Function unknown]; Region: COG1238 942513001171 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 942513001172 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 942513001173 putative substrate translocation pore; other site 942513001174 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 942513001175 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 942513001176 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 942513001177 Transporter associated domain; Region: CorC_HlyC; smart01091 942513001178 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 942513001179 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 942513001180 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 942513001181 domain interfaces; other site 942513001182 active site 942513001183 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 942513001184 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 942513001185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513001186 homodimer interface [polypeptide binding]; other site 942513001187 catalytic residue [active] 942513001188 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 942513001189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 942513001190 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 942513001191 L-lactate permease; Region: Lactate_perm; cl00701 942513001192 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 942513001193 putative active site [active] 942513001194 putative metal binding site [ion binding]; other site 942513001195 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 942513001196 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 942513001197 Walker A/P-loop; other site 942513001198 ATP binding site [chemical binding]; other site 942513001199 Q-loop/lid; other site 942513001200 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 942513001201 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 942513001202 ABC transporter signature motif; other site 942513001203 Walker B; other site 942513001204 D-loop; other site 942513001205 H-loop/switch region; other site 942513001206 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 942513001207 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 942513001208 NAD binding site [chemical binding]; other site 942513001209 substrate binding site [chemical binding]; other site 942513001210 catalytic Zn binding site [ion binding]; other site 942513001211 tetramer interface [polypeptide binding]; other site 942513001212 structural Zn binding site [ion binding]; other site 942513001213 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 942513001214 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 942513001215 macrolide transporter subunit MacA; Provisional; Region: PRK11578 942513001216 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 942513001217 HlyD family secretion protein; Region: HlyD_3; pfam13437 942513001218 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 942513001219 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 942513001220 Walker A/P-loop; other site 942513001221 ATP binding site [chemical binding]; other site 942513001222 Q-loop/lid; other site 942513001223 ABC transporter signature motif; other site 942513001224 Walker B; other site 942513001225 D-loop; other site 942513001226 H-loop/switch region; other site 942513001227 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 942513001228 FtsX-like permease family; Region: FtsX; pfam02687 942513001229 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 942513001230 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 942513001231 dimerization domain [polypeptide binding]; other site 942513001232 dimer interface [polypeptide binding]; other site 942513001233 catalytic residues [active] 942513001234 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 942513001235 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 942513001236 ATP binding site [chemical binding]; other site 942513001237 putative Mg++ binding site [ion binding]; other site 942513001238 helicase superfamily c-terminal domain; Region: HELICc; smart00490 942513001239 ATP-binding site [chemical binding]; other site 942513001240 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 942513001242 Transposase domain (DUF772); Region: DUF772; pfam05598 942513001243 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513001245 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 942513001246 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 942513001247 nucleotide binding site [chemical binding]; other site 942513001248 NEF interaction site [polypeptide binding]; other site 942513001249 SBD interface [polypeptide binding]; other site 942513001250 Predicted transcriptional regulator [Transcription]; Region: COG2932 942513001251 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 942513001252 Catalytic site [active] 942513001253 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 942513001254 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 942513001255 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 942513001256 serine acetyltransferase; Provisional; Region: cysE; PRK11132 942513001257 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 942513001258 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 942513001259 trimer interface [polypeptide binding]; other site 942513001260 active site 942513001261 substrate binding site [chemical binding]; other site 942513001262 CoA binding site [chemical binding]; other site 942513001263 GrpE; Region: GrpE; pfam01025 942513001264 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 942513001265 dimer interface [polypeptide binding]; other site 942513001266 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 942513001267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 942513001268 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 942513001269 ApbE family; Region: ApbE; pfam02424 942513001270 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 942513001271 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 942513001272 catalytic loop [active] 942513001273 iron binding site [ion binding]; other site 942513001274 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 942513001275 FAD binding pocket [chemical binding]; other site 942513001276 FAD binding motif [chemical binding]; other site 942513001277 phosphate binding motif [ion binding]; other site 942513001278 beta-alpha-beta structure motif; other site 942513001279 NAD binding pocket [chemical binding]; other site 942513001280 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 942513001281 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 942513001282 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 942513001283 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 942513001284 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 942513001285 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 942513001286 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 942513001287 E3 interaction surface; other site 942513001288 lipoyl attachment site [posttranslational modification]; other site 942513001289 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 942513001290 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 942513001291 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 942513001292 transmembrane helices; other site 942513001293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 942513001294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 942513001295 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 942513001296 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 942513001297 putative DNA binding site [nucleotide binding]; other site 942513001298 putative Zn2+ binding site [ion binding]; other site 942513001299 AsnC family; Region: AsnC_trans_reg; pfam01037 942513001300 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 942513001301 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 942513001302 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 942513001303 lipoyl attachment site [posttranslational modification]; other site 942513001304 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 942513001305 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 942513001306 tRNA; other site 942513001307 putative tRNA binding site [nucleotide binding]; other site 942513001308 putative NADP binding site [chemical binding]; other site 942513001309 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 942513001311 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 942513001312 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 942513001313 Walker A/P-loop; other site 942513001314 ATP binding site [chemical binding]; other site 942513001315 Q-loop/lid; other site 942513001316 ABC transporter signature motif; other site 942513001317 Walker B; other site 942513001318 D-loop; other site 942513001319 H-loop/switch region; other site 942513001320 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 942513001321 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 942513001322 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 942513001323 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 942513001324 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 942513001325 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 942513001326 putative active site [active] 942513001327 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513001328 Winged helix-turn helix; Region: HTH_29; pfam13551 942513001329 Homeodomain-like domain; Region: HTH_32; pfam13565 942513001330 Integrase core domain; Region: rve; pfam00665 942513001331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 942513001332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 942513001333 Transposase; Region: DEDD_Tnp_IS110; pfam01548 942513001334 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 942513001335 Zonular occludens toxin (Zot); Region: Zot; pfam05707 942513001336 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 942513001337 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 942513001338 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 942513001339 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 942513001340 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 942513001341 Replication initiation factor; Region: Rep_trans; pfam02486 942513001343 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 942513001344 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 942513001345 metal binding site [ion binding]; metal-binding site 942513001346 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 942513001347 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 942513001348 ABC-ATPase subunit interface; other site 942513001349 dimer interface [polypeptide binding]; other site 942513001350 putative PBP binding regions; other site 942513001351 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 942513001352 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 942513001353 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 942513001354 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 942513001355 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 942513001356 RimM N-terminal domain; Region: RimM; pfam01782 942513001357 PRC-barrel domain; Region: PRC; pfam05239 942513001358 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 942513001359 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 942513001360 CoA binding domain; Region: CoA_binding_2; pfam13380 942513001361 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 942513001362 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 942513001363 Coenzyme A binding pocket [chemical binding]; other site 942513001364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 942513001365 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 942513001366 dimerization interface [polypeptide binding]; other site 942513001367 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 942513001368 dimer interface [polypeptide binding]; other site 942513001369 phosphorylation site [posttranslational modification] 942513001370 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 942513001371 ATP binding site [chemical binding]; other site 942513001372 Mg2+ binding site [ion binding]; other site 942513001373 G-X-G motif; other site 942513001374 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 942513001375 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 942513001376 active site 942513001377 phosphorylation site [posttranslational modification] 942513001378 intermolecular recognition site; other site 942513001379 dimerization interface [polypeptide binding]; other site 942513001380 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 942513001381 DNA binding site [nucleotide binding] 942513001382 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 942513001383 O-Antigen ligase; Region: Wzy_C; pfam04932 942513001384 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 942513001385 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 942513001386 Maf-like protein; Region: Maf; pfam02545 942513001387 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 942513001388 active site 942513001389 dimer interface [polypeptide binding]; other site 942513001390 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 942513001391 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 942513001392 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 942513001393 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 942513001394 nucleotide binding site/active site [active] 942513001395 HIT family signature motif; other site 942513001396 catalytic residue [active] 942513001397 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 942513001398 metal binding site [ion binding]; metal-binding site 942513001399 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 942513001400 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 942513001401 putative NAD(P) binding site [chemical binding]; other site 942513001402 catalytic Zn binding site [ion binding]; other site 942513001403 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 942513001404 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 942513001405 putative active site [active] 942513001406 Zn binding site [ion binding]; other site 942513001407 Preprotein translocase subunit; Region: YajC; pfam02699 942513001408 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 942513001409 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 942513001410 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 942513001411 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 942513001412 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 942513001413 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 942513001414 Protein export membrane protein; Region: SecD_SecF; pfam02355 942513001415 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 942513001416 16S/18S rRNA binding site [nucleotide binding]; other site 942513001417 S13e-L30e interaction site [polypeptide binding]; other site 942513001418 25S rRNA binding site [nucleotide binding]; other site 942513001419 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 942513001420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 942513001421 Walker A/P-loop; other site 942513001422 ATP binding site [chemical binding]; other site 942513001423 Q-loop/lid; other site 942513001424 ABC transporter signature motif; other site 942513001425 Walker B; other site 942513001426 D-loop; other site 942513001427 H-loop/switch region; other site 942513001428 TOBE domain; Region: TOBE_2; pfam08402 942513001429 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 942513001430 dimer interface [polypeptide binding]; other site 942513001431 conserved gate region; other site 942513001432 putative PBP binding loops; other site 942513001433 ABC-ATPase subunit interface; other site 942513001434 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 942513001435 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 942513001436 dimer interface [polypeptide binding]; other site 942513001437 conserved gate region; other site 942513001438 putative PBP binding loops; other site 942513001439 ABC-ATPase subunit interface; other site 942513001440 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 942513001441 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 942513001442 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 942513001445 transcription termination factor Rho; Provisional; Region: rho; PRK09376 942513001446 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 942513001447 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 942513001448 RNA binding site [nucleotide binding]; other site 942513001449 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 942513001450 multimer interface [polypeptide binding]; other site 942513001451 Walker A motif; other site 942513001452 ATP binding site [chemical binding]; other site 942513001453 Walker B motif; other site 942513001454 phosphoenolpyruvate synthase; Validated; Region: PRK06464 942513001455 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 942513001456 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 942513001457 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 942513001458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 942513001459 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 942513001460 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 942513001461 motif II; other site 942513001462 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 942513001463 dinuclear metal binding motif [ion binding]; other site 942513001464 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 942513001465 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 942513001466 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 942513001467 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 942513001469 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 942513001470 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 942513001471 trimer interface [polypeptide binding]; other site 942513001472 putative metal binding site [ion binding]; other site 942513001474 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 942513001475 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 942513001476 G1 box; other site 942513001477 putative GEF interaction site [polypeptide binding]; other site 942513001478 GTP/Mg2+ binding site [chemical binding]; other site 942513001479 Switch I region; other site 942513001480 G2 box; other site 942513001481 G3 box; other site 942513001482 Switch II region; other site 942513001483 G4 box; other site 942513001484 G5 box; other site 942513001485 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 942513001486 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 942513001487 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 942513001488 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 942513001489 substrate binding site [chemical binding]; other site 942513001490 glutamase interaction surface [polypeptide binding]; other site 942513001491 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 942513001492 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 942513001493 catalytic residues [active] 942513001494 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 942513001495 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 942513001496 putative active site [active] 942513001497 oxyanion strand; other site 942513001498 catalytic triad [active] 942513001499 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 942513001500 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 942513001501 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 942513001502 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 942513001503 Walker A/P-loop; other site 942513001504 ATP binding site [chemical binding]; other site 942513001505 Q-loop/lid; other site 942513001506 ABC transporter signature motif; other site 942513001507 Walker B; other site 942513001508 D-loop; other site 942513001509 H-loop/switch region; other site 942513001510 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 942513001511 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 942513001512 dimer interface [polypeptide binding]; other site 942513001513 conserved gate region; other site 942513001514 putative PBP binding loops; other site 942513001515 ABC-ATPase subunit interface; other site 942513001516 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 942513001517 dimer interface [polypeptide binding]; other site 942513001518 conserved gate region; other site 942513001519 ABC-ATPase subunit interface; other site 942513001520 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 942513001521 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 942513001523 argininosuccinate lyase; Provisional; Region: PRK00855 942513001524 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 942513001525 active sites [active] 942513001526 tetramer interface [polypeptide binding]; other site 942513001527 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 942513001528 active site 942513001529 tetramer interface; other site 942513001530 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 942513001531 active site 942513001532 dimerization interface [polypeptide binding]; other site 942513001533 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 942513001534 dimer interface [polypeptide binding]; other site 942513001535 substrate binding site [chemical binding]; other site 942513001536 metal binding sites [ion binding]; metal-binding site 942513001537 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 942513001538 nudix motif; other site 942513001539 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 942513001540 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 942513001541 Cation transport protein; Region: TrkH; cl17365 942513001542 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 942513001543 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 942513001544 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 942513001545 active site 942513001546 metal binding site [ion binding]; metal-binding site 942513001547 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 942513001548 homotrimer interaction site [polypeptide binding]; other site 942513001549 putative active site [active] 942513001550 Opacity family porin protein; Region: Opacity; pfam02462 942513001551 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 942513001552 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 942513001553 FeS/SAM binding site; other site 942513001554 HemN C-terminal domain; Region: HemN_C; pfam06969 942513001555 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 942513001556 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 942513001557 nucleotide binding pocket [chemical binding]; other site 942513001558 K-X-D-G motif; other site 942513001559 catalytic site [active] 942513001560 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 942513001561 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 942513001562 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 942513001563 Dimer interface [polypeptide binding]; other site 942513001564 BRCT sequence motif; other site 942513001565 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 942513001566 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 942513001567 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 942513001568 amidase catalytic site [active] 942513001569 Zn binding residues [ion binding]; other site 942513001570 substrate binding site [chemical binding]; other site 942513001571 YceG-like family; Region: YceG; pfam02618 942513001572 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 942513001573 dimerization interface [polypeptide binding]; other site 942513001574 thymidylate kinase; Validated; Region: tmk; PRK00698 942513001575 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 942513001576 TMP-binding site; other site 942513001577 ATP-binding site [chemical binding]; other site 942513001578 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 942513001579 Malic enzyme, N-terminal domain; Region: malic; pfam00390 942513001580 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 942513001581 putative NAD(P) binding site [chemical binding]; other site 942513001582 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 942513001583 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 942513001584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 942513001585 Uncharacterized conserved protein [Function unknown]; Region: COG2835 942513001586 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 942513001587 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 942513001588 Ligand binding site; other site 942513001589 oligomer interface; other site 942513001590 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 942513001591 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 942513001592 substrate binding site [chemical binding]; other site 942513001593 active site 942513001594 catalytic residues [active] 942513001595 heterodimer interface [polypeptide binding]; other site 942513001596 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 942513001597 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 942513001598 CNP1-like family; Region: CNP1; pfam08750 942513001599 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 942513001600 CPxP motif; other site 942513001601 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 942513001602 active site 942513001603 substrate binding pocket [chemical binding]; other site 942513001604 dimer interface [polypeptide binding]; other site 942513001605 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 942513001606 putative RNA binding site [nucleotide binding]; other site 942513001607 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 942513001608 homopentamer interface [polypeptide binding]; other site 942513001609 active site 942513001610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 942513001611 ribonuclease III; Reviewed; Region: rnc; PRK00102 942513001612 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 942513001613 dimerization interface [polypeptide binding]; other site 942513001614 active site 942513001615 metal binding site [ion binding]; metal-binding site 942513001616 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 942513001617 dsRNA binding site [nucleotide binding]; other site 942513001618 GTPase Era; Reviewed; Region: era; PRK00089 942513001619 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 942513001620 G1 box; other site 942513001621 GTP/Mg2+ binding site [chemical binding]; other site 942513001622 Switch I region; other site 942513001623 G2 box; other site 942513001624 Switch II region; other site 942513001625 G3 box; other site 942513001626 G4 box; other site 942513001627 G5 box; other site 942513001628 KH domain; Region: KH_2; pfam07650 942513001629 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 942513001630 active site 942513001631 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 942513001632 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 942513001633 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 942513001634 amidophosphoribosyltransferase; Provisional; Region: PRK09246 942513001635 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 942513001636 active site 942513001637 tetramer interface [polypeptide binding]; other site 942513001638 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 942513001639 active site 942513001640 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 942513001641 Colicin V production protein; Region: Colicin_V; pfam02674 942513001642 cell division protein FtsN; Region: ftsN; TIGR02223 942513001643 Sporulation related domain; Region: SPOR; pfam05036 942513001644 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 942513001645 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 942513001646 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 942513001647 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 942513001648 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 942513001649 Walker A/P-loop; other site 942513001650 ATP binding site [chemical binding]; other site 942513001651 Q-loop/lid; other site 942513001652 ABC transporter signature motif; other site 942513001653 Walker B; other site 942513001654 D-loop; other site 942513001655 H-loop/switch region; other site 942513001656 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 942513001657 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 942513001658 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 942513001659 putative active site [active] 942513001660 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 942513001661 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 942513001662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513001663 catalytic residue [active] 942513001664 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 942513001665 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 942513001666 Autotransporter beta-domain; Region: Autotransporter; pfam03797 942513001667 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 942513001668 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 942513001669 Competence protein; Region: Competence; pfam03772 942513001670 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 942513001671 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 942513001672 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 942513001673 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 942513001674 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 942513001675 RNA binding surface [nucleotide binding]; other site 942513001676 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 942513001677 active site 942513001678 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 942513001679 Sodium Bile acid symporter family; Region: SBF; pfam01758 942513001680 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 942513001681 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 942513001682 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 942513001683 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 942513001684 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 942513001685 Predicted membrane protein/domain [Function unknown]; Region: COG1714 942513001686 hypothetical protein; Provisional; Region: PRK11820 942513001687 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 942513001688 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 942513001689 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 942513001690 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 942513001691 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 942513001692 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 942513001693 DNA binding residues [nucleotide binding] 942513001694 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 942513001695 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 942513001696 putative active site [active] 942513001697 catalytic triad [active] 942513001698 putative dimer interface [polypeptide binding]; other site 942513001701 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 942513001702 Cytochrome c; Region: Cytochrom_C; pfam00034 942513001703 ferrochelatase; Reviewed; Region: hemH; PRK00035 942513001704 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 942513001705 C-terminal domain interface [polypeptide binding]; other site 942513001706 active site 942513001707 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 942513001708 active site 942513001709 N-terminal domain interface [polypeptide binding]; other site 942513001710 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 942513001711 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 942513001712 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 942513001713 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 942513001714 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 942513001715 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 942513001716 active site 942513001717 dimer interface [polypeptide binding]; other site 942513001718 motif 1; other site 942513001719 motif 2; other site 942513001720 motif 3; other site 942513001721 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 942513001722 anticodon binding site; other site 942513001723 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 942513001724 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 942513001725 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 942513001726 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 942513001727 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 942513001728 23S rRNA binding site [nucleotide binding]; other site 942513001729 L21 binding site [polypeptide binding]; other site 942513001730 L13 binding site [polypeptide binding]; other site 942513001731 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 942513001732 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 942513001733 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 942513001734 dimer interface [polypeptide binding]; other site 942513001735 motif 1; other site 942513001736 active site 942513001737 motif 2; other site 942513001738 motif 3; other site 942513001739 AAA domain; Region: AAA_21; pfam13304 942513001740 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 942513001741 Walker B; other site 942513001742 D-loop; other site 942513001743 H-loop/switch region; other site 942513001744 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 942513001745 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 942513001746 putative tRNA-binding site [nucleotide binding]; other site 942513001747 B3/4 domain; Region: B3_4; pfam03483 942513001748 tRNA synthetase B5 domain; Region: B5; smart00874 942513001749 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 942513001750 dimer interface [polypeptide binding]; other site 942513001751 motif 1; other site 942513001752 motif 3; other site 942513001753 motif 2; other site 942513001754 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 942513001755 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 942513001756 IHF - DNA interface [nucleotide binding]; other site 942513001757 IHF dimer interface [polypeptide binding]; other site 942513001758 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 942513001759 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 942513001760 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 942513001761 inhibitor-cofactor binding pocket; inhibition site 942513001762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513001763 catalytic residue [active] 942513001764 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 942513001765 AAA domain; Region: AAA_26; pfam13500 942513001766 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 942513001767 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 942513001768 UbiA prenyltransferase family; Region: UbiA; pfam01040 942513001769 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 942513001770 active site 942513001771 phosphorylation site [posttranslational modification] 942513001772 HPr kinase/phosphorylase; Provisional; Region: PRK05428 942513001773 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 942513001774 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 942513001775 Hpr binding site; other site 942513001776 active site 942513001777 homohexamer subunit interaction site [polypeptide binding]; other site 942513001778 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 942513001779 AAA domain; Region: AAA_33; pfam13671 942513001780 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 942513001781 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 942513001782 GTP/Mg2+ binding site [chemical binding]; other site 942513001783 G4 box; other site 942513001784 G5 box; other site 942513001785 G1 box; other site 942513001786 Switch I region; other site 942513001787 G2 box; other site 942513001788 G3 box; other site 942513001789 Switch II region; other site 942513001790 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 942513001791 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 942513001792 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 942513001793 Walker A/P-loop; other site 942513001794 ATP binding site [chemical binding]; other site 942513001795 Q-loop/lid; other site 942513001796 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 942513001797 ABC transporter signature motif; other site 942513001798 Walker B; other site 942513001799 D-loop; other site 942513001800 H-loop/switch region; other site 942513001801 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 942513001802 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 942513001803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 942513001804 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 942513001805 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 942513001806 S-adenosylmethionine binding site [chemical binding]; other site 942513001807 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 942513001808 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 942513001809 catalytic center binding site [active] 942513001810 ATP binding site [chemical binding]; other site 942513001811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 942513001812 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 942513001813 S-adenosylmethionine binding site [chemical binding]; other site 942513001814 bacterial Hfq-like; Region: Hfq; cd01716 942513001815 hexamer interface [polypeptide binding]; other site 942513001816 Sm1 motif; other site 942513001817 RNA binding site [nucleotide binding]; other site 942513001818 Sm2 motif; other site 942513001819 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 942513001820 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 942513001821 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 942513001822 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 942513001823 catalytic triad [active] 942513001824 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 942513001825 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 942513001826 active site 942513001827 Int/Topo IB signature motif; other site 942513001828 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 942513001829 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 942513001830 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 942513001831 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 942513001832 NADP binding site [chemical binding]; other site 942513001833 active site 942513001834 putative substrate binding site [chemical binding]; other site 942513001835 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 942513001836 ATP binding site [chemical binding]; other site 942513001837 active site 942513001838 substrate binding site [chemical binding]; other site 942513001839 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 942513001840 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 942513001841 RNase E interface [polypeptide binding]; other site 942513001842 trimer interface [polypeptide binding]; other site 942513001843 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 942513001844 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 942513001845 RNase E interface [polypeptide binding]; other site 942513001846 trimer interface [polypeptide binding]; other site 942513001847 active site 942513001848 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 942513001849 putative nucleic acid binding region [nucleotide binding]; other site 942513001850 G-X-X-G motif; other site 942513001851 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 942513001852 RNA binding site [nucleotide binding]; other site 942513001853 domain interface; other site 942513001854 Uncharacterized conserved protein [Function unknown]; Region: COG2836 942513001855 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 942513001856 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 942513001857 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 942513001858 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 942513001859 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 942513001860 dimer interface [polypeptide binding]; other site 942513001861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513001862 catalytic residue [active] 942513001863 EamA-like transporter family; Region: EamA; pfam00892 942513001864 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 942513001865 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 942513001866 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 942513001867 Catalytic site [active] 942513001868 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 942513001869 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 942513001870 GTP-binding protein LepA; Provisional; Region: PRK05433 942513001871 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 942513001872 G1 box; other site 942513001873 putative GEF interaction site [polypeptide binding]; other site 942513001874 GTP/Mg2+ binding site [chemical binding]; other site 942513001875 Switch I region; other site 942513001876 G2 box; other site 942513001877 G3 box; other site 942513001878 Switch II region; other site 942513001879 G4 box; other site 942513001880 G5 box; other site 942513001881 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 942513001882 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 942513001883 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 942513001884 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 942513001885 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 942513001886 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 942513001887 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 942513001888 Walker A motif; other site 942513001889 ATP binding site [chemical binding]; other site 942513001890 Walker B motif; other site 942513001891 DNA polymerase III subunit delta'; Validated; Region: PRK08699 942513001892 DNA polymerase III subunit delta'; Validated; Region: PRK08485 942513001893 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 942513001894 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 942513001895 active site 942513001896 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 942513001897 putative GSH binding site [chemical binding]; other site 942513001898 catalytic residues [active] 942513001899 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 942513001900 active site 942513001901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 942513001902 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 942513001903 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 942513001904 active site 942513001905 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 942513001906 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 942513001907 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 942513001908 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 942513001909 substrate binding site [chemical binding]; other site 942513001910 active site 942513001911 DNA repair protein RadA; Provisional; Region: PRK11823 942513001912 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 942513001913 Walker A motif/ATP binding site; other site 942513001914 ATP binding site [chemical binding]; other site 942513001915 Walker B motif; other site 942513001916 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 942513001917 Uncharacterized conserved protein [Function unknown]; Region: COG3439 942513001918 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 942513001919 active site residue [active] 942513001920 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 942513001921 Part of AAA domain; Region: AAA_19; pfam13245 942513001922 Family description; Region: UvrD_C_2; pfam13538 942513001923 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 942513001924 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 942513001925 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 942513001926 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 942513001927 substrate binding pocket [chemical binding]; other site 942513001928 membrane-bound complex binding site; other site 942513001929 hinge residues; other site 942513001930 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 942513001931 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 942513001932 dimer interface [polypeptide binding]; other site 942513001933 conserved gate region; other site 942513001934 putative PBP binding loops; other site 942513001935 ABC-ATPase subunit interface; other site 942513001936 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 942513001937 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 942513001938 Walker A/P-loop; other site 942513001939 ATP binding site [chemical binding]; other site 942513001940 Q-loop/lid; other site 942513001941 ABC transporter signature motif; other site 942513001942 Walker B; other site 942513001943 D-loop; other site 942513001944 H-loop/switch region; other site 942513001945 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 942513001946 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 942513001947 active site 942513001948 substrate binding site [chemical binding]; other site 942513001949 metal binding site [ion binding]; metal-binding site 942513001950 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 942513001951 active site 942513001952 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 942513001953 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 942513001954 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 942513001955 putative active site [active] 942513001956 catalytic residue [active] 942513001957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 942513001958 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 942513001959 putative coenzyme Q binding site [chemical binding]; other site 942513001960 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 942513001961 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 942513001962 Walker A motif; other site 942513001963 ATP binding site [chemical binding]; other site 942513001964 Walker B motif; other site 942513001965 arginine finger; other site 942513001966 Peptidase family M41; Region: Peptidase_M41; pfam01434 942513001967 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 942513001968 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 942513001969 S-adenosylmethionine binding site [chemical binding]; other site 942513001970 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 942513001971 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 942513001972 dimer interface [polypeptide binding]; other site 942513001973 active site 942513001974 aspartate-rich active site metal binding site; other site 942513001975 allosteric magnesium binding site [ion binding]; other site 942513001976 Schiff base residues; other site 942513001977 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 942513001978 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 942513001979 homodimer interface [polypeptide binding]; other site 942513001980 substrate-cofactor binding pocket; other site 942513001981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513001982 catalytic residue [active] 942513001983 putative GTP cyclohydrolase; Provisional; Region: PRK13674 942513001984 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 942513001985 dimer interface [polypeptide binding]; other site 942513001986 FMN binding site [chemical binding]; other site 942513001987 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 942513001988 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 942513001989 RNA binding surface [nucleotide binding]; other site 942513001990 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 942513001991 active site 942513001992 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 942513001993 ATP-NAD kinase; Region: NAD_kinase; pfam01513 942513001994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 942513001995 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 942513001996 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 942513001997 putative NAD(P) binding site [chemical binding]; other site 942513001998 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 942513001999 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 942513002000 Bacterial transcriptional repressor; Region: TetR; pfam13972 942513002001 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 942513002002 FAD binding domain; Region: FAD_binding_4; pfam01565 942513002003 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 942513002004 multidrug efflux protein; Reviewed; Region: PRK01766 942513002005 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 942513002006 cation binding site [ion binding]; other site 942513002007 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 942513002008 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 942513002009 motif 1; other site 942513002010 dimer interface [polypeptide binding]; other site 942513002011 active site 942513002012 motif 2; other site 942513002013 motif 3; other site 942513002014 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 942513002015 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 942513002016 GDP-binding site [chemical binding]; other site 942513002017 ACT binding site; other site 942513002018 IMP binding site; other site 942513002019 Protein of unknown function (DUF723); Region: DUF723; pfam05265 942513002020 Protein of unknown function (DUF723); Region: DUF723; pfam05265 942513002021 Protein of unknown function (DUF723); Region: DUF723; pfam05265 942513002022 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 942513002023 heat shock protein HtpX; Provisional; Region: PRK05457 942513002024 adenylate kinase; Reviewed; Region: adk; PRK00279 942513002025 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 942513002026 AMP-binding site [chemical binding]; other site 942513002027 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 942513002028 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 942513002029 active site 942513002030 dimer interface [polypeptide binding]; other site 942513002031 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 942513002032 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 942513002033 putative ribose interaction site [chemical binding]; other site 942513002034 putative ADP binding site [chemical binding]; other site 942513002035 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 942513002036 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 942513002037 cofactor binding site; other site 942513002038 DNA binding site [nucleotide binding] 942513002039 substrate interaction site [chemical binding]; other site 942513002040 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 942513002041 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 942513002042 HNH endonuclease; Region: HNH_2; pfam13391 942513002043 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 942513002044 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 942513002045 NADP binding site [chemical binding]; other site 942513002046 homopentamer interface [polypeptide binding]; other site 942513002047 substrate binding site [chemical binding]; other site 942513002048 active site 942513002049 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 942513002050 HsdM N-terminal domain; Region: HsdM_N; pfam12161 942513002051 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 942513002052 S-adenosylmethionine binding site [chemical binding]; other site 942513002053 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 942513002054 Virulence protein [General function prediction only]; Region: COG3943 942513002055 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 942513002058 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 942513002059 Clp amino terminal domain; Region: Clp_N; pfam02861 942513002060 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 942513002061 Walker A motif; other site 942513002062 ATP binding site [chemical binding]; other site 942513002063 Walker B motif; other site 942513002064 arginine finger; other site 942513002065 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 942513002066 Walker A motif; other site 942513002067 ATP binding site [chemical binding]; other site 942513002068 Walker B motif; other site 942513002069 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 942513002070 Uncharacterized conserved protein [Function unknown]; Region: COG2127 942513002071 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 942513002072 DNA-binding site [nucleotide binding]; DNA binding site 942513002073 RNA-binding motif; other site 942513002074 peptidase PmbA; Provisional; Region: PRK11040 942513002075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 942513002076 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 942513002077 DHH family; Region: DHH; pfam01368 942513002078 DHHA1 domain; Region: DHHA1; pfam02272 942513002079 poly(A) polymerase; Region: pcnB; TIGR01942 942513002080 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 942513002081 active site 942513002082 NTP binding site [chemical binding]; other site 942513002083 metal binding triad [ion binding]; metal-binding site 942513002084 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 942513002085 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 942513002086 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 942513002087 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 942513002088 PhoH-like protein; Region: PhoH; pfam02562 942513002090 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 942513002091 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 942513002092 trimer interface [polypeptide binding]; other site 942513002093 active site 942513002094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 942513002095 MORN repeat; Region: MORN; cl14787 942513002096 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 942513002097 GTP-binding protein Der; Reviewed; Region: PRK00093 942513002098 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 942513002099 G1 box; other site 942513002100 GTP/Mg2+ binding site [chemical binding]; other site 942513002101 Switch I region; other site 942513002102 G2 box; other site 942513002103 Switch II region; other site 942513002104 G3 box; other site 942513002105 G4 box; other site 942513002106 G5 box; other site 942513002107 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 942513002108 G1 box; other site 942513002109 GTP/Mg2+ binding site [chemical binding]; other site 942513002110 Switch I region; other site 942513002111 G2 box; other site 942513002112 G3 box; other site 942513002113 Switch II region; other site 942513002114 G4 box; other site 942513002115 G5 box; other site 942513002116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 942513002117 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 942513002118 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 942513002119 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 942513002120 dimer interface [polypeptide binding]; other site 942513002121 motif 1; other site 942513002122 active site 942513002123 motif 2; other site 942513002124 motif 3; other site 942513002125 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 942513002126 anticodon binding site; other site 942513002127 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 942513002128 putative active site [active] 942513002129 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 942513002130 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 942513002131 probable active site [active] 942513002133 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 942513002134 S-adenosylmethionine binding site [chemical binding]; other site 942513002135 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 942513002136 oligomerization interface [polypeptide binding]; other site 942513002137 active site 942513002138 metal binding site [ion binding]; metal-binding site 942513002139 pantoate--beta-alanine ligase; Region: panC; TIGR00018 942513002140 Pantoate-beta-alanine ligase; Region: PanC; cd00560 942513002141 active site 942513002142 ATP-binding site [chemical binding]; other site 942513002143 pantoate-binding site; other site 942513002144 HXXH motif; other site 942513002145 TPR repeat; Region: TPR_11; pfam13414 942513002146 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 942513002147 binding surface 942513002148 TPR motif; other site 942513002149 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 942513002150 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 942513002151 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 942513002152 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 942513002153 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 942513002154 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 942513002155 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 942513002156 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 942513002157 active site 942513002158 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 942513002159 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 942513002160 5S rRNA interface [nucleotide binding]; other site 942513002161 CTC domain interface [polypeptide binding]; other site 942513002162 L16 interface [polypeptide binding]; other site 942513002163 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 942513002164 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 942513002165 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 942513002166 threonine dehydratase; Reviewed; Region: PRK09224 942513002167 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 942513002168 tetramer interface [polypeptide binding]; other site 942513002169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513002170 catalytic residue [active] 942513002171 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 942513002172 putative Ile/Val binding site [chemical binding]; other site 942513002173 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 942513002174 putative Ile/Val binding site [chemical binding]; other site 942513002175 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 942513002176 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 942513002177 Walker A/P-loop; other site 942513002178 ATP binding site [chemical binding]; other site 942513002179 Q-loop/lid; other site 942513002180 ABC transporter signature motif; other site 942513002181 Walker B; other site 942513002182 D-loop; other site 942513002183 H-loop/switch region; other site 942513002184 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 942513002185 dimer interface [polypeptide binding]; other site 942513002186 conserved gate region; other site 942513002187 putative PBP binding loops; other site 942513002188 ABC-ATPase subunit interface; other site 942513002189 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 942513002190 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 942513002191 dimer interface [polypeptide binding]; other site 942513002192 conserved gate region; other site 942513002193 putative PBP binding loops; other site 942513002194 ABC-ATPase subunit interface; other site 942513002195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 942513002196 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 942513002197 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 942513002198 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 942513002199 replicative DNA helicase; Region: DnaB; TIGR00665 942513002200 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 942513002201 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 942513002202 Walker A motif; other site 942513002203 ATP binding site [chemical binding]; other site 942513002204 Walker B motif; other site 942513002205 DNA binding loops [nucleotide binding] 942513002206 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 942513002207 Type II transport protein GspH; Region: GspH; pfam12019 942513002208 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 942513002209 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 942513002210 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 942513002211 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 942513002212 PilX N-terminal; Region: PilX_N; pfam14341 942513002213 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 942513002214 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 942513002215 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 942513002217 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 942513002218 trimer interface [polypeptide binding]; other site 942513002219 active site 942513002220 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 942513002221 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 942513002222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513002223 homodimer interface [polypeptide binding]; other site 942513002224 catalytic residue [active] 942513002225 hypothetical protein; Validated; Region: PRK02101 942513002226 Transposase domain (DUF772); Region: DUF772; pfam05598 942513002227 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513002228 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 942513002229 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 942513002230 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 942513002231 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 942513002232 Cytochrome c556 [Energy production and conversion]; Region: COG3909 942513002233 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 942513002234 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 942513002235 putative NAD(P) binding site [chemical binding]; other site 942513002236 homotetramer interface [polypeptide binding]; other site 942513002237 homodimer interface [polypeptide binding]; other site 942513002238 active site 942513002239 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 942513002240 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 942513002241 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 942513002242 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 942513002243 TAP-like protein; Region: Abhydrolase_4; pfam08386 942513002244 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 942513002245 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 942513002246 dihydrodipicolinate synthase; Region: dapA; TIGR00674 942513002247 dimer interface [polypeptide binding]; other site 942513002248 active site 942513002249 catalytic residue [active] 942513002250 xanthine permease; Region: pbuX; TIGR03173 942513002251 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 942513002252 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 942513002253 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 942513002254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 942513002255 TfoX N-terminal domain; Region: TfoX_N; cl17592 942513002256 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 942513002257 nucleoside/Zn binding site; other site 942513002258 dimer interface [polypeptide binding]; other site 942513002259 catalytic motif [active] 942513002260 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 942513002261 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 942513002262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 942513002263 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 942513002264 elongation factor P; Validated; Region: PRK00529 942513002265 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 942513002266 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 942513002267 RNA binding site [nucleotide binding]; other site 942513002268 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 942513002269 RNA binding site [nucleotide binding]; other site 942513002271 Methyltransferase domain; Region: Methyltransf_23; pfam13489 942513002272 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 942513002273 S-adenosylmethionine binding site [chemical binding]; other site 942513002274 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 942513002275 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 942513002276 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 942513002277 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 942513002278 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 942513002279 FAD binding site [chemical binding]; other site 942513002280 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 942513002281 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 942513002282 THF binding site; other site 942513002283 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 942513002284 substrate binding site [chemical binding]; other site 942513002285 THF binding site; other site 942513002286 zinc-binding site [ion binding]; other site 942513002287 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 942513002288 catalytic triad [active] 942513002289 dimer interface [polypeptide binding]; other site 942513002290 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 942513002291 GSH binding site [chemical binding]; other site 942513002292 catalytic residues [active] 942513002293 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 942513002294 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 942513002295 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 942513002296 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 942513002297 Iron-sulfur protein interface; other site 942513002298 proximal quinone binding site [chemical binding]; other site 942513002299 SdhD (CybS) interface [polypeptide binding]; other site 942513002300 proximal heme binding site [chemical binding]; other site 942513002301 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 942513002302 SdhC subunit interface [polypeptide binding]; other site 942513002303 proximal heme binding site [chemical binding]; other site 942513002304 cardiolipin binding site; other site 942513002305 Iron-sulfur protein interface; other site 942513002306 proximal quinone binding site [chemical binding]; other site 942513002307 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 942513002308 L-aspartate oxidase; Provisional; Region: PRK06175 942513002309 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 942513002310 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 942513002311 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 942513002312 Uncharacterized conserved protein [Function unknown]; Region: COG2938 942513002313 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 942513002314 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 942513002315 dimer interface [polypeptide binding]; other site 942513002316 active site 942513002317 citrylCoA binding site [chemical binding]; other site 942513002318 NADH binding [chemical binding]; other site 942513002319 cationic pore residues; other site 942513002320 oxalacetate/citrate binding site [chemical binding]; other site 942513002321 coenzyme A binding site [chemical binding]; other site 942513002322 catalytic triad [active] 942513002323 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 942513002324 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 942513002325 TPP-binding site [chemical binding]; other site 942513002326 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 942513002327 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 942513002328 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 942513002329 E3 interaction surface; other site 942513002330 lipoyl attachment site [posttranslational modification]; other site 942513002331 e3 binding domain; Region: E3_binding; pfam02817 942513002332 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 942513002333 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 942513002334 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 942513002335 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 942513002336 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 942513002337 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 942513002338 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 942513002339 CoA-ligase; Region: Ligase_CoA; pfam00549 942513002340 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 942513002341 CoA binding domain; Region: CoA_binding; smart00881 942513002342 CoA-ligase; Region: Ligase_CoA; pfam00549 942513002343 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 942513002344 DNA methylase; Region: N6_N4_Mtase; cl17433 942513002345 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 942513002346 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 942513002347 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 942513002348 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 942513002349 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 942513002350 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 942513002351 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 942513002352 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 942513002353 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 942513002354 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 942513002355 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 942513002356 glutamine binding [chemical binding]; other site 942513002357 catalytic triad [active] 942513002358 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 942513002359 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 942513002360 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 942513002362 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 942513002363 Replication initiation factor; Region: Rep_trans; pfam02486 942513002364 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 942513002365 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 942513002366 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 942513002367 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 942513002368 Predicted membrane protein [Function unknown]; Region: COG3686 942513002369 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 942513002370 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 942513002371 ligand binding site [chemical binding]; other site 942513002372 homodimer interface [polypeptide binding]; other site 942513002373 NAD(P) binding site [chemical binding]; other site 942513002374 trimer interface B [polypeptide binding]; other site 942513002375 trimer interface A [polypeptide binding]; other site 942513002376 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 942513002377 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 942513002378 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 942513002379 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 942513002380 motif II; other site 942513002382 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 942513002383 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 942513002384 purine monophosphate binding site [chemical binding]; other site 942513002385 dimer interface [polypeptide binding]; other site 942513002386 putative catalytic residues [active] 942513002387 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 942513002388 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 942513002389 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 942513002390 Transposase; Region: DEDD_Tnp_IS110; pfam01548 942513002391 B-Box C-terminal domain; Region: BBC; smart00502 942513002392 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 942513002393 Mu-like prophage protein gp16 [Function unknown]; Region: COG4382 942513002395 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 942513002396 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 942513002397 active site 942513002398 metal binding site [ion binding]; metal-binding site 942513002399 Uncharacterized conserved protein [Function unknown]; Region: COG3422 942513002400 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 942513002401 Transposase domain (DUF772); Region: DUF772; pfam05598 942513002402 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513002403 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 942513002404 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 942513002405 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 942513002406 YadA-like C-terminal region; Region: YadA; pfam03895 942513002407 Rubredoxin [Energy production and conversion]; Region: COG1773 942513002408 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 942513002409 iron binding site [ion binding]; other site 942513002410 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 942513002411 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 942513002412 active site 942513002413 Uncharacterized conserved protein [Function unknown]; Region: COG2128 942513002414 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 942513002415 D-lactate dehydrogenase; Provisional; Region: PRK11183 942513002416 FAD binding domain; Region: FAD_binding_4; pfam01565 942513002417 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 942513002418 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 942513002419 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 942513002420 FAD binding domain; Region: FAD_binding_4; pfam01565 942513002421 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 942513002422 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 942513002423 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 942513002424 Cysteine-rich domain; Region: CCG; pfam02754 942513002425 Cysteine-rich domain; Region: CCG; pfam02754 942513002426 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 942513002427 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 942513002428 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 942513002429 FMN binding site [chemical binding]; other site 942513002430 active site 942513002431 catalytic residues [active] 942513002432 substrate binding site [chemical binding]; other site 942513002433 potential frameshift: common BLAST hit: gi|227833817|ref|YP_002835524.1| ABC transporter ATP-binding protein 942513002436 Transposase domain (DUF772); Region: DUF772; pfam05598 942513002437 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513002439 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 942513002440 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 942513002441 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 942513002442 non-specific DNA binding site [nucleotide binding]; other site 942513002443 salt bridge; other site 942513002444 sequence-specific DNA binding site [nucleotide binding]; other site 942513002445 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 942513002446 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 942513002447 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 942513002449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 942513002450 HTH-like domain; Region: HTH_21; pfam13276 942513002451 Integrase core domain; Region: rve; pfam00665 942513002452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 942513002453 Smr domain; Region: Smr; pfam01713 942513002456 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 942513002457 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 942513002458 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 942513002459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 942513002460 Coenzyme A binding pocket [chemical binding]; other site 942513002461 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 942513002462 XdhC Rossmann domain; Region: XdhC_C; pfam13478 942513002463 ATP-grasp domain; Region: ATP-grasp; pfam02222 942513002464 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 942513002465 anthranilate synthase component I; Provisional; Region: PRK13565 942513002466 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 942513002467 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 942513002468 ABC transporter ATPase component; Reviewed; Region: PRK11147 942513002469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 942513002470 Walker A/P-loop; other site 942513002471 ATP binding site [chemical binding]; other site 942513002472 Q-loop/lid; other site 942513002473 ABC transporter signature motif; other site 942513002474 Walker B; other site 942513002475 D-loop; other site 942513002476 H-loop/switch region; other site 942513002477 ABC transporter; Region: ABC_tran_2; pfam12848 942513002478 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 942513002479 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 942513002480 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 942513002481 Outer membrane protein OpcA; Region: OpcA; pfam07239 942513002484 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 942513002485 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 942513002486 dimer interface [polypeptide binding]; other site 942513002487 active site 942513002488 glycine-pyridoxal phosphate binding site [chemical binding]; other site 942513002489 folate binding site [chemical binding]; other site 942513002490 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 942513002491 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 942513002493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 942513002494 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 942513002495 AMP binding site [chemical binding]; other site 942513002496 metal binding site [ion binding]; metal-binding site 942513002497 active site 942513002498 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 942513002499 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 942513002500 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 942513002501 active site 942513002502 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 942513002503 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 942513002504 dimer interface [polypeptide binding]; other site 942513002505 ADP-ribose binding site [chemical binding]; other site 942513002506 active site 942513002507 nudix motif; other site 942513002508 metal binding site [ion binding]; metal-binding site 942513002509 camphor resistance protein CrcB; Provisional; Region: PRK14230 942513002510 Predicted membrane protein [Function unknown]; Region: COG3235 942513002511 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 942513002512 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 942513002513 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 942513002514 putative catalytic cysteine [active] 942513002515 glutamate 5-kinase; Region: proB; TIGR01027 942513002516 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 942513002517 nucleotide binding site [chemical binding]; other site 942513002518 homotetrameric interface [polypeptide binding]; other site 942513002519 putative phosphate binding site [ion binding]; other site 942513002520 putative allosteric binding site; other site 942513002521 PUA domain; Region: PUA; pfam01472 942513002522 2-isopropylmalate synthase; Validated; Region: PRK00915 942513002523 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 942513002524 active site 942513002525 catalytic residues [active] 942513002526 metal binding site [ion binding]; metal-binding site 942513002527 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 942513002528 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 942513002529 yecA family protein; Region: ygfB_yecA; TIGR02292 942513002530 SEC-C motif; Region: SEC-C; pfam02810 942513002531 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 942513002532 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 942513002533 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 942513002534 putative active site [active] 942513002535 Zn binding site [ion binding]; other site 942513002536 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 942513002537 feedback inhibition sensing region; other site 942513002538 homohexameric interface [polypeptide binding]; other site 942513002539 nucleotide binding site [chemical binding]; other site 942513002540 N-acetyl-L-glutamate binding site [chemical binding]; other site 942513002541 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 942513002542 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 942513002543 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 942513002544 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 942513002546 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 942513002547 non-specific DNA binding site [nucleotide binding]; other site 942513002548 salt bridge; other site 942513002549 sequence-specific DNA binding site [nucleotide binding]; other site 942513002550 ORF6C domain; Region: ORF6C; pfam10552 942513002551 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 942513002552 non-specific DNA binding site [nucleotide binding]; other site 942513002553 salt bridge; other site 942513002554 sequence-specific DNA binding site [nucleotide binding]; other site 942513002555 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 942513002556 Integrase core domain; Region: rve; pfam00665 942513002557 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 942513002558 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 942513002559 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 942513002560 non-specific DNA binding site [nucleotide binding]; other site 942513002561 salt bridge; other site 942513002562 sequence-specific DNA binding site [nucleotide binding]; other site 942513002563 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 942513002564 DNA polymerase IV; Provisional; Region: PRK02794 942513002565 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]; Region: COG4396 942513002566 Phage anti-repressor protein [Transcription]; Region: COG3561 942513002567 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 942513002568 putative DNA binding site [nucleotide binding]; other site 942513002569 putative Zn2+ binding site [ion binding]; other site 942513002570 Mu-like prophage protein gp16 [Function unknown]; Region: COG4382 942513002571 Mor transcription activator family; Region: Mor; cl02360 942513002572 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 942513002573 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 942513002574 active site 942513002575 metal binding site [ion binding]; metal-binding site 942513002577 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 942513002578 phage uncharacterized protein (putative large terminase), C-terminal domain; Region: psiM2_ORF9; TIGR01630 942513002579 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 942513002580 Protein of unknown function (DUF935); Region: DUF935; pfam06074 942513002581 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 942513002582 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 942513002583 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 942513002584 Mu-like prophage I protein [General function prediction only]; Region: COG4388 942513002585 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513002586 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513002587 Homeodomain-like domain; Region: HTH_32; pfam13565 942513002588 Integrase core domain; Region: rve; pfam00665 942513002589 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 942513002590 Mu-like prophage protein gp37 [General function prediction only]; Region: COG5003 942513002591 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 942513002592 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 942513002593 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 942513002594 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 942513002595 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 942513002596 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 942513002597 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 942513002600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 942513002601 Phage Tail Collar Domain; Region: Collar; pfam07484 942513002602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 942513002603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 942513002605 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 942513002606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 942513002607 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 942513002608 short chain dehydrogenase; Provisional; Region: PRK08703 942513002609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 942513002610 NAD(P) binding site [chemical binding]; other site 942513002611 active site 942513002612 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 942513002613 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 942513002614 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 942513002615 active site lid residues [active] 942513002616 substrate binding pocket [chemical binding]; other site 942513002617 catalytic residues [active] 942513002618 substrate-Mg2+ binding site; other site 942513002619 aspartate-rich region 1; other site 942513002620 aspartate-rich region 2; other site 942513002621 chaperone protein HscA; Provisional; Region: hscA; PRK05183 942513002622 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 942513002623 nucleotide binding site [chemical binding]; other site 942513002624 putative NEF/HSP70 interaction site [polypeptide binding]; other site 942513002625 SBD interface [polypeptide binding]; other site 942513002626 T5orf172 domain; Region: T5orf172; pfam10544 942513002628 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 942513002629 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 942513002630 catalytic loop [active] 942513002631 iron binding site [ion binding]; other site 942513002632 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 942513002633 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 942513002634 RNA binding surface [nucleotide binding]; other site 942513002635 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 942513002636 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 942513002637 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 942513002638 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 942513002639 Ligand Binding Site [chemical binding]; other site 942513002640 TilS substrate binding domain; Region: TilS; pfam09179 942513002641 TilS substrate C-terminal domain; Region: TilS_C; cl17443 942513002642 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 942513002643 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 942513002644 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 942513002645 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 942513002646 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 942513002647 biotin synthase; Region: bioB; TIGR00433 942513002648 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 942513002649 FeS/SAM binding site; other site 942513002650 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 942513002651 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 942513002652 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 942513002653 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 942513002654 sulfite reductase (NADPH) hemoprotein, beta-component; Region: CysI; TIGR02041 942513002655 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 942513002656 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 942513002657 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 942513002658 Flavodoxin; Region: Flavodoxin_1; pfam00258 942513002659 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 942513002660 FAD binding pocket [chemical binding]; other site 942513002661 FAD binding motif [chemical binding]; other site 942513002662 catalytic residues [active] 942513002663 NAD binding pocket [chemical binding]; other site 942513002664 phosphate binding motif [ion binding]; other site 942513002665 beta-alpha-beta structure motif; other site 942513002666 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 942513002667 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 942513002668 CysD dimerization site [polypeptide binding]; other site 942513002669 G1 box; other site 942513002670 putative GEF interaction site [polypeptide binding]; other site 942513002671 GTP/Mg2+ binding site [chemical binding]; other site 942513002672 Switch I region; other site 942513002673 G2 box; other site 942513002674 G3 box; other site 942513002675 Switch II region; other site 942513002676 G4 box; other site 942513002677 G5 box; other site 942513002678 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 942513002679 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 942513002680 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 942513002681 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 942513002682 Active Sites [active] 942513002683 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 942513002684 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 942513002685 Active Sites [active] 942513002686 siroheme synthase; Provisional; Region: cysG; PRK10637 942513002687 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 942513002688 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 942513002689 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 942513002690 active site 942513002691 SAM binding site [chemical binding]; other site 942513002692 homodimer interface [polypeptide binding]; other site 942513002693 Cytochrome b [Energy production and conversion]; Region: COG3658 942513002694 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 942513002695 putative substrate binding site [chemical binding]; other site 942513002696 putative ATP binding site [chemical binding]; other site 942513002697 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 942513002698 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 942513002699 G1 box; other site 942513002700 putative GEF interaction site [polypeptide binding]; other site 942513002701 GTP/Mg2+ binding site [chemical binding]; other site 942513002702 Switch I region; other site 942513002703 G2 box; other site 942513002704 G3 box; other site 942513002705 Switch II region; other site 942513002706 G4 box; other site 942513002707 G5 box; other site 942513002708 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 942513002709 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 942513002710 ribonuclease R; Region: RNase_R; TIGR02063 942513002711 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 942513002712 RNB domain; Region: RNB; pfam00773 942513002713 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 942513002714 RNA binding site [nucleotide binding]; other site 942513002715 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 942513002716 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 942513002717 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 942513002718 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 942513002719 active site 942513002720 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 942513002721 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 942513002722 metal binding triad; other site 942513002723 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 942513002724 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 942513002725 Zn2+ binding site [ion binding]; other site 942513002726 Mg2+ binding site [ion binding]; other site 942513002727 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 942513002728 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 942513002729 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 942513002730 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 942513002731 non-specific DNA binding site [nucleotide binding]; other site 942513002732 salt bridge; other site 942513002733 sequence-specific DNA binding site [nucleotide binding]; other site 942513002734 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 942513002735 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 942513002736 heme binding site [chemical binding]; other site 942513002737 ferroxidase pore; other site 942513002738 ferroxidase diiron center [ion binding]; other site 942513002739 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 942513002740 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 942513002741 heme binding site [chemical binding]; other site 942513002742 ferroxidase pore; other site 942513002743 ferroxidase diiron center [ion binding]; other site 942513002744 lipoyl synthase; Provisional; Region: PRK05481 942513002745 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 942513002746 FeS/SAM binding site; other site 942513002747 lipoate-protein ligase B; Provisional; Region: PRK14342 942513002748 Uncharacterized conserved protein [Function unknown]; Region: COG2921 942513002749 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 942513002750 Domain of unknown function DUF20; Region: UPF0118; pfam01594 942513002751 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 942513002752 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 942513002753 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 942513002754 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 942513002755 ligand binding site [chemical binding]; other site 942513002756 active site 942513002757 UGI interface [polypeptide binding]; other site 942513002758 catalytic site [active] 942513002760 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 942513002761 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 942513002762 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 942513002763 ABC transporter; Region: ABC_tran_2; pfam12848 942513002764 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 942513002765 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 942513002766 homoserine dehydrogenase; Provisional; Region: PRK06349 942513002767 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 942513002768 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 942513002769 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 942513002770 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 942513002771 IHF dimer interface [polypeptide binding]; other site 942513002772 IHF - DNA interface [nucleotide binding]; other site 942513002773 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 942513002774 Found in ATP-dependent protease La (LON); Region: LON; smart00464 942513002775 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 942513002776 Walker A motif; other site 942513002777 ATP binding site [chemical binding]; other site 942513002778 Walker B motif; other site 942513002779 arginine finger; other site 942513002780 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 942513002781 Methyltransferase domain; Region: Methyltransf_23; pfam13489 942513002782 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 942513002783 S-adenosylmethionine binding site [chemical binding]; other site 942513002784 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 942513002785 AAA domain; Region: AAA_30; pfam13604 942513002786 Family description; Region: UvrD_C_2; pfam13538 942513002787 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 942513002788 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 942513002789 Walker A/P-loop; other site 942513002790 ATP binding site [chemical binding]; other site 942513002791 Q-loop/lid; other site 942513002792 ABC transporter signature motif; other site 942513002793 Walker B; other site 942513002794 D-loop; other site 942513002795 H-loop/switch region; other site 942513002796 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 942513002797 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 942513002798 FtsX-like permease family; Region: FtsX; pfam02687 942513002799 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 942513002800 RecR protein; Region: RecR; pfam02132 942513002801 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 942513002802 putative active site [active] 942513002803 putative metal-binding site [ion binding]; other site 942513002804 tetramer interface [polypeptide binding]; other site 942513002805 SurA N-terminal domain; Region: SurA_N_3; cl07813 942513002806 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 942513002807 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 942513002808 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 942513002809 ArsC family; Region: ArsC; pfam03960 942513002810 putative catalytic residues [active] 942513002811 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 942513002812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 942513002813 Walker A/P-loop; other site 942513002814 ATP binding site [chemical binding]; other site 942513002815 ABC transporter signature motif; other site 942513002816 Walker B; other site 942513002817 D-loop; other site 942513002818 H-loop/switch region; other site 942513002819 ABC transporter; Region: ABC_tran_2; pfam12848 942513002820 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 942513002821 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 942513002822 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 942513002823 active site 942513002824 NTP binding site [chemical binding]; other site 942513002825 metal binding triad [ion binding]; metal-binding site 942513002826 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 942513002827 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 942513002828 Zn2+ binding site [ion binding]; other site 942513002829 Mg2+ binding site [ion binding]; other site 942513002830 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 942513002831 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 942513002832 Walker A motif; other site 942513002833 ATP binding site [chemical binding]; other site 942513002834 Walker B motif; other site 942513002835 arginine finger; other site 942513002836 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 942513002837 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 942513002838 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 942513002839 substrate binding site [chemical binding]; other site 942513002840 hexamer interface [polypeptide binding]; other site 942513002841 metal binding site [ion binding]; metal-binding site 942513002842 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 942513002843 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 942513002844 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 942513002845 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 942513002846 Walker A motif; other site 942513002847 ATP binding site [chemical binding]; other site 942513002848 Walker B motif; other site 942513002849 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 942513002850 Lumazine binding domain; Region: Lum_binding; pfam00677 942513002851 Lumazine binding domain; Region: Lum_binding; pfam00677 942513002852 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 942513002853 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 942513002854 GTP binding site; other site 942513002855 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 942513002856 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 942513002857 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 942513002858 dimerization interface [polypeptide binding]; other site 942513002859 GAF domain; Region: GAF_3; pfam13492 942513002860 Histidine kinase; Region: HisKA_3; pfam07730 942513002861 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 942513002862 ATP binding site [chemical binding]; other site 942513002863 Mg2+ binding site [ion binding]; other site 942513002864 G-X-G motif; other site 942513002865 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 942513002866 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 942513002867 active site 942513002868 phosphorylation site [posttranslational modification] 942513002869 intermolecular recognition site; other site 942513002870 dimerization interface [polypeptide binding]; other site 942513002871 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 942513002872 DNA binding residues [nucleotide binding] 942513002873 dimerization interface [polypeptide binding]; other site 942513002874 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 942513002875 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 942513002876 dimerization interface [polypeptide binding]; other site 942513002877 putative ATP binding site [chemical binding]; other site 942513002878 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 942513002879 dimerization interface [polypeptide binding]; other site 942513002880 active site 942513002882 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 942513002883 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 942513002884 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 942513002885 dimerization interface [polypeptide binding]; other site 942513002886 Transposase domain (DUF772); Region: DUF772; pfam05598 942513002887 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513002888 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 942513002890 recombination factor protein RarA; Reviewed; Region: PRK13342 942513002891 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 942513002892 Walker A motif; other site 942513002893 ATP binding site [chemical binding]; other site 942513002894 Walker B motif; other site 942513002895 arginine finger; other site 942513002896 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 942513002897 Transcriptional regulator [Transcription]; Region: LysR; COG0583 942513002898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 942513002899 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 942513002900 dimerization interface [polypeptide binding]; other site 942513002901 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 942513002902 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 942513002903 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 942513002904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513002905 catalytic residue [active] 942513002906 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 942513002907 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 942513002908 FAD binding pocket [chemical binding]; other site 942513002909 FAD binding motif [chemical binding]; other site 942513002910 phosphate binding motif [ion binding]; other site 942513002911 beta-alpha-beta structure motif; other site 942513002912 NAD binding pocket [chemical binding]; other site 942513002913 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 942513002914 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 942513002915 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 942513002916 metal-binding site [ion binding] 942513002917 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 942513002918 Soluble P-type ATPase [General function prediction only]; Region: COG4087 942513002919 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 942513002920 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 942513002921 HflX GTPase family; Region: HflX; cd01878 942513002922 G1 box; other site 942513002923 GTP/Mg2+ binding site [chemical binding]; other site 942513002924 Switch I region; other site 942513002925 G2 box; other site 942513002926 G3 box; other site 942513002927 Switch II region; other site 942513002928 G4 box; other site 942513002929 G5 box; other site 942513002930 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 942513002931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 942513002932 hypothetical protein; Reviewed; Region: PRK00024 942513002933 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 942513002934 MPN+ (JAMM) motif; other site 942513002935 Zinc-binding site [ion binding]; other site 942513002936 Glutamate-cysteine ligase; Region: GshA; pfam08886 942513002937 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 942513002938 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 942513002939 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 942513002940 substrate binding site [chemical binding]; other site 942513002941 ligand binding site [chemical binding]; other site 942513002942 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 942513002943 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 942513002944 substrate binding site [chemical binding]; other site 942513002947 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 942513002948 tartrate dehydrogenase; Region: TTC; TIGR02089 942513002949 Uncharacterized conserved protein [Function unknown]; Region: COG2353 942513002950 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 942513002951 Aspartase; Region: Aspartase; cd01357 942513002952 active sites [active] 942513002953 tetramer interface [polypeptide binding]; other site 942513002954 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 942513002955 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 942513002956 HSP70 interaction site [polypeptide binding]; other site 942513002957 Predicted membrane protein [Function unknown]; Region: COG3671 942513002958 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 942513002959 putative deacylase active site [active] 942513002960 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 942513002961 homotrimer interaction site [polypeptide binding]; other site 942513002962 putative active site [active] 942513002963 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 942513002964 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 942513002965 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 942513002966 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 942513002967 Ligand Binding Site [chemical binding]; other site 942513002968 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 942513002970 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 942513002971 substrate binding site [chemical binding]; other site 942513002972 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 942513002973 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 942513002974 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 942513002975 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 942513002976 metal binding site 2 [ion binding]; metal-binding site 942513002977 putative DNA binding helix; other site 942513002978 metal binding site 1 [ion binding]; metal-binding site 942513002979 dimer interface [polypeptide binding]; other site 942513002980 structural Zn2+ binding site [ion binding]; other site 942513002981 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 942513002982 Low molecular weight phosphatase family; Region: LMWPc; cd00115 942513002983 active site 942513002984 glycerate kinase; Region: TIGR00045 942513002985 Methyltransferase domain; Region: Methyltransf_31; pfam13847 942513002986 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 942513002987 S-adenosylmethionine binding site [chemical binding]; other site 942513002988 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 942513002989 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 942513002990 metal-binding site [ion binding] 942513002992 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 942513002993 active site 942513002994 catalytic triad [active] 942513002995 oxyanion hole [active] 942513002996 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 942513002997 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 942513002998 active site 942513002999 oxyanion hole [active] 942513003000 catalytic triad [active] 942513003001 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513003002 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513003003 Homeodomain-like domain; Region: HTH_32; pfam13565 942513003004 Integrase core domain; Region: rve; pfam00665 942513003005 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 942513003006 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 942513003007 acyl-activating enzyme (AAE) consensus motif; other site 942513003008 putative AMP binding site [chemical binding]; other site 942513003009 putative active site [active] 942513003010 putative CoA binding site [chemical binding]; other site 942513003011 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 942513003012 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 942513003013 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513003014 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513003015 Homeodomain-like domain; Region: HTH_32; pfam13565 942513003016 Integrase core domain; Region: rve; pfam00665 942513003017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 942513003018 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 942513003019 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 942513003020 N-acetyl-D-glucosamine binding site [chemical binding]; other site 942513003021 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 942513003022 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 942513003023 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 942513003024 active site 942513003026 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 942513003027 tetramerization interface [polypeptide binding]; other site 942513003028 active site 942513003029 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 942513003030 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 942513003031 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 942513003032 enolase; Provisional; Region: eno; PRK00077 942513003033 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 942513003034 dimer interface [polypeptide binding]; other site 942513003035 metal binding site [ion binding]; metal-binding site 942513003036 substrate binding pocket [chemical binding]; other site 942513003037 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 942513003038 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 942513003039 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 942513003040 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 942513003041 catalytic loop [active] 942513003042 iron binding site [ion binding]; other site 942513003043 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 942513003044 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 942513003045 dimer interface [polypeptide binding]; other site 942513003046 putative radical transfer pathway; other site 942513003047 diiron center [ion binding]; other site 942513003048 tyrosyl radical; other site 942513003049 N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; Region: EcoRII_N; cd10016 942513003050 DNA binding site [nucleotide binding] 942513003051 EcoRII C terminal; Region: EcoRII-C; pfam09019 942513003052 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 942513003053 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 942513003054 cofactor binding site; other site 942513003055 DNA binding site [nucleotide binding] 942513003056 substrate interaction site [chemical binding]; other site 942513003057 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 942513003058 ATP cone domain; Region: ATP-cone; pfam03477 942513003059 Class I ribonucleotide reductase; Region: RNR_I; cd01679 942513003060 active site 942513003061 dimer interface [polypeptide binding]; other site 942513003062 catalytic residues [active] 942513003063 effector binding site; other site 942513003064 R2 peptide binding site; other site 942513003065 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 942513003066 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 942513003067 putative acyl-acceptor binding pocket; other site 942513003068 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 942513003069 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 942513003070 DNA binding site [nucleotide binding] 942513003071 catalytic residue [active] 942513003072 H2TH interface [polypeptide binding]; other site 942513003073 putative catalytic residues [active] 942513003074 turnover-facilitating residue; other site 942513003075 intercalation triad [nucleotide binding]; other site 942513003076 8OG recognition residue [nucleotide binding]; other site 942513003077 putative reading head residues; other site 942513003078 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 942513003079 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 942513003080 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 942513003081 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 942513003082 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 942513003083 N-acetyl-D-glucosamine binding site [chemical binding]; other site 942513003084 catalytic residue [active] 942513003085 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 942513003086 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 942513003087 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 942513003088 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 942513003089 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 942513003090 RNA binding surface [nucleotide binding]; other site 942513003091 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 942513003092 active site 942513003093 uracil binding [chemical binding]; other site 942513003095 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 942513003096 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 942513003097 CMP-binding site; other site 942513003098 The sites determining sugar specificity; other site 942513003099 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 942513003100 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 942513003101 RNA binding site [nucleotide binding]; other site 942513003102 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 942513003103 RNA binding site [nucleotide binding]; other site 942513003104 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 942513003105 RNA binding site [nucleotide binding]; other site 942513003106 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 942513003107 RNA binding site [nucleotide binding]; other site 942513003108 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 942513003109 RNA binding site [nucleotide binding]; other site 942513003110 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 942513003111 RNA binding site [nucleotide binding]; other site 942513003112 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 942513003113 IHF dimer interface [polypeptide binding]; other site 942513003114 IHF - DNA interface [nucleotide binding]; other site 942513003115 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 942513003116 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 942513003117 DNA binding residues [nucleotide binding] 942513003118 putative dimer interface [polypeptide binding]; other site 942513003119 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 942513003120 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 942513003121 substrate binding site [chemical binding]; other site 942513003122 catalytic Zn binding site [ion binding]; other site 942513003123 NAD binding site [chemical binding]; other site 942513003124 structural Zn binding site [ion binding]; other site 942513003125 dimer interface [polypeptide binding]; other site 942513003126 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 942513003127 S-formylglutathione hydrolase; Region: PLN02442 942513003128 Predicted ATPase [General function prediction only]; Region: COG1485 942513003129 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 942513003130 active site 942513003131 multimer interface [polypeptide binding]; other site 942513003132 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 942513003133 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 942513003134 FeS/SAM binding site; other site 942513003135 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 942513003136 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 942513003137 binding surface 942513003138 TPR motif; other site 942513003139 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 942513003140 TPR motif; other site 942513003141 binding surface 942513003142 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 942513003143 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 942513003144 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 942513003145 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 942513003146 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 942513003147 oligomer interface [polypeptide binding]; other site 942513003148 active site residues [active] 942513003149 trigger factor; Provisional; Region: tig; PRK01490 942513003150 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 942513003151 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 942513003152 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 942513003153 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 942513003154 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 942513003155 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 942513003156 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 942513003157 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 942513003158 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 942513003159 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 942513003160 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 942513003161 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 942513003162 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 942513003163 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 942513003164 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 942513003165 generic binding surface I; other site 942513003166 generic binding surface II; other site 942513003167 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 942513003168 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 942513003169 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 942513003170 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 942513003171 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 942513003172 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 942513003173 metal-binding site [ion binding] 942513003174 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 942513003175 Soluble P-type ATPase [General function prediction only]; Region: COG4087 942513003176 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 942513003177 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 942513003178 GIY-YIG motif/motif A; other site 942513003179 active site 942513003180 catalytic site [active] 942513003181 putative DNA binding site [nucleotide binding]; other site 942513003182 metal binding site [ion binding]; metal-binding site 942513003183 UvrB/uvrC motif; Region: UVR; pfam02151 942513003184 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 942513003185 Helix-hairpin-helix motif; Region: HHH; pfam00633 942513003186 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 942513003187 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 942513003188 Sel1-like repeats; Region: SEL1; smart00671 942513003189 Sel1-like repeats; Region: SEL1; smart00671 942513003190 Sel1-like repeats; Region: SEL1; smart00671 942513003191 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 942513003192 S-adenosylmethionine binding site [chemical binding]; other site 942513003193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 942513003194 KilA-N domain; Region: KilA-N; pfam04383 942513003195 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 942513003196 excinuclease ABC subunit B; Provisional; Region: PRK05298 942513003197 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 942513003198 ATP-binding site [chemical binding]; other site 942513003199 ATP binding site [chemical binding]; other site 942513003200 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 942513003201 nucleotide binding region [chemical binding]; other site 942513003202 ATP-binding site [chemical binding]; other site 942513003203 Ultra-violet resistance protein B; Region: UvrB; pfam12344 942513003204 UvrB/uvrC motif; Region: UVR; pfam02151 942513003205 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 942513003206 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 942513003207 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 942513003208 protein binding site [polypeptide binding]; other site 942513003209 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 942513003210 Catalytic dyad [active] 942513003211 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 942513003212 Peptidase family M23; Region: Peptidase_M23; pfam01551 942513003213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 942513003214 CreA protein; Region: CreA; pfam05981 942513003215 Putative transcriptional regulator [Transcription]; Region: COG1678 942513003216 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 942513003217 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 942513003218 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 942513003219 prolyl-tRNA synthetase; Provisional; Region: PRK09194 942513003220 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 942513003221 dimer interface [polypeptide binding]; other site 942513003222 motif 1; other site 942513003223 active site 942513003224 motif 2; other site 942513003225 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 942513003226 putative deacylase active site [active] 942513003227 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 942513003228 active site 942513003229 motif 3; other site 942513003230 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 942513003231 anticodon binding site; other site 942513003232 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 942513003233 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 942513003234 dimer interface [polypeptide binding]; other site 942513003235 TPP-binding site [chemical binding]; other site 942513003236 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 942513003237 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 942513003238 E3 interaction surface; other site 942513003239 lipoyl attachment site [posttranslational modification]; other site 942513003240 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 942513003241 E3 interaction surface; other site 942513003242 lipoyl attachment site [posttranslational modification]; other site 942513003243 e3 binding domain; Region: E3_binding; pfam02817 942513003244 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 942513003245 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 942513003246 E3 interaction surface; other site 942513003247 lipoyl attachment site [posttranslational modification]; other site 942513003248 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 942513003249 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 942513003250 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 942513003251 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 942513003252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 942513003253 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 942513003254 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 942513003255 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 942513003256 N-terminal plug; other site 942513003257 ligand-binding site [chemical binding]; other site 942513003258 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 942513003259 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 942513003260 active site 942513003261 dimerization interface [polypeptide binding]; other site 942513003262 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 942513003263 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 942513003264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 942513003265 16S rRNA methyltransferase B; Provisional; Region: PRK10901 942513003266 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 942513003267 S-adenosylmethionine binding site [chemical binding]; other site 942513003268 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 942513003269 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 942513003270 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 942513003271 NAD(P) binding site [chemical binding]; other site 942513003272 catalytic residues [active] 942513003273 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 942513003274 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 942513003275 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 942513003276 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 942513003277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 942513003278 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 942513003279 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 942513003280 GatB domain; Region: GatB_Yqey; smart00845 942513003281 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 942513003282 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 942513003283 catalytic loop [active] 942513003284 iron binding site [ion binding]; other site 942513003285 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 942513003286 FAD binding pocket [chemical binding]; other site 942513003287 FAD binding motif [chemical binding]; other site 942513003288 phosphate binding motif [ion binding]; other site 942513003289 beta-alpha-beta structure motif; other site 942513003290 NAD binding pocket [chemical binding]; other site 942513003291 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 942513003292 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 942513003293 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 942513003294 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 942513003295 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 942513003296 RNA binding surface [nucleotide binding]; other site 942513003297 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 942513003298 probable active site [active] 942513003299 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 942513003300 Major Facilitator Superfamily; Region: MFS_1; pfam07690 942513003301 putative substrate translocation pore; other site 942513003302 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 942513003303 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 942513003304 generic binding surface II; other site 942513003305 generic binding surface I; other site 942513003306 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 942513003307 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 942513003308 homodimer interface [polypeptide binding]; other site 942513003309 NAD binding pocket [chemical binding]; other site 942513003310 ATP binding pocket [chemical binding]; other site 942513003311 Mg binding site [ion binding]; other site 942513003312 active-site loop [active] 942513003313 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 942513003314 Hemerythrin-like domain; Region: Hr-like; cd12108 942513003315 Fe binding site [ion binding]; other site 942513003316 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 942513003317 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 942513003318 catalytic residues [active] 942513003319 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 942513003320 S-adenosylmethionine binding site [chemical binding]; other site 942513003321 helicase 45; Provisional; Region: PTZ00424 942513003322 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 942513003323 ATP binding site [chemical binding]; other site 942513003324 Mg++ binding site [ion binding]; other site 942513003325 motif III; other site 942513003326 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 942513003327 nucleotide binding region [chemical binding]; other site 942513003328 ATP-binding site [chemical binding]; other site 942513003329 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 942513003330 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 942513003331 inhibitor-cofactor binding pocket; inhibition site 942513003332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513003333 catalytic residue [active] 942513003334 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 942513003335 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 942513003336 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 942513003337 Walker A motif; other site 942513003338 ATP binding site [chemical binding]; other site 942513003339 Walker B motif; other site 942513003340 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 942513003341 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 942513003342 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 942513003343 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 942513003344 RNA binding site [nucleotide binding]; other site 942513003345 active site 942513003346 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 942513003348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 942513003349 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 942513003350 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 942513003351 phosphate binding site [ion binding]; other site 942513003352 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 942513003353 Rrf2 family protein; Region: rrf2_super; TIGR00738 942513003354 cysteine desulfurase; Provisional; Region: PRK14012 942513003355 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 942513003356 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 942513003357 catalytic residue [active] 942513003358 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 942513003359 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 942513003360 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 942513003361 trimerization site [polypeptide binding]; other site 942513003362 active site 942513003363 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 942513003364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 942513003365 co-chaperone HscB; Provisional; Region: hscB; PRK03578 942513003366 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 942513003367 HSP70 interaction site [polypeptide binding]; other site 942513003368 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 942513003369 DNA gyrase subunit A; Validated; Region: PRK05560 942513003370 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 942513003371 CAP-like domain; other site 942513003372 active site 942513003373 primary dimer interface [polypeptide binding]; other site 942513003374 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 942513003375 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 942513003376 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 942513003377 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 942513003378 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 942513003381 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 942513003382 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 942513003383 active site 942513003384 dimer interface [polypeptide binding]; other site 942513003385 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 942513003386 dimer interface [polypeptide binding]; other site 942513003387 active site 942513003388 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 942513003389 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 942513003390 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 942513003391 putative active site [active] 942513003392 glucokinase; Provisional; Region: glk; PRK00292 942513003393 glucokinase, proteobacterial type; Region: glk; TIGR00749 942513003394 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 942513003395 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 942513003396 putative active site [active] 942513003397 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 942513003398 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 942513003399 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 942513003400 phosphogluconate dehydratase; Validated; Region: PRK09054 942513003401 6-phosphogluconate dehydratase; Region: edd; TIGR01196 942513003402 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 942513003403 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 942513003404 active site 942513003405 intersubunit interface [polypeptide binding]; other site 942513003406 catalytic residue [active] 942513003408 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 942513003409 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 942513003410 minor groove reading motif; other site 942513003411 helix-hairpin-helix signature motif; other site 942513003412 substrate binding pocket [chemical binding]; other site 942513003413 active site 942513003414 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 942513003415 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 942513003416 DNA binding and oxoG recognition site [nucleotide binding] 942513003417 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 942513003418 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 942513003419 E-class dimer interface [polypeptide binding]; other site 942513003420 P-class dimer interface [polypeptide binding]; other site 942513003421 active site 942513003422 Cu2+ binding site [ion binding]; other site 942513003423 Zn2+ binding site [ion binding]; other site 942513003425 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513003426 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513003427 Homeodomain-like domain; Region: HTH_32; pfam13565 942513003428 Integrase core domain; Region: rve; pfam00665 942513003430 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 942513003432 aminopeptidase N; Provisional; Region: pepN; PRK14015 942513003433 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 942513003434 active site 942513003435 Zn binding site [ion binding]; other site 942513003436 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 942513003437 active site 942513003438 catalytic site [active] 942513003439 substrate binding site [chemical binding]; other site 942513003440 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 942513003441 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 942513003442 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 942513003443 putative acyl-acceptor binding pocket; other site 942513003444 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 942513003445 active site 942513003446 putative DNA-binding cleft [nucleotide binding]; other site 942513003447 dimer interface [polypeptide binding]; other site 942513003448 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 942513003449 DNA-binding protein Fis; Provisional; Region: PRK01905 942513003450 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513003451 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513003452 Homeodomain-like domain; Region: HTH_32; pfam13565 942513003453 Integrase core domain; Region: rve; pfam00665 942513003455 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 942513003456 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 942513003457 ATP binding site [chemical binding]; other site 942513003458 Mg++ binding site [ion binding]; other site 942513003459 motif III; other site 942513003460 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 942513003461 nucleotide binding region [chemical binding]; other site 942513003462 ATP-binding site [chemical binding]; other site 942513003463 Fic family protein [Function unknown]; Region: COG3177 942513003464 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 942513003465 Fic/DOC family; Region: Fic; pfam02661 942513003466 Protein of unknown function (DUF723); Region: DUF723; pfam05265 942513003467 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 942513003468 Catalytic site [active] 942513003469 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 942513003470 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 942513003471 dimer interface [polypeptide binding]; other site 942513003472 putative anticodon binding site; other site 942513003473 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 942513003474 motif 1; other site 942513003475 active site 942513003476 motif 2; other site 942513003477 motif 3; other site 942513003479 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 942513003480 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 942513003481 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 942513003482 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 942513003483 active site 942513003485 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 942513003486 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 942513003487 eyelet of channel; other site 942513003488 trimer interface [polypeptide binding]; other site 942513003489 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 942513003490 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 942513003491 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 942513003492 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 942513003493 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 942513003494 hinge; other site 942513003495 active site 942513003496 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 942513003497 NlpC/P60 family; Region: NLPC_P60; pfam00877 942513003498 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 942513003499 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 942513003500 putative active site [active] 942513003501 catalytic site [active] 942513003502 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 942513003503 putative active site [active] 942513003504 catalytic site [active] 942513003505 putative transporter; Provisional; Region: PRK10504 942513003506 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 942513003507 putative substrate translocation pore; other site 942513003508 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 942513003509 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 942513003510 Cysteine-rich domain; Region: CCG; pfam02754 942513003511 Cysteine-rich domain; Region: CCG; pfam02754 942513003512 Uncharacterized conserved protein [Function unknown]; Region: COG1556 942513003513 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 942513003514 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 942513003515 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 942513003516 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 942513003517 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 942513003518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 942513003519 Tetratricopeptide repeat; Region: TPR_6; pfam13174 942513003520 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 942513003521 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 942513003522 S-adenosylmethionine binding site [chemical binding]; other site 942513003523 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 942513003524 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 942513003525 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 942513003526 ATP binding site [chemical binding]; other site 942513003527 Mg2+ binding site [ion binding]; other site 942513003528 G-X-G motif; other site 942513003529 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 942513003530 ATP binding site [chemical binding]; other site 942513003531 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 942513003532 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 942513003533 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 942513003534 Walker A motif; other site 942513003535 ATP binding site [chemical binding]; other site 942513003536 Walker B motif; other site 942513003537 arginine finger; other site 942513003538 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 942513003539 hypothetical protein; Validated; Region: PRK00153 942513003540 recombinase A; Provisional; Region: recA; PRK09354 942513003541 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 942513003542 hexamer interface [polypeptide binding]; other site 942513003543 Walker A motif; other site 942513003544 ATP binding site [chemical binding]; other site 942513003545 Walker B motif; other site 942513003546 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 942513003547 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 942513003548 active site 942513003549 catalytic residue [active] 942513003550 dimer interface [polypeptide binding]; other site 942513003551 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 942513003552 Family description; Region: UvrD_C_2; pfam13538 942513003553 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 942513003554 active site 942513003555 DNA polymerase IV; Validated; Region: PRK02406 942513003556 DNA binding site [nucleotide binding] 942513003558 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 942513003559 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 942513003560 FAD binding pocket [chemical binding]; other site 942513003561 FAD binding motif [chemical binding]; other site 942513003562 phosphate binding motif [ion binding]; other site 942513003563 beta-alpha-beta structure motif; other site 942513003564 NAD binding pocket [chemical binding]; other site 942513003565 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 942513003566 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 942513003567 active site 942513003568 catalytic site [active] 942513003569 substrate binding site [chemical binding]; other site 942513003570 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 942513003571 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 942513003572 FMN binding site [chemical binding]; other site 942513003573 substrate binding site [chemical binding]; other site 942513003574 putative catalytic residue [active] 942513003575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 942513003576 FixH; Region: FixH; pfam05751 942513003577 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 942513003578 4Fe-4S binding domain; Region: Fer4_5; pfam12801 942513003579 4Fe-4S binding domain; Region: Fer4_3; pfam12798 942513003580 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 942513003581 transketolase; Reviewed; Region: PRK12753 942513003582 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 942513003583 TPP-binding site [chemical binding]; other site 942513003584 dimer interface [polypeptide binding]; other site 942513003585 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 942513003586 PYR/PP interface [polypeptide binding]; other site 942513003587 dimer interface [polypeptide binding]; other site 942513003588 TPP binding site [chemical binding]; other site 942513003589 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 942513003590 fumarate hydratase; Reviewed; Region: fumC; PRK00485 942513003591 Class II fumarases; Region: Fumarase_classII; cd01362 942513003592 active site 942513003593 tetramer interface [polypeptide binding]; other site 942513003594 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 942513003595 EamA-like transporter family; Region: EamA; pfam00892 942513003596 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 942513003597 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 942513003598 dimer interface [polypeptide binding]; other site 942513003599 ssDNA binding site [nucleotide binding]; other site 942513003600 tetramer (dimer of dimers) interface [polypeptide binding]; other site 942513003601 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 942513003602 Major Facilitator Superfamily; Region: MFS_1; pfam07690 942513003603 putative substrate translocation pore; other site 942513003604 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 942513003605 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 942513003606 N-acetyl-D-glucosamine binding site [chemical binding]; other site 942513003607 catalytic residue [active] 942513003608 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513003609 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 942513003610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 942513003613 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 942513003614 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 942513003615 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 942513003616 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 942513003617 active site 942513003618 HIGH motif; other site 942513003619 dimer interface [polypeptide binding]; other site 942513003620 KMSKS motif; other site 942513003621 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 942513003622 Clp amino terminal domain; Region: Clp_N; pfam02861 942513003623 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 942513003624 Walker A motif; other site 942513003625 ATP binding site [chemical binding]; other site 942513003626 Walker B motif; other site 942513003627 arginine finger; other site 942513003628 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 942513003629 Walker A motif; other site 942513003630 ATP binding site [chemical binding]; other site 942513003631 Walker B motif; other site 942513003632 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 942513003633 aminotransferase AlaT; Validated; Region: PRK09265 942513003634 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 942513003635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513003636 homodimer interface [polypeptide binding]; other site 942513003637 catalytic residue [active] 942513003638 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 942513003639 active site 1 [active] 942513003640 dimer interface [polypeptide binding]; other site 942513003641 hexamer interface [polypeptide binding]; other site 942513003642 active site 2 [active] 942513003643 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 942513003644 Acetokinase family; Region: Acetate_kinase; cl17229 942513003645 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 942513003646 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 942513003647 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 942513003648 NAD(P) binding site [chemical binding]; other site 942513003649 phosphoglycolate phosphatase; Provisional; Region: PRK13222 942513003650 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 942513003651 motif II; other site 942513003652 recombination regulator RecX; Reviewed; Region: recX; PRK00117 942513003653 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 942513003654 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 942513003655 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 942513003656 Peptidase family M23; Region: Peptidase_M23; pfam01551 942513003657 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 942513003658 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 942513003659 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 942513003660 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 942513003661 Transporter associated domain; Region: CorC_HlyC; smart01091 942513003662 succinic semialdehyde dehydrogenase; Region: PLN02278 942513003663 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 942513003664 tetramerization interface [polypeptide binding]; other site 942513003665 NAD(P) binding site [chemical binding]; other site 942513003666 catalytic residues [active] 942513003667 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cl00341 942513003668 3-fold/trimer interface [polypeptide binding]; other site 942513003669 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 942513003670 carbon starvation protein A; Provisional; Region: PRK15015 942513003671 Carbon starvation protein CstA; Region: CstA; pfam02554 942513003672 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 942513003673 Uncharacterized small protein [Function unknown]; Region: COG2879 942513003674 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 942513003675 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 942513003676 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 942513003677 aspartate kinase; Reviewed; Region: PRK06635 942513003678 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 942513003679 putative nucleotide binding site [chemical binding]; other site 942513003680 putative catalytic residues [active] 942513003681 putative Mg ion binding site [ion binding]; other site 942513003682 putative aspartate binding site [chemical binding]; other site 942513003683 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 942513003684 putative allosteric regulatory site; other site 942513003685 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 942513003686 ribonuclease PH; Reviewed; Region: rph; PRK00173 942513003687 Ribonuclease PH; Region: RNase_PH_bact; cd11362 942513003688 hexamer interface [polypeptide binding]; other site 942513003689 active site 942513003690 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 942513003691 Ligand Binding Site [chemical binding]; other site 942513003692 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 942513003693 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 942513003694 putative ATP binding site [chemical binding]; other site 942513003695 putative substrate interface [chemical binding]; other site 942513003696 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 942513003697 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 942513003698 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 942513003699 active site 942513003700 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 942513003701 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 942513003702 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 942513003703 active site 942513003704 HIGH motif; other site 942513003705 KMSK motif region; other site 942513003706 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 942513003707 tRNA binding surface [nucleotide binding]; other site 942513003708 anticodon binding site; other site 942513003710 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 942513003711 dimer interface [polypeptide binding]; other site 942513003712 conserved gate region; other site 942513003713 putative PBP binding loops; other site 942513003714 ABC-ATPase subunit interface; other site 942513003715 Staphylococcal nuclease homologues; Region: SNc; smart00318 942513003716 Catalytic site; other site 942513003717 Staphylococcal nuclease homologue; Region: SNase; pfam00565 942513003718 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 942513003719 tetramer (dimer of dimers) interface [polypeptide binding]; other site 942513003720 active site 942513003721 dimer interface [polypeptide binding]; other site 942513003722 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 942513003723 homotrimer interaction site [polypeptide binding]; other site 942513003724 zinc binding site [ion binding]; other site 942513003725 CDP-binding sites; other site 942513003726 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 942513003727 substrate binding site; other site 942513003728 dimer interface; other site 942513003729 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 942513003730 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 942513003731 active site 942513003732 catalytic site [active] 942513003733 substrate binding site [chemical binding]; other site 942513003734 Major Facilitator Superfamily; Region: MFS_1; pfam07690 942513003735 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 942513003736 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 942513003737 propionate/acetate kinase; Provisional; Region: PRK12379 942513003738 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 942513003739 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 942513003740 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 942513003741 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 942513003742 DsbD alpha interface [polypeptide binding]; other site 942513003743 catalytic residues [active] 942513003744 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 942513003745 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 942513003746 active site lid residues [active] 942513003747 substrate binding pocket [chemical binding]; other site 942513003748 catalytic residues [active] 942513003749 substrate-Mg2+ binding site; other site 942513003750 aspartate-rich region 1; other site 942513003751 aspartate-rich region 2; other site 942513003752 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 942513003753 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 942513003754 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 942513003755 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 942513003756 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 942513003757 Autotransporter beta-domain; Region: Autotransporter; pfam03797 942513003758 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 942513003759 SmpB-tmRNA interface; other site 942513003760 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 942513003761 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 942513003762 putative active site [active] 942513003763 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 942513003764 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 942513003765 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 942513003766 DNA binding site [nucleotide binding] 942513003767 active site 942513003768 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 942513003770 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 942513003771 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 942513003772 metal binding site [ion binding]; metal-binding site 942513003773 dimer interface [polypeptide binding]; other site 942513003774 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 942513003775 Hemerythrin family; Region: Hemerythrin-like; cl15774 942513003776 Fe binding site [ion binding]; other site 942513003777 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 942513003778 Protein of unknown function (DUF721); Region: DUF721; pfam05258 942513003779 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 942513003780 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 942513003781 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 942513003782 SEC-C motif; Region: SEC-C; pfam02810 942513003783 DNA primase; Validated; Region: dnaG; PRK05667 942513003784 CHC2 zinc finger; Region: zf-CHC2; pfam01807 942513003785 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 942513003786 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 942513003787 active site 942513003788 metal binding site [ion binding]; metal-binding site 942513003789 interdomain interaction site; other site 942513003790 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 942513003791 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 942513003792 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 942513003793 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 942513003794 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 942513003795 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 942513003796 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 942513003797 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 942513003798 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 942513003799 DNA binding residues [nucleotide binding] 942513003800 Transposase domain (DUF772); Region: DUF772; pfam05598 942513003801 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513003802 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 942513003803 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 942513003804 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 942513003805 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 942513003806 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 942513003807 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 942513003809 CTP synthetase; Validated; Region: pyrG; PRK05380 942513003810 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 942513003811 Catalytic site [active] 942513003812 active site 942513003813 UTP binding site [chemical binding]; other site 942513003814 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 942513003815 active site 942513003816 putative oxyanion hole; other site 942513003817 catalytic triad [active] 942513003818 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 942513003819 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 942513003820 acyl-activating enzyme (AAE) consensus motif; other site 942513003821 putative AMP binding site [chemical binding]; other site 942513003822 putative active site [active] 942513003823 putative CoA binding site [chemical binding]; other site 942513003824 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 942513003825 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 942513003826 Ligand Binding Site [chemical binding]; other site 942513003827 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 942513003828 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 942513003829 glutathione synthetase; Provisional; Region: PRK05246 942513003830 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 942513003831 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 942513003832 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 942513003833 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 942513003834 active site 942513003835 HIGH motif; other site 942513003836 nucleotide binding site [chemical binding]; other site 942513003837 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 942513003838 KMSKS motif; other site 942513003839 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 942513003840 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 942513003841 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 942513003842 putative DNA binding site [nucleotide binding]; other site 942513003843 putative Zn2+ binding site [ion binding]; other site 942513003844 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 942513003845 Predicted membrane protein [Function unknown]; Region: COG2431 942513003846 Transcriptional regulators [Transcription]; Region: GntR; COG1802 942513003847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 942513003848 DNA-binding site [nucleotide binding]; DNA binding site 942513003849 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 942513003850 OsmC-like protein; Region: OsmC; cl00767 942513003851 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 942513003852 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 942513003853 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 942513003854 active site 942513003855 substrate binding site [chemical binding]; other site 942513003856 cosubstrate binding site; other site 942513003857 catalytic site [active] 942513003858 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 942513003859 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 942513003860 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 942513003861 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 942513003862 multifunctional aminopeptidase A; Provisional; Region: PRK00913 942513003863 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 942513003864 interface (dimer of trimers) [polypeptide binding]; other site 942513003865 Substrate-binding/catalytic site; other site 942513003866 Zn-binding sites [ion binding]; other site 942513003867 Predicted permeases [General function prediction only]; Region: COG0795 942513003868 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 942513003869 Predicted permeases [General function prediction only]; Region: COG0795 942513003870 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 942513003871 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 942513003872 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 942513003873 substrate binding site [chemical binding]; other site 942513003874 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 942513003875 substrate binding site [chemical binding]; other site 942513003876 ligand binding site [chemical binding]; other site 942513003877 ornithine carbamoyltransferase; Validated; Region: PRK02102 942513003878 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 942513003879 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 942513003880 ketol-acid reductoisomerase; Provisional; Region: PRK05479 942513003881 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 942513003882 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 942513003883 Uncharacterized conserved protein [Function unknown]; Region: COG1359 942513003884 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 942513003885 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 942513003886 putative valine binding site [chemical binding]; other site 942513003887 dimer interface [polypeptide binding]; other site 942513003888 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 942513003889 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 942513003890 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 942513003891 PYR/PP interface [polypeptide binding]; other site 942513003892 dimer interface [polypeptide binding]; other site 942513003893 TPP binding site [chemical binding]; other site 942513003894 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 942513003895 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 942513003896 TPP-binding site [chemical binding]; other site 942513003897 dimer interface [polypeptide binding]; other site 942513003898 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 942513003899 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 942513003900 Cu(I) binding site [ion binding]; other site 942513003901 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 942513003902 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 942513003903 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 942513003904 GIY-YIG motif/motif A; other site 942513003905 putative active site [active] 942513003906 putative metal binding site [ion binding]; other site 942513003907 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 942513003908 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 942513003909 NAD binding site [chemical binding]; other site 942513003910 dimerization interface [polypeptide binding]; other site 942513003911 product binding site; other site 942513003912 substrate binding site [chemical binding]; other site 942513003913 zinc binding site [ion binding]; other site 942513003914 catalytic residues [active] 942513003915 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 942513003916 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 942513003917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513003918 homodimer interface [polypeptide binding]; other site 942513003919 catalytic residue [active] 942513003920 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 942513003921 putative active site pocket [active] 942513003922 4-fold oligomerization interface [polypeptide binding]; other site 942513003923 metal binding residues [ion binding]; metal-binding site 942513003924 3-fold/trimer interface [polypeptide binding]; other site 942513003925 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 942513003926 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 942513003929 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 942513003930 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 942513003931 putative inner membrane peptidase; Provisional; Region: PRK11778 942513003932 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 942513003933 tandem repeat interface [polypeptide binding]; other site 942513003934 oligomer interface [polypeptide binding]; other site 942513003935 active site residues [active] 942513003936 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 942513003938 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 942513003939 Cupin; Region: Cupin_6; pfam12852 942513003940 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 942513003941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 942513003942 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 942513003943 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 942513003944 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 942513003945 EamA-like transporter family; Region: EamA; pfam00892 942513003946 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 942513003947 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 942513003948 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 942513003949 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 942513003950 motif 1; other site 942513003951 active site 942513003952 motif 2; other site 942513003953 motif 3; other site 942513003954 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 942513003955 DHHA1 domain; Region: DHHA1; pfam02272 942513003957 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513003958 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513003959 Homeodomain-like domain; Region: HTH_32; pfam13565 942513003960 Integrase core domain; Region: rve; pfam00665 942513003961 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 942513003962 catalytic core [active] 942513003963 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 942513003964 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 942513003965 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 942513003966 CAP-like domain; other site 942513003967 active site 942513003968 primary dimer interface [polypeptide binding]; other site 942513003970 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 942513003971 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 942513003972 active site 942513003973 phosphorylation site [posttranslational modification] 942513003974 intermolecular recognition site; other site 942513003975 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 942513003976 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 942513003977 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 942513003978 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 942513003979 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 942513003980 homodimer interface [polypeptide binding]; other site 942513003981 substrate-cofactor binding pocket; other site 942513003982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513003983 catalytic residue [active] 942513003984 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 942513003985 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 942513003986 substrate binding pocket [chemical binding]; other site 942513003987 membrane-bound complex binding site; other site 942513003988 hinge residues; other site 942513003989 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 942513003990 Fumarase C-terminus; Region: Fumerase_C; pfam05683 942513003991 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 942513003992 TrkA-N domain; Region: TrkA_N; pfam02254 942513003993 TrkA-C domain; Region: TrkA_C; pfam02080 942513003994 TrkA-N domain; Region: TrkA_N; pfam02254 942513003995 TrkA-C domain; Region: TrkA_C; pfam02080 942513003996 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513003997 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513003998 Homeodomain-like domain; Region: HTH_32; pfam13565 942513003999 Integrase core domain; Region: rve; pfam00665 942513004000 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 942513004001 dimer interface [polypeptide binding]; other site 942513004002 substrate binding site [chemical binding]; other site 942513004003 ATP binding site [chemical binding]; other site 942513004004 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 942513004005 tellurite resistance protein TehB; Provisional; Region: PRK12335 942513004006 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 942513004007 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 942513004008 RNA/DNA hybrid binding site [nucleotide binding]; other site 942513004009 active site 942513004010 HIT domain; Region: HIT; pfam01230 942513004011 HIT family signature motif; other site 942513004012 catalytic residue [active] 942513004013 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 942513004014 dimer interface [polypeptide binding]; other site 942513004015 catalytic triad [active] 942513004016 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 942513004017 catalytic residues [active] 942513004018 dimer interface [polypeptide binding]; other site 942513004019 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 942513004020 trimer interface [polypeptide binding]; other site 942513004021 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 942513004022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 942513004024 Mu-like prophage protein gp46 [Function unknown]; Region: COG4381 942513004025 Mu-like prophage protein gp45 [Function unknown]; Region: COG4384 942513004026 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 942513004027 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 942513004028 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 942513004029 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 942513004030 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 942513004032 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 942513004033 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 942513004034 non-specific DNA binding site [nucleotide binding]; other site 942513004035 salt bridge; other site 942513004036 sequence-specific DNA binding site [nucleotide binding]; other site 942513004037 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 942513004038 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 942513004039 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 942513004040 Mu-like prophage protein gp36 [Function unknown]; Region: COG4387 942513004041 Mu-like prophage major head subunit gpT [General function prediction only]; Region: COG4397 942513004042 Mu-like prophage I protein [General function prediction only]; Region: COG4388 942513004043 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 942513004044 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 942513004045 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 942513004046 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 942513004047 Protein of unknown function (DUF935); Region: DUF935; pfam06074 942513004048 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 942513004049 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 942513004050 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 942513004051 Uncharacterized conserved protein [Function unknown]; Region: COG3422 942513004052 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 942513004053 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 942513004054 active site 942513004055 metal binding site [ion binding]; metal-binding site 942513004056 Mor transcription activator family; Region: Mor; cl02360 942513004057 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 942513004058 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 942513004059 IHF dimer interface [polypeptide binding]; other site 942513004060 IHF - DNA interface [nucleotide binding]; other site 942513004061 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 942513004062 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 942513004063 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 942513004064 non-specific DNA binding site [nucleotide binding]; other site 942513004065 salt bridge; other site 942513004066 sequence-specific DNA binding site [nucleotide binding]; other site 942513004067 AAA domain; Region: AAA_30; pfam13604 942513004069 Predicted transcriptional regulator [Transcription]; Region: Nlp; COG3423 942513004070 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 942513004071 Predicted transcriptional regulator [Transcription]; Region: COG2932 942513004072 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 942513004073 Catalytic site [active] 942513004074 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 942513004075 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 942513004076 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 942513004077 Multicopper oxidase; Region: Cu-oxidase; pfam00394 942513004078 Uncharacterized conserved protein [Function unknown]; Region: COG1262 942513004079 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 942513004081 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 942513004082 putative FMN binding site [chemical binding]; other site 942513004083 putative metal dependent hydrolase; Provisional; Region: PRK11598 942513004084 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 942513004085 Sulfatase; Region: Sulfatase; pfam00884 942513004086 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 942513004087 homodimer interface [polypeptide binding]; other site 942513004088 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 942513004089 substrate-cofactor binding pocket; other site 942513004090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513004091 catalytic residue [active] 942513004092 ribosome maturation protein RimP; Reviewed; Region: PRK00092 942513004093 Sm and related proteins; Region: Sm_like; cl00259 942513004094 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 942513004095 putative oligomer interface [polypeptide binding]; other site 942513004096 putative RNA binding site [nucleotide binding]; other site 942513004097 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 942513004098 NusA N-terminal domain; Region: NusA_N; pfam08529 942513004099 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 942513004100 RNA binding site [nucleotide binding]; other site 942513004101 homodimer interface [polypeptide binding]; other site 942513004102 NusA-like KH domain; Region: KH_5; pfam13184 942513004103 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 942513004104 G-X-X-G motif; other site 942513004105 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 942513004106 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 942513004107 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 942513004108 translation initiation factor IF-2; Region: IF-2; TIGR00487 942513004109 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 942513004110 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 942513004111 G1 box; other site 942513004112 putative GEF interaction site [polypeptide binding]; other site 942513004113 GTP/Mg2+ binding site [chemical binding]; other site 942513004114 Switch I region; other site 942513004115 G2 box; other site 942513004116 G3 box; other site 942513004117 Switch II region; other site 942513004118 G4 box; other site 942513004119 G5 box; other site 942513004120 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 942513004121 Translation-initiation factor 2; Region: IF-2; pfam11987 942513004122 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 942513004123 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 942513004124 G1 box; other site 942513004125 GTP/Mg2+ binding site [chemical binding]; other site 942513004126 G2 box; other site 942513004127 Switch I region; other site 942513004128 G3 box; other site 942513004129 Switch II region; other site 942513004130 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 942513004131 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 942513004132 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 942513004133 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 942513004134 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 942513004135 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 942513004136 hypothetical protein; Validated; Region: PRK00110 942513004137 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 942513004138 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 942513004139 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 942513004140 putative DNA binding site [nucleotide binding]; other site 942513004141 putative Zn2+ binding site [ion binding]; other site 942513004142 AsnC family; Region: AsnC_trans_reg; pfam01037 942513004143 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 942513004144 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 942513004145 active site 942513004146 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 942513004147 substrate binding site [chemical binding]; other site 942513004148 catalytic residues [active] 942513004149 dimer interface [polypeptide binding]; other site 942513004151 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 942513004152 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 942513004153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 942513004154 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 942513004155 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 942513004156 S-adenosylmethionine binding site [chemical binding]; other site 942513004157 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 942513004158 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 942513004159 comEA protein; Region: comE; TIGR01259 942513004160 Helix-hairpin-helix motif; Region: HHH; pfam00633 942513004161 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 942513004162 Flavoprotein; Region: Flavoprotein; pfam02441 942513004163 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 942513004164 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 942513004165 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 942513004166 Zn2+ binding site [ion binding]; other site 942513004167 Mg2+ binding site [ion binding]; other site 942513004168 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 942513004169 synthetase active site [active] 942513004170 NTP binding site [chemical binding]; other site 942513004171 metal binding site [ion binding]; metal-binding site 942513004172 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 942513004173 ACT domain; Region: ACT_4; pfam13291 942513004174 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 942513004175 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 942513004176 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 942513004177 catalytic site [active] 942513004178 G-X2-G-X-G-K; other site 942513004179 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 942513004180 active site 942513004181 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 942513004182 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 942513004183 active site 942513004184 motif I; other site 942513004185 motif II; other site 942513004186 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 942513004187 motif II; other site 942513004188 putative protease; Provisional; Region: PRK15452 942513004189 Peptidase family U32; Region: Peptidase_U32; pfam01136 942513004190 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 942513004191 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 942513004192 heme binding pocket [chemical binding]; other site 942513004193 heme ligand [chemical binding]; other site 942513004194 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 942513004195 Paraquat-inducible protein A; Region: PqiA; pfam04403 942513004196 Paraquat-inducible protein A; Region: PqiA; pfam04403 942513004197 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 942513004198 mce related protein; Region: MCE; pfam02470 942513004199 mce related protein; Region: MCE; pfam02470 942513004200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 942513004201 Protein of unknown function (DUF330); Region: DUF330; pfam03886 942513004202 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 942513004203 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 942513004204 active site 942513004205 catalytic triad [active] 942513004206 oxyanion hole [active] 942513004207 switch loop; other site 942513004208 glycine dehydrogenase; Provisional; Region: PRK05367 942513004209 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 942513004210 tetramer interface [polypeptide binding]; other site 942513004211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513004212 catalytic residue [active] 942513004213 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 942513004214 tetramer interface [polypeptide binding]; other site 942513004215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513004216 catalytic residue [active] 942513004217 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 942513004218 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 942513004219 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 942513004220 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 942513004221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513004222 homodimer interface [polypeptide binding]; other site 942513004223 catalytic residue [active] 942513004224 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 942513004225 Putative methyltransferase; Region: Methyltransf_4; cl17290 942513004226 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 942513004227 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 942513004228 Tetramer interface [polypeptide binding]; other site 942513004229 active site 942513004230 FMN-binding site [chemical binding]; other site 942513004231 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 942513004232 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 942513004233 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 942513004234 ATP binding site [chemical binding]; other site 942513004235 Mg2+ binding site [ion binding]; other site 942513004236 G-X-G motif; other site 942513004237 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 942513004238 anchoring element; other site 942513004239 dimer interface [polypeptide binding]; other site 942513004240 ATP binding site [chemical binding]; other site 942513004241 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 942513004242 active site 942513004243 metal binding site [ion binding]; metal-binding site 942513004244 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 942513004245 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 942513004246 putative active site [active] 942513004247 Ap4A binding site [chemical binding]; other site 942513004248 nudix motif; other site 942513004249 putative metal binding site [ion binding]; other site 942513004250 seryl-tRNA synthetase; Provisional; Region: PRK05431 942513004251 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 942513004252 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 942513004253 dimer interface [polypeptide binding]; other site 942513004254 active site 942513004255 motif 1; other site 942513004256 motif 2; other site 942513004257 motif 3; other site 942513004258 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 942513004259 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 942513004260 putative ligand binding site [chemical binding]; other site 942513004261 putative NAD binding site [chemical binding]; other site 942513004262 catalytic site [active] 942513004263 peptide chain release factor 1; Validated; Region: prfA; PRK00591 942513004264 This domain is found in peptide chain release factors; Region: PCRF; smart00937 942513004265 RF-1 domain; Region: RF-1; pfam00472 942513004266 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 942513004267 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 942513004268 active site 942513004269 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 942513004270 active site 942513004271 homodimer interface [polypeptide binding]; other site 942513004272 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 942513004273 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 942513004274 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 942513004275 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 942513004276 active site 942513004277 substrate binding site [chemical binding]; other site 942513004278 metal binding site [ion binding]; metal-binding site 942513004279 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 942513004280 dihydropteroate synthase; Region: DHPS; TIGR01496 942513004281 substrate binding pocket [chemical binding]; other site 942513004282 dimer interface [polypeptide binding]; other site 942513004283 inhibitor binding site; inhibition site 942513004284 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 942513004285 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 942513004286 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 942513004287 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 942513004288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 942513004289 Predicted membrane protein [Function unknown]; Region: COG4648 942513004290 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 942513004291 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 942513004292 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 942513004293 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 942513004294 dimer interface [polypeptide binding]; other site 942513004295 active site 942513004296 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 942513004297 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 942513004298 putative metal binding site; other site 942513004299 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 942513004300 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 942513004301 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 942513004302 Na2 binding site [ion binding]; other site 942513004303 putative substrate binding site 1 [chemical binding]; other site 942513004304 Na binding site 1 [ion binding]; other site 942513004305 putative substrate binding site 2 [chemical binding]; other site 942513004307 thymidylate synthase; Reviewed; Region: thyA; PRK01827 942513004308 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 942513004309 dimerization interface [polypeptide binding]; other site 942513004310 active site 942513004311 glutamate dehydrogenase; Provisional; Region: PRK09414 942513004312 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 942513004313 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 942513004314 NAD(P) binding site [chemical binding]; other site 942513004315 Transcriptional regulators [Transcription]; Region: FadR; COG2186 942513004316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 942513004317 DNA-binding site [nucleotide binding]; DNA binding site 942513004318 FCD domain; Region: FCD; pfam07729 942513004319 L-lactate permease; Region: Lactate_perm; cl00701 942513004320 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 942513004321 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 942513004322 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 942513004323 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 942513004324 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 942513004325 HlyD family secretion protein; Region: HlyD_3; pfam13437 942513004326 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 942513004327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 942513004328 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 942513004329 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 942513004330 AbgT putative transporter family; Region: ABG_transport; pfam03806 942513004331 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 942513004332 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 942513004333 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 942513004334 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 942513004335 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 942513004336 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 942513004337 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 942513004338 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 942513004339 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 942513004340 Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]; Region: CcoQ; COG4736 942513004341 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 942513004342 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 942513004343 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 942513004344 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 942513004345 Low-spin heme binding site [chemical binding]; other site 942513004346 Putative water exit pathway; other site 942513004347 Binuclear center (active site) [active] 942513004348 Putative proton exit pathway; other site 942513004349 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 942513004350 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 942513004351 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 942513004352 protein binding site [polypeptide binding]; other site 942513004353 TIGR01244 family protein; Region: TIGR01244 942513004354 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 942513004355 TolR protein; Region: tolR; TIGR02801 942513004356 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 942513004357 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 942513004358 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 942513004359 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 942513004360 Peptidase family M50; Region: Peptidase_M50; pfam02163 942513004361 active site 942513004362 putative substrate binding region [chemical binding]; other site 942513004363 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 942513004364 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 942513004365 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 942513004366 C-terminal domain interface [polypeptide binding]; other site 942513004367 GSH binding site (G-site) [chemical binding]; other site 942513004368 catalytic residues [active] 942513004369 putative dimer interface [polypeptide binding]; other site 942513004370 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 942513004371 N-terminal domain interface [polypeptide binding]; other site 942513004372 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 942513004373 HD domain; Region: HD_4; pfam13328 942513004374 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 942513004375 synthetase active site [active] 942513004376 NTP binding site [chemical binding]; other site 942513004377 metal binding site [ion binding]; metal-binding site 942513004378 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 942513004379 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 942513004381 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 942513004382 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 942513004383 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 942513004384 HlyD family secretion protein; Region: HlyD_3; pfam13437 942513004385 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 942513004386 Replication initiation factor; Region: Rep_trans; pfam02486 942513004387 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 942513004389 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 942513004390 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 942513004391 G1 box; other site 942513004392 GTP/Mg2+ binding site [chemical binding]; other site 942513004393 G2 box; other site 942513004394 Switch I region; other site 942513004395 G3 box; other site 942513004396 Switch II region; other site 942513004397 G4 box; other site 942513004398 G5 box; other site 942513004399 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 942513004400 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 942513004401 active site 942513004402 phosphorylation site [posttranslational modification] 942513004403 intermolecular recognition site; other site 942513004404 dimerization interface [polypeptide binding]; other site 942513004405 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 942513004406 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 942513004407 S-adenosylmethionine binding site [chemical binding]; other site 942513004408 Protein of unknown function (DUF452); Region: DUF452; cl01062 942513004409 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 942513004410 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 942513004411 substrate-cofactor binding pocket; other site 942513004412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 942513004413 catalytic residue [active] 942513004414 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 942513004415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 942513004416 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 942513004417 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 942513004418 transmembrane helices; other site 942513004419 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 942513004420 agmatinase; Region: agmatinase; TIGR01230 942513004421 oligomer interface [polypeptide binding]; other site 942513004422 putative active site [active] 942513004423 Mn binding site [ion binding]; other site 942513004424 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 942513004425 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 942513004426 dimer interface [polypeptide binding]; other site 942513004427 active site 942513004428 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 942513004429 catalytic residues [active] 942513004430 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 942513004431 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 942513004432 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 942513004433 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 942513004434 dimer interface [polypeptide binding]; other site 942513004435 anticodon binding site; other site 942513004436 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 942513004437 homodimer interface [polypeptide binding]; other site 942513004438 motif 1; other site 942513004439 active site 942513004440 motif 2; other site 942513004441 GAD domain; Region: GAD; pfam02938 942513004442 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 942513004443 motif 3; other site 942513004444 Uncharacterized conserved protein [Function unknown]; Region: COG2928 942513004445 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 942513004446 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 942513004447 dimerization interface [polypeptide binding]; other site 942513004448 substrate binding site [chemical binding]; other site 942513004449 active site 942513004450 calcium binding site [ion binding]; other site 942513004451 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 942513004452 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 942513004453 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 942513004454 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 942513004455 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 942513004456 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 942513004457 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 942513004458 glutamate racemase; Provisional; Region: PRK00865 942513004459 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 942513004460 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 942513004461 active site 942513004462 metal binding site [ion binding]; metal-binding site 942513004463 Fic family protein [Function unknown]; Region: COG3177 942513004464 Fic/DOC family; Region: Fic; pfam02661 942513004465 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 942513004466 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 942513004467 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 942513004468 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 942513004469 active site 942513004470 8-oxo-dGMP binding site [chemical binding]; other site 942513004471 nudix motif; other site 942513004472 metal binding site [ion binding]; metal-binding site 942513004473 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 942513004474 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 942513004475 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 942513004477 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 942513004478 active site 942513004479 hydrophilic channel; other site 942513004480 dimerization interface [polypeptide binding]; other site 942513004481 catalytic residues [active] 942513004482 active site lid [active] 942513004483 Recombination protein O N terminal; Region: RecO_N; pfam11967 942513004484 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 942513004485 Recombination protein O C terminal; Region: RecO_C; pfam02565 942513004486 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 942513004487 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 942513004488 Prephenate dehydratase; Region: PDT; pfam00800 942513004489 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 942513004490 putative L-Phe binding site [chemical binding]; other site 942513004491 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 942513004492 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 942513004493 putative substrate translocation pore; other site 942513004494 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 942513004495 EamA-like transporter family; Region: EamA; pfam00892 942513004496 EamA-like transporter family; Region: EamA; pfam00892 942513004498 Predicted amidohydrolase [General function prediction only]; Region: COG0388 942513004499 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 942513004500 putative active site [active] 942513004501 catalytic triad [active] 942513004502 dimer interface [polypeptide binding]; other site 942513004503 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 942513004504 prephenate dehydrogenase; Validated; Region: PRK08507 942513004505 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 942513004506 Transcriptional regulator; Region: Rrf2; cl17282 942513004507 Rrf2 family protein; Region: rrf2_super; TIGR00738 942513004508 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 942513004509 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 942513004510 propionate/acetate kinase; Provisional; Region: PRK12379 942513004511 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 942513004512 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 942513004513 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 942513004514 substrate binding site [chemical binding]; other site 942513004515 ligand binding site [chemical binding]; other site 942513004516 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 942513004517 substrate binding site [chemical binding]; other site 942513004518 hypothetical protein; Provisional; Region: PRK10621 942513004519 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 942513004520 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 942513004521 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 942513004522 dimer interface [polypeptide binding]; other site 942513004523 active site 942513004524 citrylCoA binding site [chemical binding]; other site 942513004525 oxalacetate/citrate binding site [chemical binding]; other site 942513004526 coenzyme A binding site [chemical binding]; other site 942513004527 catalytic triad [active] 942513004528 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 942513004529 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 942513004530 tetramer interface [polypeptide binding]; other site 942513004531 active site 942513004532 Mg2+/Mn2+ binding site [ion binding]; other site 942513004533 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 942513004534 cell division protein FtsZ; Validated; Region: PRK09330 942513004535 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 942513004536 nucleotide binding site [chemical binding]; other site 942513004537 SulA interaction site; other site 942513004538 cell division protein FtsA; Region: ftsA; TIGR01174 942513004539 Cell division protein FtsA; Region: FtsA; smart00842 942513004540 Cell division protein FtsA; Region: FtsA; pfam14450 942513004541 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 942513004542 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 942513004543 Cell division protein FtsQ; Region: FtsQ; pfam03799 942513004544 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 942513004545 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 942513004546 ATP-grasp domain; Region: ATP-grasp_4; cl17255 942513004547 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 942513004548 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 942513004549 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 942513004550 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 942513004551 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 942513004552 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 942513004553 active site 942513004554 homodimer interface [polypeptide binding]; other site 942513004555 cell division protein FtsW; Region: ftsW; TIGR02614 942513004556 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 942513004557 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 942513004558 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 942513004559 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 942513004560 Sel1-like repeats; Region: SEL1; smart00671 942513004561 Sel1-like repeats; Region: SEL1; smart00671 942513004562 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 942513004563 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 942513004564 Mg++ binding site [ion binding]; other site 942513004565 putative catalytic motif [active] 942513004566 putative substrate binding site [chemical binding]; other site 942513004567 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 942513004568 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 942513004569 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 942513004570 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 942513004571 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 942513004572 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 942513004573 Sulfatase; Region: Sulfatase; pfam00884 942513004574 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 942513004575 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 942513004576 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 942513004577 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 942513004578 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 942513004579 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 942513004580 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 942513004581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 942513004582 MraW methylase family; Region: Methyltransf_5; cl17771 942513004583 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 942513004584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 942513004585 MraZ protein; Region: MraZ; pfam02381 942513004586 MraZ protein; Region: MraZ; pfam02381 942513004587 Uncharacterized conserved protein [Function unknown]; Region: COG1565 942513004588 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 942513004589 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 942513004590 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 942513004591 catalytic residues [active] 942513004592 hinge region; other site 942513004593 alpha helical domain; other site 942513004594 cell division protein FtsN; Region: ftsN; TIGR02223 942513004595 Sporulation related domain; Region: SPOR; pfam05036 942513004596 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 942513004597 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 942513004598 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 942513004599 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 942513004600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 942513004601 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 942513004602 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 942513004603 Na binding site [ion binding]; other site 942513004604 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 942513004605 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 942513004606 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 942513004607 Glutamate binding site [chemical binding]; other site 942513004608 NAD binding site [chemical binding]; other site 942513004609 catalytic residues [active] 942513004611 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 942513004612 putative catalytic site [active] 942513004613 putative phosphate binding site [ion binding]; other site 942513004614 active site 942513004615 metal binding site A [ion binding]; metal-binding site 942513004616 DNA binding site [nucleotide binding] 942513004617 putative AP binding site [nucleotide binding]; other site 942513004618 putative metal binding site B [ion binding]; other site 942513004620 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 942513004621 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 942513004622 dimerization interface [polypeptide binding]; other site 942513004623 active site 942513004624 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 942513004625 quinolinate synthetase; Provisional; Region: PRK09375 942513004626 L-aspartate oxidase; Provisional; Region: PRK06175 942513004627 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 942513004628 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 942513004630 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 942513004631 active site 942513004632 catalytic residues [active] 942513004633 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 942513004634 putative substrate translocation pore; other site 942513004635 Major Facilitator Superfamily; Region: MFS_1; pfam07690 942513004636 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 942513004637 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 942513004638 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 942513004639 ABC transporter; Region: ABC_tran_2; pfam12848 942513004640 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 942513004641 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 942513004642 tetramer interfaces [polypeptide binding]; other site 942513004643 binuclear metal-binding site [ion binding]; other site 942513004644 thiamine-monophosphate kinase; Region: thiL; TIGR01379 942513004645 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 942513004646 ATP binding site [chemical binding]; other site 942513004647 dimerization interface [polypeptide binding]; other site 942513004648 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 942513004649 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 942513004650 ligand binding site [chemical binding]; other site 942513004651 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 942513004652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 942513004653 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 942513004654 substrate binding site [chemical binding]; other site 942513004655 dimerization interface [polypeptide binding]; other site 942513004656 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 942513004657 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 942513004658 ligand binding site [chemical binding]; other site 942513004659 flexible hinge region; other site 942513004660 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 942513004661 putative switch regulator; other site 942513004662 non-specific DNA interactions [nucleotide binding]; other site 942513004663 DNA binding site [nucleotide binding] 942513004664 sequence specific DNA binding site [nucleotide binding]; other site 942513004665 putative cAMP binding site [chemical binding]; other site 942513004666 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 942513004667 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 942513004668 FeS/SAM binding site; other site 942513004669 HemN C-terminal domain; Region: HemN_C; pfam06969 942513004670 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 942513004671 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 942513004672 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 942513004673 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 942513004674 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 942513004675 Pretoxin HINT domain; Region: PT-HINT; pfam07591 942513004676 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 942513004677 thioester formation/cholesterol transfer; other site 942513004678 protein-splicing catalytic site; other site 942513004679 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 942513004680 Pretoxin HINT domain; Region: PT-HINT; pfam07591 942513004681 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 942513004682 thioester formation/cholesterol transfer; other site 942513004683 protein-splicing catalytic site; other site 942513004684 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 942513004685 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 942513004686 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 942513004687 Pretoxin HINT domain; Region: PT-HINT; pfam07591 942513004688 thioester formation/cholesterol transfer; other site 942513004689 protein-splicing catalytic site; other site 942513004691 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 942513004692 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 942513004693 GIY-YIG motif/motif A; other site 942513004694 putative active site [active] 942513004695 putative metal binding site [ion binding]; other site 942513004696 muropeptide transporter; Reviewed; Region: ampG; PRK11902 942513004697 AmpG-like permease; Region: 2A0125; TIGR00901 942513004698 glutamine synthetase; Provisional; Region: glnA; PRK09469 942513004699 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 942513004700 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 942513004701 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 942513004702 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 942513004703 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 942513004704 shikimate binding site; other site 942513004705 NAD(P) binding site [chemical binding]; other site 942513004706 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 942513004707 Transglycosylase; Region: Transgly; cl17702 942513004708 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 942513004709 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 942513004710 Walker A/P-loop; other site 942513004711 ATP binding site [chemical binding]; other site 942513004712 Q-loop/lid; other site 942513004713 ABC transporter signature motif; other site 942513004714 Walker B; other site 942513004715 D-loop; other site 942513004716 H-loop/switch region; other site 942513004717 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 942513004718 OstA-like protein; Region: OstA; pfam03968 942513004719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 942513004720 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 942513004721 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 942513004722 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 942513004723 active site 942513004724 motif I; other site 942513004725 motif II; other site 942513004726 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 942513004727 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 942513004728 putative active site [active] 942513004729 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 942513004730 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 942513004731 putative active site [active] 942513004732 transaldolase; Provisional; Region: PRK03903 942513004733 catalytic residue [active] 942513004735 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 942513004736 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 942513004737 active site 942513004738 HIGH motif; other site 942513004739 nucleotide binding site [chemical binding]; other site 942513004740 active site 942513004741 KMSKS motif; other site 942513004742 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 942513004743 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 942513004744 FMN binding site [chemical binding]; other site 942513004745 active site 942513004746 catalytic residues [active] 942513004747 substrate binding site [chemical binding]; other site 942513004748 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 942513004749 active site 942513004750 DNA binding site [nucleotide binding] 942513004751 Int/Topo IB signature motif; other site 942513004752 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 942513004753 RecT family; Region: RecT; cl04285 942513004754 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 942513004755 non-specific DNA binding site [nucleotide binding]; other site 942513004756 salt bridge; other site 942513004757 sequence-specific DNA binding site [nucleotide binding]; other site 942513004758 Predicted transcriptional regulator [Transcription]; Region: COG2932 942513004759 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 942513004760 Catalytic site [active] 942513004761 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 942513004762 Helix-turn-helix domain; Region: HTH_39; pfam14090 942513004763 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 942513004764 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 942513004765 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 942513004766 Walker A motif; other site 942513004767 ATP binding site [chemical binding]; other site 942513004768 Walker B motif; other site 942513004769 arginine finger; other site 942513004770 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 942513004771 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 942513004772 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 942513004773 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 942513004774 Prophage antirepressor [Transcription]; Region: COG3617 942513004775 BRO family, N-terminal domain; Region: Bro-N; smart01040 942513004776 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 942513004777 Ligand Binding Site [chemical binding]; other site 942513004778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 942513004779 Terminase-like family; Region: Terminase_6; pfam03237 942513004780 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 942513004781 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 942513004782 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 942513004783 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 942513004784 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 942513004785 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 942513004786 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 942513004787 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 942513004788 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 942513004789 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 942513004790 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 942513004791 NlpC/P60 family; Region: NLPC_P60; cl17555 942513004792 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 942513004793 non-specific DNA binding site [nucleotide binding]; other site 942513004794 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 942513004795 sequence-specific DNA binding site [nucleotide binding]; other site 942513004796 salt bridge; other site 942513004797 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 942513004798 Putative phage tail protein; Region: Phage-tail_3; pfam13550 942513004799 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 942513004800 Fibronectin type III protein; Region: DUF3672; pfam12421 942513004801 TIGR02594 family protein; Region: TIGR02594 942513004802 Phage-related minor tail protein [Function unknown]; Region: COG5281 942513004803 tape measure domain; Region: tape_meas_nterm; TIGR02675 942513004804 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 942513004805 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 942513004806 FMN binding site [chemical binding]; other site 942513004807 active site 942513004808 catalytic residues [active] 942513004809 substrate binding site [chemical binding]; other site 942513004810 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 942513004811 putative active site [active] 942513004812 dimerization interface [polypeptide binding]; other site 942513004813 putative tRNAtyr binding site [nucleotide binding]; other site 942513004814 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 942513004815 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 942513004816 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 942513004817 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 942513004818 YciI-like protein; Reviewed; Region: PRK11370 942513004819 intracellular septation protein A; Reviewed; Region: PRK00259 942513004820 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 942513004821 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 942513004822 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 942513004823 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 942513004824 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 942513004825 dimer interface [polypeptide binding]; other site 942513004826 active site 942513004827 metal binding site [ion binding]; metal-binding site 942513004828 glutathione binding site [chemical binding]; other site 942513004829 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 942513004830 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 942513004831 TPR motif; other site 942513004832 binding surface 942513004833 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 942513004834 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 942513004835 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 942513004836 homodimer interface [polypeptide binding]; other site 942513004837 substrate-cofactor binding pocket; other site 942513004838 catalytic residue [active] 942513004839 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 942513004840 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 942513004841 NAD binding site [chemical binding]; other site 942513004842 homotetramer interface [polypeptide binding]; other site 942513004843 homodimer interface [polypeptide binding]; other site 942513004844 substrate binding site [chemical binding]; other site 942513004845 active site 942513004846 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 942513004847 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 942513004848 trimer interface [polypeptide binding]; other site 942513004849 active site 942513004850 substrate binding site [chemical binding]; other site 942513004851 CoA binding site [chemical binding]; other site 942513004852 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 942513004853 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 942513004854 active site 942513004855 dimer interface [polypeptide binding]; other site 942513004856 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 942513004857 dimer interface [polypeptide binding]; other site 942513004858 active site 942513004859 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 942513004860 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 942513004861 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 942513004862 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 942513004863 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 942513004864 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 942513004865 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 942513004866 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 942513004867 CoA-binding site [chemical binding]; other site 942513004868 ATP-binding [chemical binding]; other site 942513004869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 942513004870 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 942513004871 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 942513004872 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 942513004873 Walker A motif; other site 942513004874 ATP binding site [chemical binding]; other site 942513004875 Walker B motif; other site 942513004876 Predicted membrane protein [Function unknown]; Region: COG2707 942513004877 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 942513004878 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 942513004879 substrate binding pocket [chemical binding]; other site 942513004880 chain length determination region; other site 942513004881 substrate-Mg2+ binding site; other site 942513004882 catalytic residues [active] 942513004883 aspartate-rich region 1; other site 942513004884 active site lid residues [active] 942513004885 aspartate-rich region 2; other site 942513004886 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 942513004887 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 942513004888 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 942513004889 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 942513004890 hypothetical protein; Provisional; Region: PRK09126 942513004891 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 942513004892 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 942513004893 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 942513004894 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 942513004895 putative substrate translocation pore; other site 942513004896 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 942513004897 HlyD family secretion protein; Region: HlyD_3; pfam13437 942513004898 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 942513004899 hypothetical protein; Provisional; Region: PRK11212 942513004900 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 942513004901 Peptidase family M23; Region: Peptidase_M23; pfam01551 942513004902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 942513004903 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 942513004904 binding surface 942513004905 Tetratricopeptide repeat; Region: TPR_16; pfam13432 942513004906 TPR motif; other site 942513004907 Protein of unknown function (DUF560); Region: DUF560; pfam04575 942513004908 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 942513004909 Autotransporter beta-domain; Region: Autotransporter; pfam03797 942513004910 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 942513004911 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 942513004912 putative active site [active] 942513004913 putative metal binding residues [ion binding]; other site 942513004914 signature motif; other site 942513004915 putative dimer interface [polypeptide binding]; other site 942513004916 putative phosphate binding site [ion binding]; other site 942513004917 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 942513004918 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 942513004919 folate binding site [chemical binding]; other site 942513004920 NADP+ binding site [chemical binding]; other site 942513004921 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 942513004922 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 942513004925 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 942513004926 comEA protein; Region: comE; TIGR01259 942513004927 Helix-hairpin-helix motif; Region: HHH; pfam00633 942513004928 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 942513004929 signal recognition particle protein; Provisional; Region: PRK10867 942513004930 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 942513004931 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 942513004932 P loop; other site 942513004933 GTP binding site [chemical binding]; other site 942513004934 Signal peptide binding domain; Region: SRP_SPB; pfam02978 942513004935 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 942513004936 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 942513004937 catalytic residues [active] 942513004938 hinge region; other site 942513004939 alpha helical domain; other site 942513004940 Uncharacterized conserved protein [Function unknown]; Region: COG1432 942513004941 LabA_like proteins; Region: LabA_like; cd06167 942513004942 putative metal binding site [ion binding]; other site 942513004943 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 942513004944 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 942513004945 N-terminal plug; other site 942513004946 ligand-binding site [chemical binding]; other site 942513004947 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 942513004948 dimer interface [polypeptide binding]; other site 942513004949 FMN binding site [chemical binding]; other site 942513004950 Predicted membrane protein [Function unknown]; Region: COG2259 942513004951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 942513004952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 942513004953 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 942513004954 putative effector binding pocket; other site 942513004955 dimerization interface [polypeptide binding]; other site 942513004956 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 942513004957 DNA photolyase; Region: DNA_photolyase; pfam00875 942513004958 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 942513004959 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 942513004960 DEAD_2; Region: DEAD_2; pfam06733 942513004961 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 942513004962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 942513004963 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 942513004964 putative metal binding site [ion binding]; other site 942513004965 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 942513004966 adenylosuccinate lyase; Provisional; Region: PRK09285 942513004967 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 942513004968 tetramer interface [polypeptide binding]; other site 942513004969 active site 942513004970 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 942513004971 Exoribonuclease R [Transcription]; Region: VacB; COG0557 942513004972 RNB domain; Region: RNB; pfam00773 942513004973 SurA N-terminal domain; Region: SurA_N; pfam09312 942513004974 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 942513004975 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 942513004976 Organic solvent tolerance protein; Region: OstA_C; pfam04453 942513004977 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 942513004978 Phosphotransferase enzyme family; Region: APH; pfam01636 942513004979 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 942513004980 catalytic residues [active] 942513004981 hinge region; other site 942513004982 alpha helical domain; other site 942513004983 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 942513004984 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 942513004985 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 942513004986 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 942513004987 active site 942513004988 ribulose/triose binding site [chemical binding]; other site 942513004989 phosphate binding site [ion binding]; other site 942513004990 substrate (anthranilate) binding pocket [chemical binding]; other site 942513004991 product (indole) binding pocket [chemical binding]; other site 942513004992 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 942513004993 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 942513004994 ATP binding site [chemical binding]; other site 942513004995 putative Mg++ binding site [ion binding]; other site 942513004996 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 942513004997 nucleotide binding region [chemical binding]; other site 942513004998 ATP-binding site [chemical binding]; other site 942513004999 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 942513005000 HRDC domain; Region: HRDC; pfam00570 942513005001 Helicase and RNase D C-terminal; Region: HRDC; smart00341 942513005002 Helicase and RNase D C-terminal; Region: HRDC; smart00341 942513005003 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 942513005004 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 942513005005 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 942513005006 TAP-like protein; Region: Abhydrolase_4; pfam08386 942513005007 comF family protein; Region: comF; TIGR00201 942513005008 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 942513005009 active site 942513005010 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 942513005011 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 942513005012 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 942513005013 Predicted membrane protein [Function unknown]; Region: COG3212 942513005014 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 942513005015 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 942513005016 RuvA N terminal domain; Region: RuvA_N; pfam01330 942513005017 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 942513005018 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 942513005019 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 942513005020 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 942513005021 Walker A/P-loop; other site 942513005022 ATP binding site [chemical binding]; other site 942513005023 Q-loop/lid; other site 942513005024 ABC transporter signature motif; other site 942513005025 Walker B; other site 942513005026 D-loop; other site 942513005027 H-loop/switch region; other site 942513005028 GTPase RsgA; Reviewed; Region: PRK00098 942513005029 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 942513005030 RNA binding site [nucleotide binding]; other site 942513005031 homodimer interface [polypeptide binding]; other site 942513005032 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 942513005033 GTPase/Zn-binding domain interface [polypeptide binding]; other site 942513005034 GTP/Mg2+ binding site [chemical binding]; other site 942513005035 G4 box; other site 942513005036 G5 box; other site 942513005037 G1 box; other site 942513005038 Switch I region; other site 942513005039 G2 box; other site 942513005040 G3 box; other site 942513005041 Switch II region; other site 942513005042 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 942513005043 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 942513005044 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 942513005045 substrate binding pocket [chemical binding]; other site 942513005046 chain length determination region; other site 942513005047 substrate-Mg2+ binding site; other site 942513005048 catalytic residues [active] 942513005049 aspartate-rich region 1; other site 942513005050 active site lid residues [active] 942513005051 aspartate-rich region 2; other site 942513005052 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 942513005053 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 942513005054 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 942513005055 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 942513005056 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 942513005057 Uncharacterized conserved protein [Function unknown]; Region: COG1479 942513005058 Protein of unknown function DUF262; Region: DUF262; pfam03235 942513005059 Protein of unknown function DUF262; Region: DUF262; pfam03235 942513005060 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 942513005061 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 942513005062 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 942513005063 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 942513005064 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 942513005065 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 942513005066 Fic/DOC family; Region: Fic; pfam02661 942513005067 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 942513005068 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 942513005069 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 942513005070 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 942513005071 4Fe-4S binding domain; Region: Fer4; cl02805 942513005072 4Fe-4S binding domain; Region: Fer4; pfam00037 942513005073 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 942513005074 NADH dehydrogenase subunit G; Validated; Region: PRK09129 942513005075 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 942513005076 catalytic loop [active] 942513005077 iron binding site [ion binding]; other site 942513005078 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 942513005079 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 942513005080 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 942513005081 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 942513005082 putative active site [active] 942513005083 GIY-YIG motif/motif A; other site 942513005084 putative metal binding site [ion binding]; other site 942513005085 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 942513005086 SLBB domain; Region: SLBB; pfam10531 942513005087 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 942513005088 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 942513005089 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 942513005090 putative dimer interface [polypeptide binding]; other site 942513005091 [2Fe-2S] cluster binding site [ion binding]; other site 942513005092 NADH dehydrogenase subunit D; Validated; Region: PRK06075 942513005093 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 942513005094 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 942513005095 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 942513005096 NADH dehydrogenase subunit B; Validated; Region: PRK06411 942513005097 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 942513005098 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 942513005099 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 942513005100 S-adenosylmethionine binding site [chemical binding]; other site 942513005101 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 942513005103 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 942513005104 DNA helicase II; Region: uvrD; TIGR01075 942513005105 Part of AAA domain; Region: AAA_19; pfam13245 942513005106 Family description; Region: UvrD_C_2; pfam13538 942513005107 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 942513005108 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 942513005109 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 942513005110 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 942513005111 putative active site [active] 942513005112 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 942513005113 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 942513005114 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 942513005115 Helix-turn-helix domain; Region: HTH_38; pfam13936 942513005116 Homeodomain-like domain; Region: HTH_32; pfam13565 942513005117 Integrase core domain; Region: rve; pfam00665 942513005118 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 942513005119 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 942513005120 metal binding triad; other site 942513005121 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 942513005122 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 942513005123 metal binding triad; other site 942513005124 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 942513005125 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 942513005126 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 942513005127 quinone interaction residues [chemical binding]; other site 942513005128 active site 942513005129 catalytic residues [active] 942513005130 FMN binding site [chemical binding]; other site 942513005131 substrate binding site [chemical binding]; other site 942513005132 acyl carrier protein; Provisional; Region: acpP; PRK00982 942513005133 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 942513005134 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 942513005135 dimer interface [polypeptide binding]; other site 942513005136 active site 942513005137 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 942513005138 Sodium Bile acid symporter family; Region: SBF; cl17470 942513005139 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 942513005140 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 942513005141 putative substrate translocation pore; other site 942513005144 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 942513005145 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 942513005146 tetramer interface [polypeptide binding]; other site 942513005147 heme binding pocket [chemical binding]; other site 942513005148 NADPH binding site [chemical binding]; other site 942513005149 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 942513005150 Pilin (bacterial filament); Region: Pilin; pfam00114 942513005151 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 942513005152 Predicted membrane protein [Function unknown]; Region: COG1971 942513005153 Domain of unknown function DUF; Region: DUF204; pfam02659 942513005154 Domain of unknown function DUF; Region: DUF204; pfam02659 942513005155 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 942513005156 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 942513005157 active site 942513005158 Zn binding site [ion binding]; other site 942513005159 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 942513005160 Mechanosensitive ion channel; Region: MS_channel; pfam00924 942513005161 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 942513005162 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 942513005163 Mg2+ binding site [ion binding]; other site 942513005164 G-X-G motif; other site 942513005165 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 942513005166 anchoring element; other site 942513005167 dimer interface [polypeptide binding]; other site 942513005168 ATP binding site [chemical binding]; other site 942513005169 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 942513005170 active site 942513005171 putative metal-binding site [ion binding]; other site 942513005172 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 942513005173 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 942513005174 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 942513005175 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 942513005177 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 942513005178 putative cation:proton antiport protein; Provisional; Region: PRK10669 942513005179 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 942513005180 TrkA-N domain; Region: TrkA_N; pfam02254 942513005181 TrkA-C domain; Region: TrkA_C; pfam02080 942513005182 ferredoxin; Provisional; Region: PRK08764 942513005183 Putative Fe-S cluster; Region: FeS; cl17515 942513005184 4Fe-4S binding domain; Region: Fer4; pfam00037 942513005185 4Fe-4S binding domain; Region: Fer4; pfam00037 942513005186 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 942513005187 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 942513005188 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 942513005189 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 942513005190 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 942513005191 metal binding site 2 [ion binding]; metal-binding site 942513005192 putative DNA binding helix; other site 942513005193 metal binding site 1 [ion binding]; metal-binding site 942513005194 dimer interface [polypeptide binding]; other site 942513005195 structural Zn2+ binding site [ion binding]; other site 942513005196 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 942513005197 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 942513005198 dihydrodipicolinate reductase; Provisional; Region: PRK00048 942513005199 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 942513005200 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 942513005201 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 942513005202 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 942513005203 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 942513005204 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 942513005205 RNA binding surface [nucleotide binding]; other site 942513005206 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 942513005207 active site 942513005208 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 942513005209 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 942513005210 homodimer interface [polypeptide binding]; other site 942513005211 oligonucleotide binding site [chemical binding]; other site 942513005212 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 942513005213 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 942513005214 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 942513005215 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 942513005216 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 942513005217 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 942513005218 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 942513005219 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 942513005220 RNA/DNA hybrid binding site [nucleotide binding]; other site 942513005221 active site 942513005222 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 942513005223 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 942513005224 P-loop; other site 942513005225 Magnesium ion binding site [ion binding]; other site 942513005226 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 942513005227 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 942513005228 Magnesium ion binding site [ion binding]; other site 942513005229 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 942513005230 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 942513005231 S-adenosylmethionine binding site [chemical binding]; other site 942513005232 Predicted membrane protein [Function unknown]; Region: COG1289 942513005233 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 942513005234 ribosome recycling factor; Reviewed; Region: frr; PRK00083 942513005235 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 942513005236 hinge region; other site 942513005237 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 942513005238 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 942513005239 catalytic residue [active] 942513005240 putative FPP diphosphate binding site; other site 942513005241 putative FPP binding hydrophobic cleft; other site 942513005242 dimer interface [polypeptide binding]; other site 942513005243 putative IPP diphosphate binding site; other site 942513005244 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 942513005245 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 942513005246 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 942513005247 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 942513005248 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 942513005249 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 942513005250 zinc metallopeptidase RseP; Provisional; Region: PRK10779 942513005251 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 942513005252 active site 942513005253 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 942513005254 protein binding site [polypeptide binding]; other site 942513005255 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 942513005256 protein binding site [polypeptide binding]; other site 942513005257 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 942513005258 putative substrate binding region [chemical binding]; other site 942513005259 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 942513005260 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 942513005261 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 942513005262 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 942513005263 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 942513005264 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 942513005265 Surface antigen; Region: Bac_surface_Ag; pfam01103 942513005266 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 942513005267 periplasmic chaperone; Provisional; Region: PRK10780 942513005268 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 942513005269 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 942513005270 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 942513005271 trimer interface [polypeptide binding]; other site 942513005272 active site 942513005273 UDP-GlcNAc binding site [chemical binding]; other site 942513005274 lipid binding site [chemical binding]; lipid-binding site 942513005275 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 942513005276 Abi-like protein; Region: Abi_2; pfam07751 942513005277 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 942513005278 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 942513005279 active site 942513005280 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 942513005281 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 942513005282 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 942513005283 hydroxyglutarate oxidase; Provisional; Region: PRK11728 942513005284 zinc transporter ZupT; Provisional; Region: PRK04201 942513005285 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 942513005286 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 942513005287 HIGH motif; other site 942513005288 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 942513005289 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 942513005290 active site 942513005291 KMSKS motif; other site 942513005292 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 942513005293 tRNA binding surface [nucleotide binding]; other site 942513005294 anticodon binding site; other site 942513005295 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 942513005296 Protein of unknown function (DUF723); Region: DUF723; pfam05265 942513005297 NUMOD1 domain; Region: NUMOD1; pfam07453 942513005298 Transcriptional regulator [Transcription]; Region: LysR; COG0583 942513005299 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 942513005300 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 942513005301 dimerization interface [polypeptide binding]; other site 942513005302 cell division topological specificity factor MinE; Provisional; Region: PRK13989 942513005303 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 942513005304 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 942513005305 Switch I; other site 942513005306 Switch II; other site 942513005307 septum formation inhibitor; Reviewed; Region: minC; PRK04516 942513005308 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 942513005309 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 942513005310 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 942513005311 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 942513005312 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 942513005313 alphaNTD homodimer interface [polypeptide binding]; other site 942513005314 alphaNTD - beta interaction site [polypeptide binding]; other site 942513005315 alphaNTD - beta' interaction site [polypeptide binding]; other site 942513005316 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 942513005317 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 942513005318 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 942513005319 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 942513005320 RNA binding surface [nucleotide binding]; other site 942513005321 30S ribosomal protein S11; Validated; Region: PRK05309 942513005322 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 942513005323 30S ribosomal protein S13; Region: bact_S13; TIGR03631 942513005324 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 942513005325 rRNA binding site [nucleotide binding]; other site 942513005326 predicted 30S ribosome binding site; other site 942513005327 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 942513005328 SecY translocase; Region: SecY; pfam00344 942513005329 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 942513005330 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 942513005331 23S rRNA binding site [nucleotide binding]; other site 942513005332 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 942513005333 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 942513005334 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 942513005335 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 942513005336 5S rRNA interface [nucleotide binding]; other site 942513005337 23S rRNA interface [nucleotide binding]; other site 942513005338 L5 interface [polypeptide binding]; other site 942513005339 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 942513005340 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 942513005341 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 942513005342 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 942513005343 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 942513005344 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 942513005345 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 942513005346 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 942513005347 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 942513005348 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 942513005349 RNA binding site [nucleotide binding]; other site 942513005350 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 942513005351 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 942513005352 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 942513005353 23S rRNA interface [nucleotide binding]; other site 942513005354 putative translocon interaction site; other site 942513005355 signal recognition particle (SRP54) interaction site; other site 942513005356 L23 interface [polypeptide binding]; other site 942513005357 trigger factor interaction site; other site 942513005358 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 942513005359 23S rRNA interface [nucleotide binding]; other site 942513005360 5S rRNA interface [nucleotide binding]; other site 942513005361 putative antibiotic binding site [chemical binding]; other site 942513005362 L25 interface [polypeptide binding]; other site 942513005363 L27 interface [polypeptide binding]; other site 942513005364 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 942513005365 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 942513005366 G-X-X-G motif; other site 942513005367 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 942513005368 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 942513005369 putative translocon binding site; other site 942513005370 protein-rRNA interface [nucleotide binding]; other site 942513005371 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 942513005372 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 942513005373 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 942513005374 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 942513005375 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 942513005376 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 942513005377 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 942513005378 Predicted GTPase [General function prediction only]; Region: COG3596 942513005379 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 942513005380 G1 box; other site 942513005381 GTP/Mg2+ binding site [chemical binding]; other site 942513005382 G2 box; other site 942513005383 Switch I region; other site 942513005384 G3 box; other site 942513005385 Switch II region; other site 942513005386 G4 box; other site 942513005387 G5 box; other site 942513005388 Predicted GTPase [General function prediction only]; Region: COG3596 942513005389 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 942513005390 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 942513005391 G1 box; other site 942513005392 GTP/Mg2+ binding site [chemical binding]; other site 942513005393 G2 box; other site 942513005394 Switch I region; other site 942513005395 G3 box; other site 942513005396 Switch II region; other site 942513005397 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 942513005398 elongation factor Tu; Reviewed; Region: PRK00049 942513005399 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 942513005400 G1 box; other site 942513005401 GEF interaction site [polypeptide binding]; other site 942513005402 GTP/Mg2+ binding site [chemical binding]; other site 942513005403 Switch I region; other site 942513005404 G2 box; other site 942513005405 G3 box; other site 942513005406 Switch II region; other site 942513005407 G4 box; other site 942513005408 G5 box; other site 942513005409 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 942513005410 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 942513005411 Antibiotic Binding Site [chemical binding]; other site 942513005412 elongation factor G; Reviewed; Region: PRK00007 942513005413 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 942513005414 G1 box; other site 942513005415 putative GEF interaction site [polypeptide binding]; other site 942513005416 GTP/Mg2+ binding site [chemical binding]; other site 942513005417 Switch I region; other site 942513005418 G2 box; other site 942513005419 G3 box; other site 942513005420 Switch II region; other site 942513005421 G4 box; other site 942513005422 G5 box; other site 942513005423 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 942513005424 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 942513005425 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 942513005426 30S ribosomal protein S7; Validated; Region: PRK05302 942513005427 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 942513005428 S17 interaction site [polypeptide binding]; other site 942513005429 S8 interaction site; other site 942513005430 16S rRNA interaction site [nucleotide binding]; other site 942513005431 streptomycin interaction site [chemical binding]; other site 942513005432 23S rRNA interaction site [nucleotide binding]; other site 942513005433 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 942513005434 Protein of unknown function (DUF560); Region: DUF560; pfam04575 942513005435 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 942513005436 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 942513005437 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 942513005438 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 942513005439 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 942513005440 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 942513005441 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 942513005442 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 942513005443 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 942513005444 DNA binding site [nucleotide binding] 942513005445 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 942513005446 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 942513005447 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 942513005448 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 942513005449 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 942513005450 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 942513005451 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 942513005452 RPB3 interaction site [polypeptide binding]; other site 942513005453 RPB1 interaction site [polypeptide binding]; other site 942513005454 RPB11 interaction site [polypeptide binding]; other site 942513005455 RPB10 interaction site [polypeptide binding]; other site 942513005456 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 942513005457 core dimer interface [polypeptide binding]; other site 942513005458 peripheral dimer interface [polypeptide binding]; other site 942513005459 L10 interface [polypeptide binding]; other site 942513005460 L11 interface [polypeptide binding]; other site 942513005461 putative EF-Tu interaction site [polypeptide binding]; other site 942513005462 putative EF-G interaction site [polypeptide binding]; other site 942513005463 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 942513005464 23S rRNA interface [nucleotide binding]; other site 942513005465 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 942513005466 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 942513005467 mRNA/rRNA interface [nucleotide binding]; other site 942513005468 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 942513005469 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 942513005470 23S rRNA interface [nucleotide binding]; other site 942513005471 L7/L12 interface [polypeptide binding]; other site 942513005472 putative thiostrepton binding site; other site 942513005473 L25 interface [polypeptide binding]; other site 942513005474 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 942513005475 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 942513005476 putative homodimer interface [polypeptide binding]; other site 942513005477 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 942513005478 heterodimer interface [polypeptide binding]; other site 942513005479 homodimer interface [polypeptide binding]; other site 942513005480 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 942513005481 elongation factor Tu; Reviewed; Region: PRK00049 942513005482 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 942513005483 G1 box; other site 942513005484 GEF interaction site [polypeptide binding]; other site 942513005485 GTP/Mg2+ binding site [chemical binding]; other site 942513005486 Switch I region; other site 942513005487 G2 box; other site 942513005488 G3 box; other site 942513005489 Switch II region; other site 942513005490 G4 box; other site 942513005491 G5 box; other site 942513005492 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 942513005493 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 942513005494 Antibiotic Binding Site [chemical binding]; other site 942513005495 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 942513005496 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 942513005497 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 942513005498 S-adenosylmethionine binding site [chemical binding]; other site 942513005499 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 942513005500 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 942513005501 non-specific DNA binding site [nucleotide binding]; other site 942513005502 salt bridge; other site 942513005503 sequence-specific DNA binding site [nucleotide binding]; other site 942513005504 DNA topoisomerase I; Validated; Region: PRK06599 942513005505 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 942513005506 active site 942513005507 interdomain interaction site; other site 942513005508 putative metal-binding site [ion binding]; other site 942513005509 nucleotide binding site [chemical binding]; other site 942513005510 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 942513005511 domain I; other site 942513005512 DNA binding groove [nucleotide binding] 942513005513 phosphate binding site [ion binding]; other site 942513005514 domain II; other site 942513005515 domain III; other site 942513005516 nucleotide binding site [chemical binding]; other site 942513005517 catalytic site [active] 942513005518 domain IV; other site 942513005519 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 942513005520 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 942513005521 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 942513005522 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 942513005523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Smg; COG2922 942513005524 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 942513005525 DNA protecting protein DprA; Region: dprA; TIGR00732 942513005526 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 942513005527 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 942513005528 active site 942513005529 phosphorylation site [posttranslational modification] 942513005530 intermolecular recognition site; other site 942513005531 dimerization interface [polypeptide binding]; other site 942513005532 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 942513005533 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 942513005534 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 942513005535 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 942513005536 dimerization interface [polypeptide binding]; other site 942513005537 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 942513005538 dimer interface [polypeptide binding]; other site 942513005539 phosphorylation site [posttranslational modification] 942513005540 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 942513005541 ATP binding site [chemical binding]; other site 942513005542 Mg2+ binding site [ion binding]; other site 942513005543 G-X-G motif; other site 942513005544 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 942513005545 16S rRNA methyltransferase B; Provisional; Region: PRK10901 942513005546 NusB family; Region: NusB; pfam01029 942513005547 putative RNA binding site [nucleotide binding]; other site 942513005548 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 942513005549 S-adenosylmethionine binding site [chemical binding]; other site 942513005550 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 942513005551 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 942513005552 putative active site [active] 942513005553 substrate binding site [chemical binding]; other site 942513005554 putative cosubstrate binding site; other site 942513005555 catalytic site [active] 942513005556 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 942513005557 substrate binding site [chemical binding]; other site 942513005558 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 942513005559 active site 942513005560 catalytic residues [active] 942513005561 metal binding site [ion binding]; metal-binding site 942513005562 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 942513005563 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 942513005564 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 942513005565 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 942513005566 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 942513005567 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 942513005568 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 942513005569 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 942513005570 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 942513005571 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 942513005572 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 942513005573 Coenzyme A binding pocket [chemical binding]; other site 942513005574 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 942513005575 putative active site [active] 942513005577 pyruvate kinase; Provisional; Region: PRK05826 942513005578 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 942513005579 domain interfaces; other site 942513005580 active site 942513005581 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 942513005582 cyanate hydratase; Validated; Region: PRK02866 942513005583 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 942513005584 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 942513005585 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 942513005586 Sel1-like repeats; Region: SEL1; smart00671 942513005587 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 942513005588 Sel1-like repeats; Region: SEL1; smart00671 942513005589 Sel1-like repeats; Region: SEL1; smart00671 942513005590 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 942513005591 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 942513005592 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 942513005593 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 942513005594 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 942513005595 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 942513005596 substrate binding site; other site 942513005597 tetramer interface; other site 942513005598 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 942513005599 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 942513005600 NAD binding site [chemical binding]; other site 942513005601 substrate binding site [chemical binding]; other site 942513005602 homodimer interface [polypeptide binding]; other site 942513005603 active site 942513005604 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 942513005605 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 942513005606 NAD binding site [chemical binding]; other site 942513005607 homodimer interface [polypeptide binding]; other site 942513005608 active site 942513005609 substrate binding site [chemical binding]; other site 942513005610 Predicted glycosyltransferase involved in capsule biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG4092 942513005611 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 942513005612 active site 942513005613 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 942513005614 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 942513005615 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 942513005616 active site 942513005617 homodimer interface [polypeptide binding]; other site 942513005618 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 942513005619 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 942513005620 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 942513005621 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 942513005622 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 942513005623 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 942513005624 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 942513005625 Walker A/P-loop; other site 942513005626 ATP binding site [chemical binding]; other site 942513005627 Q-loop/lid; other site 942513005628 ABC transporter signature motif; other site 942513005629 Walker B; other site 942513005630 D-loop; other site 942513005631 H-loop/switch region; other site 942513005632 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 942513005633 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 942513005634 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 942513005635 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 942513005636 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 942513005637 RNA binding site [nucleotide binding]; other site 942513005641 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 942513005642 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 942513005643 NAD binding site [chemical binding]; other site 942513005644 substrate binding site [chemical binding]; other site 942513005645 homodimer interface [polypeptide binding]; other site 942513005646 active site 942513005647 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 942513005648 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 942513005649 substrate binding site; other site 942513005650 tetramer interface; other site 942513005651 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 942513005652 Predicted membrane protein [Function unknown]; Region: COG1297 942513005653 putative oligopeptide transporter, OPT family; Region: TIGR00733 942513005654 chaperone protein DnaJ; Provisional; Region: PRK10767 942513005655 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 942513005656 HSP70 interaction site [polypeptide binding]; other site 942513005657 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 942513005658 substrate binding site [polypeptide binding]; other site 942513005659 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 942513005660 Zn binding sites [ion binding]; other site 942513005661 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 942513005662 dimer interface [polypeptide binding]; other site 942513005663 comEA protein; Region: comE; TIGR01259 942513005664 Helix-hairpin-helix motif; Region: HHH; pfam00633 942513005665 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 942513005666 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 942513005667 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 942513005668 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 942513005669 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 942513005670 catalytic residue [active] 942513005671 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 942513005672 SPOC domain; Region: SPOC; pfam07744 942513005673 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 942513005674 Walker A motif; other site 942513005675 ATP binding site [chemical binding]; other site 942513005676 Walker B motif; other site 942513005677 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 942513005678 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 942513005679 Walker A motif; other site 942513005680 ATP binding site [chemical binding]; other site 942513005681 Walker B motif; other site 942513005682 TIGR01666 family membrane protein; Region: YCCS 942513005683 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 942513005684 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 942513005685 Transposase domain (DUF772); Region: DUF772; pfam05598 942513005686 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 942513005687 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 942513005688 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 942513005689 POT family; Region: PTR2; cl17359 942513005690 peptide chain release factor 2; Validated; Region: prfB; PRK00578 942513005691 This domain is found in peptide chain release factors; Region: PCRF; smart00937 942513005692 RF-1 domain; Region: RF-1; pfam00472 942513005693 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 942513005694 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 942513005695 active site 942513005696 nucleophile elbow; other site 942513005697 Predicted membrane protein [Function unknown]; Region: COG2259 942513005698 Protein of unknown function (DUF692); Region: DUF692; pfam05114 942513005699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 942513005700 RNA polymerase sigma factor; Provisional; Region: PRK12532 942513005701 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 942513005702 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 942513005703 DNA binding residues [nucleotide binding] 942513005704 Putative zinc-finger; Region: zf-HC2; pfam13490 942513005706 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 942513005707 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 942513005708 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 942513005709 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 942513005710 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 942513005711 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 942513005712 Uncharacterized conserved protein [Function unknown]; Region: COG1739 942513005713 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 942513005714 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 942513005715 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 942513005716 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 942513005717 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 942513005718 Ligand binding site [chemical binding]; other site 942513005719 Electron transfer flavoprotein domain; Region: ETF; pfam01012 942513005720 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 942513005721 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 942513005722 putative active site [active] 942513005723 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 942513005724 Isochorismatase family; Region: Isochorismatase; pfam00857 942513005725 catalytic triad [active] 942513005726 metal binding site [ion binding]; metal-binding site 942513005727 conserved cis-peptide bond; other site 942513005728 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 942513005729 homodimer interaction site [polypeptide binding]; other site 942513005730 cofactor binding site; other site 942513005731 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 942513005732 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 942513005733 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 942513005734 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 942513005735 MutS domain I; Region: MutS_I; pfam01624 942513005736 MutS domain II; Region: MutS_II; pfam05188 942513005737 MutS domain III; Region: MutS_III; pfam05192 942513005738 MutS domain V; Region: MutS_V; pfam00488 942513005739 Walker A/P-loop; other site 942513005740 ATP binding site [chemical binding]; other site 942513005741 Q-loop/lid; other site 942513005742 ABC transporter signature motif; other site 942513005743 Walker B; other site 942513005744 D-loop; other site 942513005745 H-loop/switch region; other site