-- dump date 20140619_104126 -- class Genbank::misc_feature -- table misc_feature_note -- id note 862964000001 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 862964000002 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 862964000003 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 862964000004 HMMPfam hit to PF00044, Gp_dh_N, score 2.2e-96 862964000005 HMMPfam hit to PF02800, Gp_dh_C, score 1.5e-106 862964000006 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 862964000007 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 862964000008 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 862964000009 acyl-activating enzyme (AAE) consensus motif; other site 862964000010 putative AMP binding site [chemical binding]; other site 862964000011 putative active site [active] 862964000012 putative CoA binding site [chemical binding]; other site 862964000013 HMMPfam hit to PF00501, AMP-binding, score 1.7e-80 862964000014 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 862964000015 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 862964000016 active site 862964000017 motif I; other site 862964000018 motif II; other site 862964000019 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 862964000020 HMMPfam hit to PF08282, Hydrolase_3, score 9.6e-76 862964000021 metal-binding heat shock protein; Provisional; Region: PRK00016 862964000022 HMMPfam hit to PF02130, UPF0054, score 3.8e-59 862964000023 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 862964000024 HMMPfam hit to PF02634, FdhD-NarQ, score 5.5e-156 862964000026 HMMPfam hit to PF04879, Molybdop_Fe4S4, score 6.1e-17 862964000027 HMMPfam hit to PF00384, Molybdopterin, score 2.4e-23 862964000028 HMMPfam hit to PF01568, Molydop_binding, score 4.2e-18 862964000029 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 862964000030 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 862964000031 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 862964000032 HMMPfam hit to PF00037, Fer4, score 1.3e-05 862964000033 HMMPfam hit to PF09163, Form-deh_trans, score 3.7e-21 862964000034 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 862964000035 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 862964000036 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 862964000037 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 862964000038 HMMPfam hit to PF04216, FdhE, score 3.5e-210 862964000039 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 862964000040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 862964000041 Coenzyme A binding pocket [chemical binding]; other site 862964000042 HMMPfam hit to PF00583, Acetyltransf_1, score 6.4e-19 862964000043 DNA polymerase III, psi subunit; Region: DNA_III_psi; TIGR00664 862964000044 HMMPfam hit to PF03603, DNA_III_psi, score 1.1e-70 862964000045 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 862964000046 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 862964000047 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 862964000048 S-adenosylmethionine binding site [chemical binding]; other site 862964000049 HMMPfam hit to PF08468, MTS_N, score 5.5e-89 862964000050 HMMPfam hit to PF05175, MTS, score 9.2e-99 862964000051 GTPase Era; Reviewed; Region: era; PRK00089 862964000052 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 862964000053 G1 box; other site 862964000054 GTP/Mg2+ binding site [chemical binding]; other site 862964000055 Switch I region; other site 862964000056 G2 box; other site 862964000057 Switch II region; other site 862964000058 G3 box; other site 862964000059 G4 box; other site 862964000060 G5 box; other site 862964000061 KH domain; Region: KH_2; pfam07650 862964000062 HMMPfam hit to PF07650, KH_2, score 7.2e-26 862964000063 HMMPfam hit to PF01926, MMR_HSR1, score 2e-39 862964000064 ribonuclease III; Reviewed; Region: rnc; PRK00102 862964000065 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 862964000066 dimerization interface [polypeptide binding]; other site 862964000067 active site 862964000068 metal binding site [ion binding]; metal-binding site 862964000069 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 862964000070 dsRNA binding site [nucleotide binding]; other site 862964000071 HMMPfam hit to PF00035, dsrm, score 3.4e-15 862964000072 HMMPfam hit to PF00636, Ribonuclease_3, score 1.3e-44 862964000073 signal peptidase I; Provisional; Region: PRK10861 862964000074 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 862964000075 Catalytic site [active] 862964000076 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 862964000077 HMMPfam hit to PF00717, Peptidase_S24, score 1.5e-13 862964000078 GTP-binding protein LepA; Provisional; Region: PRK05433 862964000079 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 862964000080 G1 box; other site 862964000081 putative GEF interaction site [polypeptide binding]; other site 862964000082 GTP/Mg2+ binding site [chemical binding]; other site 862964000083 Switch I region; other site 862964000084 G2 box; other site 862964000085 G3 box; other site 862964000086 Switch II region; other site 862964000087 G4 box; other site 862964000088 G5 box; other site 862964000089 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 862964000090 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 862964000091 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 862964000092 HMMPfam hit to PF06421, LepA_C, score 5e-79 862964000093 HMMPfam hit to PF00679, EFG_C, score 4.6e-34 862964000094 HMMPfam hit to PF03144, GTP_EFTU_D2, score 5e-11 862964000095 HMMPfam hit to PF00009, GTP_EFTU, score 1.9e-75 862964000096 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 862964000097 HMMPfam hit to PF01228, Gly_radical, score 9.3e-48 862964000098 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 862964000099 ligand binding site [chemical binding]; other site 862964000100 active site 862964000101 UGI interface [polypeptide binding]; other site 862964000102 catalytic site [active] 862964000103 HMMPfam hit to PF03167, UDG, score 1.1e-82 862964000104 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 862964000105 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 862964000106 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 862964000107 FeS/SAM binding site; other site 862964000108 TRAM domain; Region: TRAM; pfam01938 862964000109 HMMPfam hit to PF01938, TRAM, score 2.1e-27 862964000110 HMMPfam hit to PF04055, Radical_SAM, score 5.2e-32 862964000111 HMMPfam hit to PF00919, UPF0004, score 5.8e-52 862964000112 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 862964000113 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 862964000114 transmembrane helices; other site 862964000115 HMMPfam hit to PF00939, Na_sulph_symp, score 3.1e-274 862964000116 holo-ACP synthase CitX; Region: citrate_citX; TIGR03124 862964000117 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 862964000118 HMMPfam hit to PF01874, CitG, score 2.8e-145 862964000119 HMMPfam hit to PF03802, CitX, score 2.4e-108 862964000120 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 862964000121 HMMPfam hit to PF04223, CitF, score 0 862964000122 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 862964000123 HMMPfam hit to PF03328, HpcH_HpaI, score 4.8e-114 862964000124 citrate lyase subunit gamma; Provisional; Region: PRK13253 862964000125 HMMPfam hit to PF04953, CitD, score 8.9e-64 862964000126 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 862964000127 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 862964000128 putative active site [active] 862964000129 (T/H)XGH motif; other site 862964000130 HMMPfam hit to PF08218, Citrate_ly_lig, score 1.3e-141 862964000131 lipoyl synthase; Provisional; Region: PRK05481 862964000132 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 862964000133 FeS/SAM binding site; other site 862964000134 HMMPfam hit to PF04055, Radical_SAM, score 1.9e-26 862964000135 lipoate-protein ligase B; Provisional; Region: PRK14342 862964000136 HMMPfam hit to PF03099, BPL_LipA_LipB, score 7.2e-18 862964000137 hypothetical protein; Provisional; Region: PRK04998 862964000138 HMMPfam hit to PF04359, DUF493, score 1.7e-47 862964000139 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 862964000140 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 862964000141 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 862964000142 HMMPfam hit to PF07943, PBP5_C, score 1.2e-36 862964000143 HMMPfam hit to PF00768, Peptidase_S11, score 2.1e-149 862964000144 rare lipoprotein A; Region: rlpA; TIGR00413 862964000145 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 862964000146 Sporulation related domain; Region: SPOR; pfam05036 862964000147 HMMPfam hit to PF05036, SPOR, score 1.6e-12 862964000148 HMMPfam hit to PF03330, DPBB_1, score 6.4e-37 862964000149 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 862964000150 HMMPfam hit to PF01098, FTSW_RODA_SPOVE, score 2.1e-185 862964000151 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 862964000152 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 862964000153 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 862964000154 HMMPfam hit to PF00905, Transpeptidase, score 1.2e-120 862964000155 HMMPfam hit to PF03717, PBP_dimer, score 1.8e-65 862964000156 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 862964000157 HMMPfam hit to PF02590, DUF163, score 1.6e-111 862964000158 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 862964000159 HMMPfam hit to PF02410, DUF143, score 2.4e-57 862964000160 putative transporter; Validated; Region: PRK03818 862964000161 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 862964000162 TrkA-C domain; Region: TrkA_C; pfam02080 862964000163 TrkA-C domain; Region: TrkA_C; pfam02080 862964000164 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 862964000165 HMMPfam hit to PF06826, Asp-Al_Ex, score 1.7e-66 862964000166 HMMPfam hit to PF02080, TrkA_C, score 1.4e-15 862964000167 HMMPfam hit to PF02080, TrkA_C, score 5.1e-11 862964000168 HMMPfam hit to PF06826, Asp-Al_Ex, score 1.3e-66 862964000169 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 862964000170 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 862964000171 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 862964000172 HMMPfam hit to PF06472, ABC_membrane_2, score 7.1e-84 862964000173 HMMPfam hit to PF00005, ABC_tran, score 7.8e-27 862964000174 rod shape-determining protein MreB; Provisional; Region: PRK13927 862964000175 MreB and similar proteins; Region: MreB_like; cd10225 862964000176 nucleotide binding site [chemical binding]; other site 862964000177 Mg binding site [ion binding]; other site 862964000178 putative protofilament interaction site [polypeptide binding]; other site 862964000179 RodZ interaction site [polypeptide binding]; other site 862964000180 HMMPfam hit to PF06723, MreB_Mbl, score 2.8e-207 862964000181 rod shape-determining protein MreC; Region: mreC; TIGR00219 862964000182 rod shape-determining protein MreC; Region: MreC; pfam04085 862964000183 HMMPfam hit to PF04085, MreC, score 4.4e-75 862964000184 rod shape-determining protein MreD; Region: MreD; cl01087 862964000185 HMMPfam hit to PF04093, MreD, score 3.7e-65 862964000186 TIGR01619 family protein; Region: hyp_HI0040 862964000187 Family of unknown function (DUF695); Region: DUF695; pfam05117 862964000188 HMMPfam hit to PF06877, DUF1260, score 1.7e-43 862964000189 HMMPfam hit to PF05117, DUF695, score 7.3e-85 862964000190 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 862964000191 putative catalytic site [active] 862964000192 putative phosphate binding site [ion binding]; other site 862964000193 active site 862964000194 metal binding site A [ion binding]; metal-binding site 862964000195 DNA binding site [nucleotide binding] 862964000196 putative AP binding site [nucleotide binding]; other site 862964000197 putative metal binding site B [ion binding]; other site 862964000198 HMMPfam hit to PF03372, Exo_endo_phos, score 5.4e-57 862964000199 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 862964000200 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 862964000201 active site 862964000202 HMMPfam hit to PF00849, PseudoU_synth_2, score 2.6e-50 862964000203 Predicted membrane protein [Function unknown]; Region: COG3768 862964000204 Domain of unknown function (DUF697); Region: DUF697; cl12064 862964000205 HMMPfam hit to PF05128, DUF697, score 2.3e-230 862964000206 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 862964000207 YccA-like proteins; Region: YccA_like; cd10433 862964000208 HMMPfam hit to PF01027, UPF0005, score 3.2e-59 862964000209 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 862964000211 HMMPfam hit to PF08274, PhnA_Zn_Ribbon, score 6e-12 862964000212 HMMPfam hit to PF03831, PhnA, score 1.4e-30 862964000213 Integrase core domain; Region: rve; pfam00665 862964000214 Integrase core domain; Region: rve_2; pfam13333 862964000215 HMMPfam hit to PF00665, rve, score 2.1e-23 862964000216 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 862964000217 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 862964000218 ATP-grasp domain; Region: ATP-grasp_4; cl17255 862964000219 HMMPfam hit to PF04262, Glu_cys_ligase, score 5.5e-143 862964000220 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 862964000221 HMMPfam hit to PF03741, TerC, score 3.4e-45 862964000222 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 862964000223 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 862964000224 GIY-YIG motif/motif A; other site 862964000225 active site 862964000226 catalytic site [active] 862964000227 putative DNA binding site [nucleotide binding]; other site 862964000228 metal binding site [ion binding]; metal-binding site 862964000229 UvrB/uvrC motif; Region: UVR; pfam02151 862964000230 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 862964000231 Helix-hairpin-helix motif; Region: HHH; pfam00633 862964000232 HMMPfam hit to PF00633, HHH, score 4.3e-06 862964000233 HMMPfam hit to PF08459, UvrC_HhH_N, score 2.9e-88 862964000234 HMMPfam hit to PF02151, UVR, score 9.2e-14 862964000235 HMMPfam hit to PF01541, GIY-YIG, score 6.2e-32 862964000236 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 862964000237 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 862964000238 Ligand binding site; other site 862964000239 oligomer interface; other site 862964000240 HMMPfam hit to PF02348, CTP_transf_3, score 6.9e-99 862964000241 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 862964000242 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; cd01983 862964000243 HMMPfam hit to PF02606, LpxK, score 7.2e-192 862964000244 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 862964000245 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 862964000246 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 862964000247 Walker A/P-loop; other site 862964000248 ATP binding site [chemical binding]; other site 862964000249 Q-loop/lid; other site 862964000250 ABC transporter signature motif; other site 862964000251 Walker B; other site 862964000252 D-loop; other site 862964000253 H-loop/switch region; other site 862964000254 HMMPfam hit to PF00005, ABC_tran, score 3.3e-65 862964000255 HMMPfam hit to PF00664, ABC_membrane, score 3.4e-67 862964000256 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 862964000257 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 862964000258 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 862964000259 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 862964000260 HMMPfam hit to PF00753, Lactamase_B, score 4e-19 862964000261 HMMPfam hit to PF03772, Competence, score 3.1e-87 862964000262 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 862964000263 HMMPfam hit to PF01258, zf-dskA_traR, score 8.8e-35 862964000264 poly(A) polymerase; Region: pcnB; TIGR01942 862964000265 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 862964000266 active site 862964000267 NTP binding site [chemical binding]; other site 862964000268 metal binding triad [ion binding]; metal-binding site 862964000269 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 862964000270 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 862964000271 HMMPfam hit to PF01743, PolyA_pol, score 1.9e-75 862964000272 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 862964000273 catalytic center binding site [active] 862964000274 ATP binding site [chemical binding]; other site 862964000275 HMMPfam hit to PF01288, HPPK, score 9.1e-76 862964000276 tRNA threonylcarbamoyl adenosine modification protein YjeE; Region: T6A_YjeE; TIGR00150 862964000277 HMMPfam hit to PF02367, UPF0079, score 1.8e-69 862964000278 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 862964000279 active site 862964000280 metal binding site [ion binding]; metal-binding site 862964000281 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 862964000282 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 862964000283 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 862964000284 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 862964000285 HMMPfam hit to PF01520, Amidase_3, score 3.6e-104 862964000286 HMMPfam hit to PF01476, LysM, score 1.7e-11 862964000287 HMMPfam hit to PF01476, LysM, score 4.5e-12 862964000288 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 862964000289 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 862964000290 ATP binding site [chemical binding]; other site 862964000291 Mg2+ binding site [ion binding]; other site 862964000292 G-X-G motif; other site 862964000293 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 862964000294 ATP binding site [chemical binding]; other site 862964000295 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 862964000296 HMMPfam hit to PF02518, HATPase_c, score 4e-12 862964000297 HMMPfam hit to PF01119, DNA_mis_repair, score 8.2e-53 862964000298 HMMPfam hit to PF08676, MutL_C, score 3.5e-19 862964000299 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 862964000300 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 862964000301 HMMPfam hit to PF01715, IPPT, score 3.3e-164 862964000302 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 862964000303 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 862964000304 metal binding triad; other site 862964000305 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 862964000306 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 862964000307 metal binding triad; other site 862964000308 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 862964000309 HMMPfam hit to PF03710, GlnE, score 5.5e-136 862964000310 HMMPfam hit to PF03710, GlnE, score 3.4e-143 862964000311 DNA repair protein RecN; Region: recN; TIGR00634 862964000312 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 862964000313 Walker A/P-loop; other site 862964000314 ATP binding site [chemical binding]; other site 862964000315 Q-loop/lid; other site 862964000316 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 862964000317 ABC transporter signature motif; other site 862964000318 Walker B; other site 862964000319 D-loop; other site 862964000320 H-loop/switch region; other site 862964000321 HMMPfam hit to PF02463, SMC_N, score 9e-11 862964000322 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 862964000323 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 862964000324 HMMPfam hit to PF01513, NAD_kinase, score 6e-108 862964000325 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 862964000326 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 862964000327 dimer interface [polypeptide binding]; other site 862964000328 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 862964000329 HMMPfam hit to PF01025, GrpE, score 4.3e-82 862964000330 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 862964000331 active site 862964000332 NTP binding site [chemical binding]; other site 862964000333 metal binding triad [ion binding]; metal-binding site 862964000334 antibiotic binding site [chemical binding]; other site 862964000335 HMMPfam hit to PF01909, NTP_transf_2, score 6.3e-15 862964000336 nucleotidyltransferase substrate binding protein, HI0074 family; Region: HI0074; TIGR01987 862964000337 HMMPfam hit to PF08780, NTase_sub_bind, score 4.1e-35 862964000338 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 862964000339 ATP cone domain; Region: ATP-cone; pfam03477 862964000340 Class III ribonucleotide reductase; Region: RNR_III; cd01675 862964000341 effector binding site; other site 862964000342 active site 862964000343 Zn binding site [ion binding]; other site 862964000344 glycine loop; other site 862964000345 HMMPfam hit to PF03477, ATP-cone, score 2.4e-28 862964000346 HMMPfam hit to PF01228, Gly_radical, score 1.5e-56 862964000347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 862964000348 Nucleoside recognition; Region: Gate; pfam07670 862964000349 HMMPfam hit to PF07670, Gate, score 1.2e-14 862964000350 hypothetical protein; Provisional; Region: PRK10519 862964000351 HMMPfam hit to PF07670, Gate, score 5.1e-08 862964000352 hypothetical protein; Provisional; Region: PRK07338 862964000353 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 862964000354 metal binding site [ion binding]; metal-binding site 862964000355 dimer interface [polypeptide binding]; other site 862964000356 HMMPfam hit to PF01546, Peptidase_M20, score 5.7e-13 862964000357 HMMPfam hit to PF07687, M20_dimer, score 1.4e-20 862964000358 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 862964000359 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 862964000360 active site 862964000361 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 862964000362 catalytic triad [active] 862964000363 dimer interface [polypeptide binding]; other site 862964000364 HMMPfam hit to PF02551, Acyl_CoA_thio, score 6.1e-43 862964000365 HMMPfam hit to PF02551, Acyl_CoA_thio, score 3.6e-79 862964000366 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 862964000367 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 862964000368 active site 862964000369 HIGH motif; other site 862964000370 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 862964000371 KMSKS motif; other site 862964000372 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 862964000373 tRNA binding surface [nucleotide binding]; other site 862964000374 anticodon binding site; other site 862964000375 HMMPfam hit to PF09190, DALR_2, score 2.9e-36 862964000376 HMMPfam hit to PF01406, tRNA-synt_1e, score 7e-223 862964000377 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 862964000378 substrate binding site [chemical binding]; other site 862964000379 HMMPfam hit to PF00160, Pro_isomerase, score 1.3e-51 862964000380 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 862964000381 active site 862964000382 HMMPfam hit to PF01026, TatD_DNase, score 5.4e-89 862964000383 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 862964000384 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 862964000385 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 862964000386 catalytic residues [active] 862964000387 HMMPfam hit to PF00085, Thioredoxin, score 3.9e-55 862964000388 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 862964000389 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 862964000390 putative ligand binding site [chemical binding]; other site 862964000391 putative NAD binding site [chemical binding]; other site 862964000392 catalytic site [active] 862964000393 HMMPfam hit to PF00389, 2-Hacid_dh, score 3.9e-38 862964000394 HMMPfam hit to PF02826, 2-Hacid_dh_C, score 1.6e-73 862964000395 cystathionine gamma-synthase; Reviewed; Region: PRK08247 862964000396 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 862964000397 homodimer interface [polypeptide binding]; other site 862964000398 substrate-cofactor binding pocket; other site 862964000399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964000400 catalytic residue [active] 862964000401 HMMPfam hit to PF01053, Cys_Met_Meta_PP, score 5.6e-223 862964000402 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 862964000403 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 862964000404 P-loop; other site 862964000405 Magnesium ion binding site [ion binding]; other site 862964000406 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 862964000407 Magnesium ion binding site [ion binding]; other site 862964000408 HMMPfam hit to PF01656, CbiA, score 7.6e-13 862964000409 replicative DNA helicase; Region: DnaB; TIGR00665 862964000410 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 862964000411 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 862964000412 Walker A motif; other site 862964000413 ATP binding site [chemical binding]; other site 862964000414 Walker B motif; other site 862964000415 DNA binding loops [nucleotide binding] 862964000416 HMMPfam hit to PF00772, DnaB, score 2.4e-33 862964000417 HMMPfam hit to PF03796, DnaB_C, score 8.4e-78 862964000418 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 862964000419 ParB-like nuclease domain; Region: ParBc; pfam02195 862964000420 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 862964000421 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 862964000422 HMMPfam hit to PF08900, DUF1845, score 8.6e-123 862964000423 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 862964000424 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 862964000425 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 862964000426 dimer interface [polypeptide binding]; other site 862964000427 ssDNA binding site [nucleotide binding]; other site 862964000428 tetramer (dimer of dimers) interface [polypeptide binding]; other site 862964000429 HMMPfam hit to PF00436, SSB, score 1.7e-32 862964000430 YedD-like protein; Region: YedD; cl08117 862964000431 DNA topoisomerase III; Provisional; Region: PRK07726 862964000432 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 862964000433 active site 862964000434 putative interdomain interaction site [polypeptide binding]; other site 862964000435 putative metal-binding site [ion binding]; other site 862964000436 putative nucleotide binding site [chemical binding]; other site 862964000437 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 862964000438 domain I; other site 862964000439 DNA binding groove [nucleotide binding] 862964000440 phosphate binding site [ion binding]; other site 862964000441 domain II; other site 862964000442 domain III; other site 862964000443 nucleotide binding site [chemical binding]; other site 862964000444 catalytic site [active] 862964000445 domain IV; other site 862964000446 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 862964000447 HMMPfam hit to PF01751, Toprim, score 1.6e-20 862964000448 HMMPfam hit to PF01131, Topoisom_bac, score 6.1e-108 862964000449 HMMPfam hit to PF01396, zf-C4_Topoisom, score 4.5e-18 862964000450 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 862964000451 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 862964000452 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 862964000453 MPN+ (JAMM) motif; other site 862964000454 Zinc-binding site [ion binding]; other site 862964000455 HMMPfam hit to PF04002, RadC, score 5.4e-53 862964000456 conjugal transfer protein TrbP; Provisional; Region: PRK13882 862964000457 TraX protein; Region: TraX; pfam05857 862964000458 HMMPfam hit to PF05857, TraX, score 4.4e-05 862964000459 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 862964000460 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 862964000461 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 862964000462 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 862964000463 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 862964000464 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 862964000465 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 862964000466 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 862964000467 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 862964000468 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 862964000469 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 862964000470 Protein of unknown function (DUF2976); Region: DUF2976; pfam11190 862964000471 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 862964000472 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 862964000473 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 862964000474 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 862964000475 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 862964000476 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 862964000477 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 862964000478 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 862964000479 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 862964000480 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 862964000481 HMMPfam hit to PF01526, Transposase_7, score 0 862964000482 multiple promoter invertase; Provisional; Region: mpi; PRK13413 862964000483 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 862964000484 catalytic residues [active] 862964000485 catalytic nucleophile [active] 862964000486 Presynaptic Site I dimer interface [polypeptide binding]; other site 862964000487 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 862964000488 Synaptic Flat tetramer interface [polypeptide binding]; other site 862964000489 Synaptic Site I dimer interface [polypeptide binding]; other site 862964000490 DNA binding site [nucleotide binding] 862964000491 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 862964000492 HMMPfam hit to PF00239, Resolvase, score 2.9e-56 862964000493 HMMPfam hit to PF02796, HTH_7, score 2e-12 862964000494 beta-lactamase TEM; Provisional; Region: PRK15442 862964000495 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 862964000496 HMMPfam hit to PF00144, Beta-lactamase, score 1.7e-53 862964000497 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 862964000498 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 862964000499 catalytic residue [active] 862964000500 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 862964000501 HMMPfam hit to PF07513, DUF1527, score 8.7e-140 862964000502 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 862964000503 HMMPfam hit to PF07511, DUF1525, score 2e-09 862964000504 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 862964000505 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 862964000506 HMMPfam hit to PF08401, DUF1738, score 2.1e-73 862964000507 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 862964000508 multiple promoter invertase; Provisional; Region: mpi; PRK13413 862964000509 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 862964000510 catalytic residues [active] 862964000511 catalytic nucleophile [active] 862964000512 Presynaptic Site I dimer interface [polypeptide binding]; other site 862964000513 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 862964000514 Synaptic Flat tetramer interface [polypeptide binding]; other site 862964000515 Synaptic Site I dimer interface [polypeptide binding]; other site 862964000516 DNA binding site [nucleotide binding] 862964000517 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 862964000518 DNA-binding interface [nucleotide binding]; DNA binding site 862964000519 HMMPfam hit to PF00239, Resolvase, score 4.8e-50 862964000520 Abi-like protein; Region: Abi_2; cl01988 862964000521 HMMPfam hit to PF07512, DUF1526, score 4.4e-10 862964000522 HMMPfam hit to PF07512, DUF1526, score 9.4e-09 862964000523 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 862964000524 Putative helicase; Region: TraI_2; pfam07514 862964000525 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 862964000526 HMMPfam hit to PF07514, TraI_2, score 7.6e-123 862964000527 HMMPfam hit to PF07515, DUF1528, score 5e-21 862964000528 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 862964000529 active site 862964000530 catalytic residues [active] 862964000531 DNA binding site [nucleotide binding] 862964000532 Int/Topo IB signature motif; other site 862964000533 HMMPfam hit to PF00589, Phage_integrase, score 1.6e-11 862964000534 threonine synthase; Validated; Region: PRK09225 862964000535 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 862964000536 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 862964000537 catalytic residue [active] 862964000538 HMMPfam hit to PF00291, PALP, score 3.8e-30 862964000539 homoserine kinase; Region: thrB; TIGR00191 862964000540 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 862964000541 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 862964000542 HMMPfam hit to PF08544, GHMP_kinases_C, score 2.7e-06 862964000543 HMMPfam hit to PF00288, GHMP_kinases_N, score 2.6e-22 862964000544 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 862964000545 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 862964000546 nucleotide binding site [chemical binding]; other site 862964000547 substrate binding site [chemical binding]; other site 862964000548 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 862964000549 dimer interface [polypeptide binding]; other site 862964000550 putative threonine allosteric regulatory site; other site 862964000551 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 862964000552 putative threonine allosteric regulatory site; other site 862964000553 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 862964000554 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 862964000555 HMMPfam hit to PF00742, Homoserine_dh, score 2.5e-112 862964000556 HMMPfam hit to PF03447, NAD_binding_3, score 1.8e-52 862964000557 HMMPfam hit to PF01842, ACT, score 2.3e-08 862964000558 HMMPfam hit to PF01842, ACT, score 0.00013 862964000559 HMMPfam hit to PF00696, AA_kinase, score 4e-61 862964000560 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 862964000561 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 862964000562 catalytic residue [active] 862964000563 HMMPfam hit to PF01168, Ala_racemase_N, score 4.4e-48 862964000564 Glycerate kinase family; Region: Gly_kinase; pfam02595 862964000565 HMMPfam hit to PF02595, Gly_kinase, score 1.2e-292 862964000566 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 862964000567 fructuronate transporter; Provisional; Region: PRK10034; cl15264 862964000568 HMMPfam hit to PF03600, CitMHS, score 5.8e-08 862964000569 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 862964000570 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 862964000571 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 862964000572 HMMPfam hit to PF05651, Diacid_rec, score 1.4e-173 862964000573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 862964000574 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 862964000575 active site 862964000576 HMMPfam hit to PF02447, GntP_permease, score 1.5e-09 862964000577 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 862964000578 Methyltransferase domain; Region: Methyltransf_31; pfam13847 862964000579 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 862964000580 S-adenosylmethionine binding site [chemical binding]; other site 862964000581 HMMPfam hit to PF08241, Methyltransf_11, score 3.5e-22 862964000582 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 862964000583 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 862964000584 HMMPfam hit to PF01547, SBP_bac_1, score 7.7e-22 862964000585 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 862964000586 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 862964000587 dimer interface [polypeptide binding]; other site 862964000588 conserved gate region; other site 862964000589 putative PBP binding loops; other site 862964000590 ABC-ATPase subunit interface; other site 862964000591 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 862964000592 dimer interface [polypeptide binding]; other site 862964000593 conserved gate region; other site 862964000594 putative PBP binding loops; other site 862964000595 ABC-ATPase subunit interface; other site 862964000596 HMMPfam hit to PF00528, BPD_transp_1, score 1.5e-12 862964000597 HMMPfam hit to PF00528, BPD_transp_1, score 3.7e-05 862964000598 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 862964000599 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 862964000600 Walker A/P-loop; other site 862964000601 ATP binding site [chemical binding]; other site 862964000602 Q-loop/lid; other site 862964000603 ABC transporter signature motif; other site 862964000604 Walker B; other site 862964000605 D-loop; other site 862964000606 H-loop/switch region; other site 862964000607 HMMPfam hit to PF00005, ABC_tran, score 6.4e-64 862964000608 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 862964000609 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 862964000610 HMMPfam hit to PF02557, VanY, score 8e-67 862964000611 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 862964000612 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 862964000613 metal binding site [ion binding]; metal-binding site 862964000614 dimer interface [polypeptide binding]; other site 862964000615 HMMPfam hit to PF01546, Peptidase_M20, score 1.7e-55 862964000616 HMMPfam hit to PF07687, M20_dimer, score 1.2e-33 862964000617 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 862964000618 ArsC family; Region: ArsC; pfam03960 862964000619 putative catalytic residues [active] 862964000620 HMMPfam hit to PF03960, ArsC, score 2.7e-49 862964000621 heat shock protein 90; Provisional; Region: PRK05218 862964000622 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 862964000623 ATP binding site [chemical binding]; other site 862964000624 Mg2+ binding site [ion binding]; other site 862964000625 G-X-G motif; other site 862964000626 HMMPfam hit to PF00183, HSP90, score 5.3e-110 862964000627 HMMPfam hit to PF02518, HATPase_c, score 2.5e-17 862964000628 Uncharacterized conserved protein [Function unknown]; Region: COG0327 862964000629 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 862964000630 HMMPfam hit to PF01784, NIF3, score 2.4e-124 862964000631 signal recognition particle protein; Provisional; Region: PRK10867 862964000632 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 862964000633 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 862964000634 P loop; other site 862964000635 GTP binding site [chemical binding]; other site 862964000636 Signal peptide binding domain; Region: SRP_SPB; pfam02978 862964000637 HMMPfam hit to PF02978, SRP_SPB, score 1.1e-53 862964000638 HMMPfam hit to PF00448, SRP54, score 3.4e-116 862964000639 HMMPfam hit to PF02881, SRP54_N, score 1.7e-30 862964000640 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 862964000641 Domain of unknown function DUF21; Region: DUF21; pfam01595 862964000642 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 862964000643 Transporter associated domain; Region: CorC_HlyC; smart01091 862964000644 HMMPfam hit to PF01595, DUF21, score 2.2e-67 862964000645 HMMPfam hit to PF00571, CBS, score 2.8e-19 862964000646 HMMPfam hit to PF03471, CorC_HlyC, score 5.9e-19 862964000647 Uncharacterized conserved protein [Function unknown]; Region: COG2966 862964000648 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 862964000649 HMMPfam hit to PF06738, DUF1212, score 7.4e-69 862964000650 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 862964000651 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 862964000652 seryl-tRNA synthetase; Provisional; Region: PRK05431 862964000653 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 862964000654 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 862964000655 dimer interface [polypeptide binding]; other site 862964000656 active site 862964000657 motif 1; other site 862964000658 motif 2; other site 862964000659 motif 3; other site 862964000660 HMMPfam hit to PF02403, Seryl_tRNA_N, score 2.5e-43 862964000661 HMMPfam hit to PF00587, tRNA-synt_2b, score 7.8e-68 862964000662 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 862964000663 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 862964000664 C-terminal domain interface [polypeptide binding]; other site 862964000665 GSH binding site (G-site) [chemical binding]; other site 862964000666 dimer interface [polypeptide binding]; other site 862964000667 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 862964000668 dimer interface [polypeptide binding]; other site 862964000669 N-terminal domain interface [polypeptide binding]; other site 862964000670 substrate binding pocket (H-site) [chemical binding]; other site 862964000671 HMMPfam hit to PF02798, GST_N, score 4.9e-11 862964000672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 862964000673 Helix-turn-helix domain; Region: HTH_28; pfam13518 862964000674 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 862964000675 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 862964000676 N-terminal plug; other site 862964000677 ligand-binding site [chemical binding]; other site 862964000678 HMMPfam hit to PF07715, Plug, score 4.3e-17 862964000679 HMMPfam hit to PF00593, TonB_dep_Rec, score 2.3e-19 862964000680 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 862964000681 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 862964000682 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 862964000683 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 862964000684 putative RNA binding site [nucleotide binding]; other site 862964000685 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 862964000686 S-adenosylmethionine binding site [chemical binding]; other site 862964000687 HMMPfam hit to PF01170, UPF0020, score 3.1e-113 862964000688 HMMPfam hit to PF02926, THUMP, score 3.2e-21 862964000689 murein transglycosylase A; Provisional; Region: mltA; PRK11162 862964000690 MltA specific insert domain; Region: MltA; smart00925 862964000691 3D domain; Region: 3D; pfam06725 862964000692 HMMPfam hit to PF03562, MltA, score 3.2e-75 862964000693 HMMPfam hit to PF06725, 3D, score 3.1e-29 862964000694 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 862964000695 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 862964000696 putative ATP binding site [chemical binding]; other site 862964000697 putative substrate interface [chemical binding]; other site 862964000698 HMMPfam hit to PF00899, ThiF, score 2.9e-56 862964000699 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 862964000700 intersubunit interface [polypeptide binding]; other site 862964000701 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 862964000702 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 862964000703 metal binding site [ion binding]; metal-binding site 862964000704 HMMPfam hit to PF01297, SBP_bac_9, score 1.1e-34 862964000705 Uncharacterized integral membrane protein [Function unknown]; Region: COG5413 862964000706 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 862964000707 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 862964000708 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 862964000709 HMMPfam hit to PF02875, Mur_ligase_C, score 1.7e-07 862964000710 HMMPfam hit to PF08245, Mur_ligase_M, score 6.1e-10 862964000711 HMMPfam hit to PF01225, Mur_ligase, score 2.6e-28 862964000712 cystathionine beta-lyase; Provisional; Region: PRK08114 862964000713 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 862964000714 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 862964000715 catalytic residue [active] 862964000716 HMMPfam hit to PF01053, Cys_Met_Meta_PP, score 4e-179 862964000717 peroxidase; Provisional; Region: PRK15000 862964000718 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 862964000719 dimer interface [polypeptide binding]; other site 862964000720 decamer (pentamer of dimers) interface [polypeptide binding]; other site 862964000721 catalytic triad [active] 862964000722 peroxidatic and resolving cysteines [active] 862964000723 HMMPfam hit to PF00578, AhpC-TSA, score 6.4e-44 862964000724 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 862964000725 HMMPfam hit to PF01066, CDP-OH_P_transf, score 6.1e-51 862964000726 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 862964000727 dimer interface [polypeptide binding]; other site 862964000728 substrate binding site [chemical binding]; other site 862964000729 metal binding sites [ion binding]; metal-binding site 862964000730 HMMPfam hit to PF00719, Pyrophosphatase, score 1.2e-100 862964000731 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 862964000732 HMMPfam hit to PF00860, Xan_ur_permease, score 4.6e-115 862964000733 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 862964000734 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 862964000735 Sugar specificity; other site 862964000736 Pyrimidine base specificity; other site 862964000737 ATP-binding site [chemical binding]; other site 862964000738 HMMPfam hit to PF00485, PRK, score 3.5e-57 862964000739 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 862964000740 trimer interface [polypeptide binding]; other site 862964000741 active site 862964000742 TIGR03545 family protein; Region: TIGR03545 862964000743 putative arabinose transporter; Provisional; Region: PRK03545 862964000744 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 862964000745 putative substrate translocation pore; other site 862964000746 HMMPfam hit to PF07690, MFS_1, score 3.1e-41 862964000747 GTP-binding protein Der; Reviewed; Region: PRK00093 862964000748 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 862964000749 G1 box; other site 862964000750 GTP/Mg2+ binding site [chemical binding]; other site 862964000751 Switch I region; other site 862964000752 G2 box; other site 862964000753 Switch II region; other site 862964000754 G3 box; other site 862964000755 G4 box; other site 862964000756 G5 box; other site 862964000757 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 862964000758 G1 box; other site 862964000759 GTP/Mg2+ binding site [chemical binding]; other site 862964000760 Switch I region; other site 862964000761 G2 box; other site 862964000762 G3 box; other site 862964000763 Switch II region; other site 862964000764 G4 box; other site 862964000765 G5 box; other site 862964000766 HMMPfam hit to PF01926, MMR_HSR1, score 7.9e-44 862964000767 HMMPfam hit to PF01926, MMR_HSR1, score 6e-46 862964000768 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 862964000769 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 862964000770 active site 862964000771 catalytic site [active] 862964000772 substrate binding site [chemical binding]; other site 862964000773 HMMPfam hit to PF00929, Exonuc_X-T, score 1.1e-55 862964000774 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 862964000775 RNA/DNA hybrid binding site [nucleotide binding]; other site 862964000776 active site 862964000777 HMMPfam hit to PF00075, RnaseH, score 4.8e-67 862964000778 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 862964000779 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 862964000780 trimer interface [polypeptide binding]; other site 862964000781 eyelet of channel; other site 862964000782 HMMPfam hit to PF00267, Porin_1, score 0.0026 862964000783 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 862964000784 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 862964000785 active site 862964000786 dimer interface [polypeptide binding]; other site 862964000787 HMMPfam hit to PF01979, Amidohydro_1, score 3.1e-60 862964000788 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 862964000789 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 862964000790 active site 862964000791 trimer interface [polypeptide binding]; other site 862964000792 allosteric site; other site 862964000793 active site lid [active] 862964000794 hexamer (dimer of trimers) interface [polypeptide binding]; other site 862964000795 HMMPfam hit to PF01182, Glucosamine_iso, score 4.2e-196 862964000796 N-acetylneuraminate lyase; Provisional; Region: PRK04147 862964000797 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 862964000798 inhibitor site; inhibition site 862964000799 active site 862964000800 dimer interface [polypeptide binding]; other site 862964000801 catalytic residue [active] 862964000802 HMMPfam hit to PF00701, DHDPS, score 1.2e-148 862964000803 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 862964000804 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 862964000805 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 862964000806 putative active site [active] 862964000807 HMMPfam hit to PF01380, SIS, score 5.3e-23 862964000808 HMMPfam hit to PF01418, HTH_6, score 3.3e-59 862964000809 N-acetylmannosamine kinase; Provisional; Region: PRK05082 862964000810 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 862964000811 nucleotide binding site [chemical binding]; other site 862964000812 HMMPfam hit to PF00480, ROK, score 1.3e-84 862964000813 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 862964000814 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 862964000815 putative active site cavity [active] 862964000816 HMMPfam hit to PF04131, NanE, score 1e-146 862964000817 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 862964000818 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 862964000819 HMMPfam hit to PF03480, SBP_bac_7, score 1.9e-124 862964000820 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 862964000821 DctM-like transporters; Region: DctM; pfam06808 862964000822 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 862964000823 HMMPfam hit to PF04290, DctQ, score 2.7e-48 862964000824 HMMPfam hit to PF06808, DctM, score 2.2e-130 862964000825 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 862964000826 Kelch motif; Region: Kelch_1; pfam01344 862964000827 HMMPfam hit to PF01344, Kelch_1, score 1e-11 862964000828 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 862964000829 FtsH protease regulator HflC; Provisional; Region: PRK11029 862964000830 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 862964000831 HMMPfam hit to PF01145, Band_7, score 3.1e-61 862964000832 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 862964000833 HflK protein; Region: hflK; TIGR01933 862964000834 HMMPfam hit to PF01145, Band_7, score 4.6e-44 862964000835 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 862964000836 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 862964000837 HMMPfam hit to PF01648, ACPS, score 0.00027 862964000838 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 862964000839 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 862964000840 HMMPfam hit to PF03605, DcuA_DcuB, score 1.4e-225 862964000841 acyl carrier protein; Provisional; Region: acpP; PRK00982 862964000842 HMMPfam hit to PF00550, PP-binding, score 1.3e-24 862964000843 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 862964000844 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 862964000845 NAD(P) binding site [chemical binding]; other site 862964000846 homotetramer interface [polypeptide binding]; other site 862964000847 homodimer interface [polypeptide binding]; other site 862964000848 active site 862964000849 HMMPfam hit to PF00106, adh_short, score 9.9e-38 862964000850 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 862964000851 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 862964000852 HMMPfam hit to PF00698, Acyl_transf_1, score 1.7e-17 862964000853 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 862964000854 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 862964000855 dimer interface [polypeptide binding]; other site 862964000856 active site 862964000857 CoA binding pocket [chemical binding]; other site 862964000858 HMMPfam hit to PF08541, ACP_syn_III_C, score 7.1e-51 862964000859 HMMPfam hit to PF08545, ACP_syn_III, score 6.5e-43 862964000860 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 862964000861 HMMPfam hit to PF01783, Ribosomal_L32p, score 2.3e-26 862964000862 hypothetical protein; Provisional; Region: PRK11193 862964000863 HMMPfam hit to PF02620, DUF177, score 3.7e-61 862964000864 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 862964000865 HMMPfam hit to PF02666, PS_Dcarbxylase, score 3.3e-122 862964000866 glutathione reductase; Validated; Region: PRK06116 862964000867 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 862964000868 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 862964000869 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 862964000870 HMMPfam hit to PF02852, Pyr_redox_dim, score 1.9e-56 862964000871 HMMPfam hit to PF07992, Pyr_redox_2, score 4.1e-69 862964000872 HMMPfam hit to PF00070, Pyr_redox, score 4.7e-29 862964000873 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 862964000874 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 862964000875 HMMPfam hit to PF03923, Lipoprotein_16, score 4e-149 862964000876 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 862964000877 HMMPfam hit to PF01722, BolA, score 3.4e-40 862964000878 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 862964000879 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 862964000880 E3 interaction surface; other site 862964000881 lipoyl attachment site [posttranslational modification]; other site 862964000882 Pleckstrin homology-like domain; Region: PH-like; cl17171 862964000883 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 862964000884 HMMPfam hit to PF05896, NQRA, score 1.4e-282 862964000885 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 862964000886 HMMPfam hit to PF03116, NQR2_RnfD_RnfE, score 4.1e-229 862964000887 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 862964000888 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 862964000889 HMMPfam hit to PF04205, FMN_bind, score 1.4e-24 862964000890 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 862964000891 HMMPfam hit to PF02508, Rnf-Nqr, score 1.4e-111 862964000892 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 862964000893 HMMPfam hit to PF02508, Rnf-Nqr, score 1.8e-123 862964000894 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 862964000895 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 862964000896 FAD binding pocket [chemical binding]; other site 862964000897 FAD binding motif [chemical binding]; other site 862964000898 phosphate binding motif [ion binding]; other site 862964000899 beta-alpha-beta structure motif; other site 862964000900 NAD binding pocket [chemical binding]; other site 862964000901 HMMPfam hit to PF00111, Fer2, score 1.6e-11 862964000902 HMMPfam hit to PF00970, FAD_binding_6, score 2.1e-11 862964000903 HMMPfam hit to PF00175, NAD_binding_1, score 2.8e-22 862964000904 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 862964000905 ApbE family; Region: ApbE; pfam02424 862964000906 HMMPfam hit to PF02424, ApbE, score 1.9e-167 862964000907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 862964000908 HMMPfam hit to PF04400, DUF539, score 2.1e-28 862964000909 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 862964000910 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 862964000911 Ligand Binding Site [chemical binding]; other site 862964000912 HMMPfam hit to PF03054, tRNA_Me_trans, score 4.5e-232 862964000913 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 862964000914 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 862964000915 HMMPfam hit to PF02578, DUF152, score 9e-121 862964000916 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 862964000917 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 862964000918 RNA binding surface [nucleotide binding]; other site 862964000919 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 862964000920 active site 862964000921 HMMPfam hit to PF00849, PseudoU_synth_2, score 3.7e-67 862964000922 HMMPfam hit to PF01479, S4, score 5.9e-09 862964000923 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 862964000924 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 862964000925 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 862964000926 FeS/SAM binding site; other site 862964000927 HMMPfam hit to PF04055, Radical_SAM, score 9.6e-27 862964000928 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 862964000929 Pyruvate formate lyase 1; Region: PFL1; cd01678 862964000930 coenzyme A binding site [chemical binding]; other site 862964000931 active site 862964000932 catalytic residues [active] 862964000933 glycine loop; other site 862964000934 HMMPfam hit to PF01228, Gly_radical, score 1.4e-59 862964000935 HMMPfam hit to PF02901, PFL, score 0 862964000936 formate transporter FocA; Region: formate_focA; TIGR04060 862964000937 HMMPfam hit to PF01226, Form_Nir_trans, score 1e-176 862964000938 fructokinase; Reviewed; Region: PRK09557 862964000939 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 862964000940 nucleotide binding site [chemical binding]; other site 862964000941 HMMPfam hit to PF00480, ROK, score 4.5e-93 862964000942 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 862964000943 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 862964000944 HMMPfam hit to PF01235, Na_Ala_symp, score 1.1e-293 862964000945 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 862964000946 S-formylglutathione hydrolase; Region: PLN02442 862964000947 HMMPfam hit to PF00756, Esterase, score 7.2e-119 862964000948 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 862964000949 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 862964000950 substrate binding site [chemical binding]; other site 862964000951 catalytic Zn binding site [ion binding]; other site 862964000952 NAD binding site [chemical binding]; other site 862964000953 structural Zn binding site [ion binding]; other site 862964000954 dimer interface [polypeptide binding]; other site 862964000955 HMMPfam hit to PF00107, ADH_zinc_N, score 1.4e-32 862964000956 HMMPfam hit to PF08240, ADH_N, score 1.2e-35 862964000957 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 862964000958 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 862964000959 DNA binding residues [nucleotide binding] 862964000960 putative dimer interface [polypeptide binding]; other site 862964000961 HMMPfam hit to PF00376, MerR, score 1.5e-11 862964000962 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 862964000963 HMMPfam hit to PF02416, MttA_Hcf106, score 7e-11 862964000964 sec-independent translocase; Provisional; Region: PRK01770 862964000965 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 862964000966 HMMPfam hit to PF00902, TatC, score 1.6e-95 862964000967 glutamate dehydrogenase; Provisional; Region: PRK09414 862964000968 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 862964000969 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 862964000970 NAD(P) binding site [chemical binding]; other site 862964000971 HMMPfam hit to PF02812, ELFV_dehydrog_N, score 2.6e-80 862964000972 HMMPfam hit to PF00208, ELFV_dehydrog, score 4.7e-148 862964000973 ferric uptake regulator; Provisional; Region: fur; PRK09462 862964000974 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 862964000975 metal binding site 2 [ion binding]; metal-binding site 862964000976 putative DNA binding helix; other site 862964000977 metal binding site 1 [ion binding]; metal-binding site 862964000978 dimer interface [polypeptide binding]; other site 862964000979 structural Zn2+ binding site [ion binding]; other site 862964000980 HMMPfam hit to PF01475, FUR, score 1e-69 862964000981 flavodoxin FldA; Validated; Region: PRK09267 862964000982 HMMPfam hit to PF00258, Flavodoxin_1, score 8.1e-53 862964000983 acyl-CoA esterase; Provisional; Region: PRK10673 862964000984 PGAP1-like protein; Region: PGAP1; pfam07819 862964000985 HMMPfam hit to PF00561, Abhydrolase_1, score 3.8e-18 862964000986 replication initiation regulator SeqA; Provisional; Region: PRK11187 862964000987 HMMPfam hit to PF03925, SeqA, score 4.9e-156 862964000988 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 862964000989 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 862964000990 acyl-activating enzyme (AAE) consensus motif; other site 862964000991 putative AMP binding site [chemical binding]; other site 862964000992 putative active site [active] 862964000993 putative CoA binding site [chemical binding]; other site 862964000994 HMMPfam hit to PF00501, AMP-binding, score 3.3e-61 862964000995 hypothetical protein; Provisional; Region: PRK11281 862964000996 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 862964000997 Mechanosensitive ion channel; Region: MS_channel; pfam00924 862964000998 HMMPfam hit to PF00924, MS_channel, score 8.7e-85 862964000999 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 862964001000 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 862964001001 Tetramer interface [polypeptide binding]; other site 862964001002 active site 862964001003 FMN-binding site [chemical binding]; other site 862964001004 HMMPfam hit to PF01264, Chorismate_synt, score 4.6e-248 862964001005 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 862964001006 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 862964001007 HMMPfam hit to PF03411, Peptidase_M74, score 2.8e-209 862964001008 hypothetical protein; Provisional; Region: PRK10621 862964001009 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 862964001010 HMMPfam hit to PF01925, DUF81, score 3.3e-32 862964001011 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 862964001012 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 862964001013 putative acyl-acceptor binding pocket; other site 862964001014 HMMPfam hit to PF03279, Lip_A_acyltrans, score 2.9e-158 862964001015 selenophosphate synthetase; Provisional; Region: PRK00943 862964001016 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 862964001017 dimerization interface [polypeptide binding]; other site 862964001018 putative ATP binding site [chemical binding]; other site 862964001019 HMMPfam hit to PF00586, AIRS, score 5.4e-07 862964001020 HMMPfam hit to PF02769, AIRS_C, score 2.2e-20 862964001021 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 862964001022 HMMPfam hit to PF01245, Ribosomal_L19, score 5.7e-80 862964001023 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 862964001024 HMMPfam hit to PF01746, tRNA_m1G_MT, score 4.5e-84 862964001025 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 862964001026 RimM N-terminal domain; Region: RimM; pfam01782 862964001027 HMMPfam hit to PF05239, PRC, score 5.7e-14 862964001028 HMMPfam hit to PF01782, RimM, score 2.7e-34 862964001029 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 862964001030 HMMPfam hit to PF00886, Ribosomal_S16, score 3.4e-35 862964001031 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 862964001032 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 862964001033 active site 862964001034 metal binding site [ion binding]; metal-binding site 862964001035 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 862964001036 HMMPfam hit to PF00149, Metallophos, score 5.7e-23 862964001037 HMMPfam hit to PF02872, 5_nucleotid_C, score 6.7e-55 862964001038 shikimate kinase; Reviewed; Region: aroK; PRK00131 862964001039 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 862964001040 ADP binding site [chemical binding]; other site 862964001041 magnesium binding site [ion binding]; other site 862964001042 putative shikimate binding site; other site 862964001043 HMMPfam hit to PF01202, SKI, score 3.4e-81 862964001044 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 862964001045 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 862964001046 active site 862964001047 dimer interface [polypeptide binding]; other site 862964001048 metal binding site [ion binding]; metal-binding site 862964001049 HMMPfam hit to PF01761, DHQ_synthase, score 4e-184 862964001050 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 862964001051 HMMPfam hit to PF02086, MethyltransfD12, score 1e-99 862964001052 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 862964001053 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 862964001054 active site 862964001055 HMMPfam hit to PF01569, PAP2, score 6.4e-32 862964001056 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 862964001057 dimerization interface [polypeptide binding]; other site 862964001058 active site 862964001059 HMMPfam hit to PF00925, GTP_cyclohydro2, score 6.6e-126 862964001060 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 862964001061 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 862964001062 peptide binding site [polypeptide binding]; other site 862964001063 HMMPfam hit to PF00496, SBP_bac_5, score 7.1e-65 862964001064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 862964001065 HMMPfam hit to PF04304, DUF454, score 1.2e-18 862964001066 oligopeptidase A; Provisional; Region: PRK10911 862964001067 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 862964001068 active site 862964001069 Zn binding site [ion binding]; other site 862964001070 HMMPfam hit to PF01432, Peptidase_M3, score 4.2e-237 862964001071 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 862964001072 HsdM N-terminal domain; Region: HsdM_N; pfam12161 862964001073 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 862964001074 S-adenosylmethionine binding site [chemical binding]; other site 862964001075 HMMPfam hit to PF02384, N6_Mtase, score 6.8e-183 862964001077 HMMPfam hit to PF01420, Methylase_S, score 8.1e-16 862964001078 HMMPfam hit to PF01420, Methylase_S, score 5.1e-24 862964001079 Virulence protein [General function prediction only]; Region: COG3943 862964001080 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 862964001082 HMMPfam hit to PF04313, HSDR_N, score 6.3e-10 862964001083 HMMPfam hit to PF04851, ResIII, score 3.4e-53 862964001084 Predicted membrane protein [Function unknown]; Region: COG3059 862964001085 HMMPfam hit to PF04224, DUF417, score 2.4e-140 862964001086 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 862964001087 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 862964001088 dimer interface [polypeptide binding]; other site 862964001089 phosphorylation site [posttranslational modification] 862964001090 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 862964001091 ATP binding site [chemical binding]; other site 862964001092 Mg2+ binding site [ion binding]; other site 862964001093 G-X-G motif; other site 862964001094 Response regulator receiver domain; Region: Response_reg; pfam00072 862964001095 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 862964001096 active site 862964001097 phosphorylation site [posttranslational modification] 862964001098 intermolecular recognition site; other site 862964001099 dimerization interface [polypeptide binding]; other site 862964001100 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 862964001101 putative binding surface; other site 862964001102 active site 862964001103 HMMPfam hit to PF01627, Hpt, score 4e-15 862964001104 HMMPfam hit to PF00072, Response_reg, score 3e-28 862964001105 HMMPfam hit to PF02518, HATPase_c, score 1.3e-39 862964001106 HMMPfam hit to PF00512, HisKA, score 7.6e-20 862964001107 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 862964001108 putative uracil binding site [chemical binding]; other site 862964001109 putative active site [active] 862964001110 HMMPfam hit to PF03167, UDG, score 2.6e-19 862964001111 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 862964001112 HTH domain; Region: HTH_11; cl17392 862964001113 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 862964001114 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 862964001115 HMMPfam hit to PF02237, BPL_C, score 4e-10 862964001116 HMMPfam hit to PF03099, BPL_LipA_LipB, score 8.8e-24 862964001117 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 862964001118 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 862964001119 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 862964001120 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 862964001121 active site 862964001122 HMMPfam hit to PF00478, IMPDH, score 3.6e-246 862964001123 HMMPfam hit to PF00571, CBS, score 4.1e-29 862964001124 GMP synthase; Reviewed; Region: guaA; PRK00074 862964001125 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 862964001126 AMP/PPi binding site [chemical binding]; other site 862964001127 candidate oxyanion hole; other site 862964001128 catalytic triad [active] 862964001129 potential glutamine specificity residues [chemical binding]; other site 862964001130 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 862964001131 ATP Binding subdomain [chemical binding]; other site 862964001132 Ligand Binding sites [chemical binding]; other site 862964001133 Dimerization subdomain; other site 862964001134 HMMPfam hit to PF00117, GATase, score 7.6e-48 862964001135 HMMPfam hit to PF03054, tRNA_Me_trans, score 1.3e-08 862964001136 HMMPfam hit to PF00958, GMP_synt_C, score 1.6e-56 862964001137 Predicted permeases [General function prediction only]; Region: RarD; COG2962 862964001138 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 862964001139 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 862964001140 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 862964001141 putative DNA binding site [nucleotide binding]; other site 862964001142 putative Zn2+ binding site [ion binding]; other site 862964001143 AsnC family; Region: AsnC_trans_reg; pfam01037 862964001144 HMMPfam hit to PF01037, AsnC_trans_reg, score 4.6e-25 862964001145 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 862964001146 HMMPfam hit to PF06965, Na_H_antiport_1, score 7.7e-242 862964001147 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 862964001148 HMMPfam hit to PF05525, Branch_AA_trans, score 1.6e-216 862964001149 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 862964001150 HMMPfam hit to PF03738, GSP_synth, score 3.2e-08 862964001151 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 862964001152 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 862964001153 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 862964001154 HMMPfam hit to PF02547, Queuosine_synth, score 3.9e-159 862964001155 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 862964001156 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 862964001157 HMMPfam hit to PF01702, TGT, score 7.4e-162 862964001158 Hemerythrin-like domain; Region: Hr-like; cd12108 862964001159 Fe binding site [ion binding]; other site 862964001160 HMMPfam hit to PF01814, Hemerythrin, score 3.1e-05 862964001161 HMMPfam hit to PF01814, Hemerythrin, score 0.001 862964001162 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; cl00436 862964001163 CPxP motif; other site 862964001164 HMMPfam hit to PF01206, SirA, score 2e-35 862964001165 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 862964001166 HMMPfam hit to PF02699, YajC, score 3.4e-48 862964001167 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 862964001168 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 862964001169 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 862964001170 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 862964001171 HMMPfam hit to PF07549, Sec_GG, score 2e-06 862964001172 HMMPfam hit to PF02355, SecD_SecF, score 1.1e-08 862964001173 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 862964001174 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 862964001175 Protein export membrane protein; Region: SecD_SecF; pfam02355 862964001176 HMMPfam hit to PF07549, Sec_GG, score 0.00019 862964001177 HMMPfam hit to PF02355, SecD_SecF, score 3e-95 862964001178 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 862964001179 Domain of unknown function DUF20; Region: UPF0118; pfam01594 862964001180 HMMPfam hit to PF01594, UPF0118, score 1.1e-106 862964001181 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 862964001182 ArsC family; Region: ArsC; pfam03960 862964001183 catalytic residues [active] 862964001184 HMMPfam hit to PF03960, ArsC, score 8.9e-41 862964001185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 862964001186 HMMPfam hit to PF03889, DUF331, score 1.4e-31 862964001187 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 862964001188 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 862964001189 ATP binding site [chemical binding]; other site 862964001190 Mg++ binding site [ion binding]; other site 862964001191 motif III; other site 862964001192 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 862964001193 nucleotide binding region [chemical binding]; other site 862964001194 ATP-binding site [chemical binding]; other site 862964001195 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 862964001196 putative RNA binding site [nucleotide binding]; other site 862964001197 HMMPfam hit to PF03880, DbpA, score 1.8e-42 862964001198 HMMPfam hit to PF00271, Helicase_C, score 1.5e-35 862964001199 HMMPfam hit to PF00270, DEAD, score 1.7e-72 862964001200 Lipoprotein NlpI, contains TPR repeats [General function prediction only]; Region: NlpI; COG4785 862964001201 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; cl02429 862964001202 binding surface 862964001203 TPR motif; other site 862964001204 HMMPfam hit to PF07719, TPR_2, score 0.00037 862964001205 HMMPfam hit to PF07719, TPR_2, score 0.0042 862964001206 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 862964001207 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 862964001208 RNase E interface [polypeptide binding]; other site 862964001209 trimer interface [polypeptide binding]; other site 862964001210 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 862964001211 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 862964001212 RNase E interface [polypeptide binding]; other site 862964001213 trimer interface [polypeptide binding]; other site 862964001214 active site 862964001215 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 862964001216 putative nucleic acid binding region [nucleotide binding]; other site 862964001217 G-X-X-G motif; other site 862964001218 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 862964001219 RNA binding site [nucleotide binding]; other site 862964001220 domain interface; other site 862964001221 HMMPfam hit to PF00575, S1, score 1.7e-24 862964001222 HMMPfam hit to PF00013, KH_1, score 7.2e-16 862964001223 HMMPfam hit to PF03725, RNase_PH_C, score 7.7e-23 862964001224 HMMPfam hit to PF01138, RNase_PH, score 1.9e-49 862964001225 HMMPfam hit to PF03726, PNPase, score 6.9e-34 862964001226 HMMPfam hit to PF03725, RNase_PH_C, score 2e-17 862964001227 HMMPfam hit to PF01138, RNase_PH, score 2.5e-39 862964001228 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 862964001229 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 862964001230 HMMPfam hit to PF04074, DUF386, score 1.9e-88 862964001231 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 862964001232 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 862964001233 Autotransporter beta-domain; Region: Autotransporter; pfam03797 862964001234 HMMPfam hit to PF03797, Autotransporter, score 9.3e-37 862964001235 HMMPfam hit to PF03212, Pertactin, score 2.7e-16 862964001236 HMMPfam hit to PF02395, Peptidase_S6, score 0 862964001237 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 862964001238 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 862964001239 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 862964001240 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 862964001241 HMMPfam hit to PF00005, ABC_tran, score 8.5e-39 862964001242 HMMPfam hit to PF00005, ABC_tran, score 2e-08 862964001243 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 862964001244 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 862964001245 dimer interface [polypeptide binding]; other site 862964001246 ssDNA binding site [nucleotide binding]; other site 862964001247 tetramer (dimer of dimers) interface [polypeptide binding]; other site 862964001248 HMMPfam hit to PF00436, SSB, score 2e-33 862964001249 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 862964001250 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 862964001251 HMMPfam hit to PF03544, TonB, score 8.3e-15 862964001252 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 862964001253 TonB system transport protein ExbD, group 2; Region: ExbD_2; TIGR02804 862964001254 HMMPfam hit to PF02472, ExbD, score 1.7e-60 862964001255 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 862964001256 HMMPfam hit to PF01618, MotA_ExbB, score 3.1e-62 862964001257 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 862964001258 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 862964001259 catalytic triad [active] 862964001260 HMMPfam hit to PF00578, AhpC-TSA, score 9.1e-46 862964001261 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 862964001262 dihydrodipicolinate synthase; Region: dapA; TIGR00674 862964001263 dimer interface [polypeptide binding]; other site 862964001264 active site 862964001265 catalytic residue [active] 862964001266 HMMPfam hit to PF00701, DHDPS, score 1.3e-176 862964001267 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 862964001268 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 862964001269 HMMPfam hit to PF06804, Lipoprotein_18, score 5.6e-07 862964001270 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 862964001271 30S subunit binding site; other site 862964001272 HMMPfam hit to PF02482, Ribosomal_S30AE, score 1.6e-45 862964001273 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 862964001274 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 862964001275 Ligand binding site; other site 862964001276 metal-binding site 862964001277 HMMPfam hit to PF01501, Glyco_transf_8, score 1.5e-82 862964001278 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 862964001279 active site 862964001280 dimerization interface [polypeptide binding]; other site 862964001281 HMMPfam hit to PF01725, Ham1p_like, score 1.7e-115 862964001282 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 862964001283 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 862964001284 HMMPfam hit to PF06293, Kdo, score 8.1e-128 862964001285 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 862964001286 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 862964001287 putative active site [active] 862964001288 HMMPfam hit to PF01075, Glyco_transf_9, score 5.5e-103 862964001289 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 862964001290 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 862964001291 N-terminal plug; other site 862964001292 ligand-binding site [chemical binding]; other site 862964001293 HMMPfam hit to PF07715, Plug, score 3.1e-20 862964001294 HMMPfam hit to PF00593, TonB_dep_Rec, score 8.1e-26 862964001295 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 862964001296 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 862964001297 Surface antigen; Region: Bac_surface_Ag; pfam01103 862964001298 HMMPfam hit to PF08479, POTRA_2, score 9.3e-22 862964001299 haemagglutination activity domain; Region: Haemagg_act; pfam05860 862964001300 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 862964001301 HMMPfam hit to PF05860, Haemagg_act, score 2.7e-47 862964001302 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 862964001303 homooctamer interface [polypeptide binding]; other site 862964001304 active site 862964001305 HMMPfam hit to PF02152, FolB, score 2.1e-55 862964001306 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 862964001307 HMMPfam hit to PF02660, DUF205, score 1.7e-111 862964001308 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 862964001309 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 862964001310 HAMP domain; Region: HAMP; pfam00672 862964001311 Histidine kinase; Region: HisKA_3; pfam07730 862964001312 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 862964001313 ATP binding site [chemical binding]; other site 862964001314 Mg2+ binding site [ion binding]; other site 862964001315 G-X-G motif; other site 862964001316 HMMPfam hit to PF00672, HAMP, score 1.2e-10 862964001317 HMMPfam hit to PF07730, HisKA_3, score 4.2e-18 862964001318 HMMPfam hit to PF02518, HATPase_c, score 8e-21 862964001319 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 862964001320 FAD binding domain; Region: FAD_binding_4; pfam01565 862964001321 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 862964001322 HMMPfam hit to PF01565, FAD_binding_4, score 2.6e-19 862964001323 HMMPfam hit to PF02873, MurB_C, score 1.8e-75 862964001324 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 862964001325 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 862964001326 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 862964001327 DNA binding residues [nucleotide binding] 862964001328 HMMPfam hit to PF04542, Sigma70_r2, score 1.2e-21 862964001329 HMMPfam hit to PF04545, Sigma70_r4, score 6.9e-18 862964001330 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 862964001331 HMMPfam hit to PF01207, Dus, score 9.3e-34 862964001332 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 862964001333 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 862964001334 putative metal binding site [ion binding]; other site 862964001335 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 862964001336 HSP70 interaction site [polypeptide binding]; other site 862964001337 HMMPfam hit to PF00226, DnaJ, score 7.4e-13 862964001338 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964001339 active site 862964001340 HMMPfam hit to PF00156, Pribosyltran, score 6.4e-32 862964001341 ribonuclease PH; Reviewed; Region: rph; PRK00173 862964001342 Ribonuclease PH; Region: RNase_PH_bact; cd11362 862964001343 hexamer interface [polypeptide binding]; other site 862964001344 active site 862964001345 HMMPfam hit to PF03725, RNase_PH_C, score 3.5e-21 862964001346 HMMPfam hit to PF01138, RNase_PH, score 6.8e-51 862964001347 Phage-related protein, tail component [Function unknown]; Region: COG4733 862964001348 Putative phage tail protein; Region: Phage-tail_3; pfam13550 862964001349 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 862964001350 HMMPfam hit to PF09327, DUF1983, score 3.2e-16 862964001351 HMMPfam hit to PF00041, fn3, score 0.017 862964001352 Phage-related protein, tail component [Function unknown]; Region: COG4723 862964001353 HMMPfam hit to PF06805, Lambda_tail_I, score 4.2e-27 862964001354 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 862964001355 MPN+ (JAMM) motif; other site 862964001356 Zinc-binding site [ion binding]; other site 862964001357 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 862964001358 NlpC/P60 family; Region: NLPC_P60; cl17555 862964001359 HMMPfam hit to PF00877, NLPC_P60, score 2.9e-19 862964001360 Phage-related protein [Function unknown]; Region: gp18; COG4672 862964001361 HMMPfam hit to PF05100, Phage_tail_L, score 2.5e-102 862964001362 Prophage antirepressor [Transcription]; Region: COG3617 862964001363 BRO family, N-terminal domain; Region: Bro-N; smart01040 862964001364 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 862964001365 HMMPfam hit to PF02498, Bro-N, score 2.1e-22 862964001366 Phage minor tail protein; Region: Phage_min_tail; cl01940 862964001367 HMMPfam hit to PF05939, Phage_min_tail, score 2.1e-28 862964001368 Phage-related minor tail protein [Function unknown]; Region: COG5281 862964001369 tape measure domain; Region: tape_meas_nterm; TIGR02675 862964001370 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 862964001371 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 862964001372 non-specific DNA binding site [nucleotide binding]; other site 862964001373 salt bridge; other site 862964001374 sequence-specific DNA binding site [nucleotide binding]; other site 862964001375 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; cl00075 862964001376 HMMPfam hit to PF01381, HTH_3, score 5.1e-07 862964001377 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 862964001378 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 862964001379 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 862964001380 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 862964001381 HMMPfam hit to PF06763, Minor_tail_Z, score 1.3e-46 862964001382 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 862964001383 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 862964001384 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 862964001385 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 862964001386 oligomer interface [polypeptide binding]; other site 862964001387 active site residues [active] 862964001388 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 862964001389 HMMPfam hit to PF00574, CLP_protease, score 1.1e-53 862964001390 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 862964001391 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 862964001392 HMMPfam hit to PF05136, Phage_portal_2, score 9.5e-112 862964001393 ORF11CD3 domain; Region: ORF11CD3; pfam10549 862964001394 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 862964001395 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 862964001396 HMMPfam hit to PF05876, Terminase_GpA, score 0 862964001397 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 862964001398 HMMPfam hit to PF07278, DUF1441, score 3.7e-49 862964001399 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 862964001400 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 862964001401 catalytic residues [active] 862964001402 HMMPfam hit to PF00959, Phage_lysozyme, score 6.1e-34 862964001403 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 862964001404 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 862964001405 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 862964001406 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 862964001407 HMMPfam hit to PF05766, NinG, score 1.4e-66 862964001408 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 862964001409 G1 box; other site 862964001410 GTP/Mg2+ binding site [chemical binding]; other site 862964001411 NinB protein; Region: NinB; pfam05772 862964001412 HMMPfam hit to PF05772, NinB, score 3.4e-46 862964001413 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 862964001414 Methyltransferase domain; Region: Methyltransf_26; pfam13659 862964001415 HMMPfam hit to PF02384, N6_Mtase, score 5.8e-05 862964001416 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 862964001417 replicative DNA helicase; Region: DnaB; TIGR00665 862964001418 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 862964001419 Walker A motif; other site 862964001420 ATP binding site [chemical binding]; other site 862964001421 Walker B motif; other site 862964001422 DNA binding loops [nucleotide binding] 862964001423 HMMPfam hit to PF03796, DnaB_C, score 3.1e-49 862964001424 Helix-turn-helix domain; Region: HTH_39; pfam14090 862964001425 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 862964001426 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 862964001427 non-specific DNA binding site [nucleotide binding]; other site 862964001428 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 862964001429 salt bridge; other site 862964001430 sequence-specific DNA binding site [nucleotide binding]; other site 862964001431 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 862964001432 Catalytic site [active] 862964001433 HMMPfam hit to PF01381, HTH_3, score 1e-13 862964001434 HMMPfam hit to PF00717, Peptidase_S24, score 1.1e-06 862964001435 ribonuclease Y; Region: RNase_Y; TIGR03319 862964001436 RecT family; Region: RecT; cl04285 862964001437 HMMPfam hit to PF03837, RecT, score 4.9e-47 862964001438 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 862964001439 KilA-N domain; Region: KilA-N; pfam04383 862964001440 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 862964001441 HMMPfam hit to PF04383, KilA-N, score 3.6e-09 862964001442 integrase; Provisional; Region: int; PHA02601 862964001443 P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 862964001444 Int/Topo IB signature motif; other site 862964001445 HMMPfam hit to PF00589, Phage_integrase, score 4e-31 862964001446 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 862964001447 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 862964001448 HIGH motif; other site 862964001449 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 862964001450 active site 862964001451 KMSKS motif; other site 862964001452 HMMPfam hit to PF00749, tRNA-synt_1c, score 2.7e-191 862964001453 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 862964001454 Sulfatase; Region: Sulfatase; cl17466 862964001455 HMMPfam hit to PF00884, Sulfatase, score 2.1e-12 862964001456 hypothetical protein; Reviewed; Region: PRK01637 862964001457 HMMPfam hit to PF03631, Ribonuclease_BN, score 2.2e-93 862964001458 hypothetical protein; Provisional; Region: PRK01752 862964001459 SEC-C motif; Region: SEC-C; pfam02810 862964001460 SEC-C motif; Region: SEC-C; pfam02810 862964001461 HMMPfam hit to PF02810, SEC-C, score 1e-09 862964001462 HMMPfam hit to PF02810, SEC-C, score 1.5e-06 862964001463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 862964001464 MOSC domain; Region: MOSC; pfam03473 862964001465 3-alpha domain; Region: 3-alpha; pfam03475 862964001466 HMMPfam hit to PF03475, 3-alpha, score 6.7e-14 862964001467 HMMPfam hit to PF03473, MOSC, score 4.9e-46 862964001468 uridine phosphorylase; Provisional; Region: PRK11178 862964001469 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 862964001470 HMMPfam hit to PF01048, PNP_UDP_1, score 4.5e-116 862964001471 metabolite-proton symporter; Region: 2A0106; TIGR00883 862964001472 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 862964001473 putative substrate translocation pore; other site 862964001474 HMMPfam hit to PF07690, MFS_1, score 1.8e-22 862964001475 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 862964001476 HMMPfam hit to PF00561, Abhydrolase_1, score 5.2e-37 862964001477 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 862964001478 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 862964001479 dimer interface [polypeptide binding]; other site 862964001480 tetramer interface [polypeptide binding]; other site 862964001481 PYR/PP interface [polypeptide binding]; other site 862964001482 TPP binding site [chemical binding]; other site 862964001483 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 862964001484 TPP-binding site; other site 862964001485 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 862964001486 isochorismate synthases; Region: isochor_syn; TIGR00543 862964001487 HMMPfam hit to PF00425, Chorismate_bind, score 1.3e-26 862964001488 aminotransferase AlaT; Validated; Region: PRK09265 862964001489 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 862964001490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964001491 homodimer interface [polypeptide binding]; other site 862964001492 catalytic residue [active] 862964001493 HMMPfam hit to PF00155, Aminotran_1_2, score 2.6e-37 862964001494 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 862964001495 aromatic amino acid transport protein; Region: araaP; TIGR00837 862964001496 HMMPfam hit to PF03222, Trp_Tyr_perm, score 3.5e-249 862964001497 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 862964001498 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 862964001499 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 862964001500 HMMPfam hit to PF03313, SDH_alpha, score 1.5e-205 862964001501 HMMPfam hit to PF03315, SDH_beta, score 2.1e-108 862964001502 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 862964001503 serine transporter; Region: stp; TIGR00814 862964001504 HMMPfam hit to PF01490, Aa_trans, score 0.0047 862964001505 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 862964001506 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 862964001507 metal-binding site [ion binding] 862964001508 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 862964001509 Soluble P-type ATPase [General function prediction only]; Region: COG4087 862964001510 HMMPfam hit to PF00702, Hydrolase, score 3.1e-31 862964001511 HMMPfam hit to PF00122, E1-E2_ATPase, score 2.7e-69 862964001512 HMMPfam hit to PF00403, HMA, score 6.3e-15 862964001513 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 862964001514 metal-binding site [ion binding] 862964001515 HMMPfam hit to PF00403, HMA, score 4.1e-12 862964001516 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 862964001517 metal-binding site [ion binding] 862964001518 HMMPfam hit to PF00403, HMA, score 2.1e-12 862964001519 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 862964001520 metal-binding site [ion binding] 862964001521 HMMPfam hit to PF00403, HMA, score 2.1e-12 862964001522 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 862964001523 metal-binding site [ion binding] 862964001524 HMMPfam hit to PF00403, HMA, score 4.2e-11 862964001525 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 862964001526 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 862964001527 DNA binding residues [nucleotide binding] 862964001528 dimer interface [polypeptide binding]; other site 862964001529 copper binding site [ion binding]; other site 862964001530 HMMPfam hit to PF00376, MerR, score 6e-12 862964001531 HMMPfam hit to PF09278, MerR-DNA-bind, score 6.8e-26 862964001532 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 862964001533 dimerization interface [polypeptide binding]; other site 862964001534 DNA binding site [nucleotide binding] 862964001535 corepressor binding sites; other site 862964001536 HMMPfam hit to PF01340, MetJ, score 8.9e-89 862964001537 transcription termination factor Rho; Provisional; Region: rho; PRK09376 862964001538 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 862964001539 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 862964001540 RNA binding site [nucleotide binding]; other site 862964001541 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 862964001542 multimer interface [polypeptide binding]; other site 862964001543 Walker A motif; other site 862964001544 ATP binding site [chemical binding]; other site 862964001545 Walker B motif; other site 862964001546 HMMPfam hit to PF07498, Rho_N, score 3e-17 862964001547 HMMPfam hit to PF07497, Rho_RNA_bind, score 1.9e-56 862964001548 HMMPfam hit to PF00006, ATP-synt_ab, score 1.8e-77 862964001549 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 862964001550 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 862964001551 HMMPfam hit to PF01478, Peptidase_A24, score 6.7e-20 862964001552 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 862964001553 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 862964001554 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 862964001555 HMMPfam hit to PF00482, GSPII_F, score 3.1e-19 862964001556 HMMPfam hit to PF00482, GSPII_F, score 4.9e-15 862964001557 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 862964001558 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 862964001559 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 862964001560 Walker A motif; other site 862964001561 ATP binding site [chemical binding]; other site 862964001562 Walker B motif; other site 862964001563 HMMPfam hit to PF00437, GSPII_E, score 1.4e-148 862964001564 HMMPfam hit to PF05157, GSPII_E_N, score 7.3e-13 862964001565 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 862964001566 HMMPfam hit to PF07963, N_methyl, score 1.1e-09 862964001567 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 862964001568 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 862964001569 amidase catalytic site [active] 862964001570 Zn binding residues [ion binding]; other site 862964001571 substrate binding site [chemical binding]; other site 862964001572 HMMPfam hit to PF01510, Amidase_2, score 9.2e-65 862964001573 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 862964001574 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 862964001575 Transporter associated domain; Region: CorC_HlyC; smart01091 862964001576 HMMPfam hit to PF00571, CBS, score 1.7e-27 862964001577 HMMPfam hit to PF03471, CorC_HlyC, score 8.3e-24 862964001578 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 862964001579 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 862964001580 putative active site [active] 862964001581 catalytic triad [active] 862964001582 putative dimer interface [polypeptide binding]; other site 862964001583 HMMPfam hit to PF00795, CN_hydrolase, score 3e-39 862964001584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 862964001585 RNA methyltransferase, RsmE family; Region: TIGR00046 862964001586 HMMPfam hit to PF04452, DUF558, score 4.5e-106 862964001587 Putative transcriptional regulator [Transcription]; Region: COG1678 862964001588 HMMPfam hit to PF02622, DUF179, score 1.5e-100 862964001589 RNAse H-fold protein YqgF; Region: RNAse_H_YqgF; TIGR00250 862964001590 HMMPfam hit to PF03652, UPF0081, score 5.4e-70 862964001591 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 862964001592 HMMPfam hit to PF04381, RdgC, score 1.7e-210 862964001593 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 862964001594 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 862964001595 HMMPfam hit to PF03807, F420_oxidored, score 6.4e-90 862964001596 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 862964001597 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 862964001598 putative substrate translocation pore; other site 862964001599 HMMPfam hit to PF07690, MFS_1, score 4.4e-21 862964001600 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 862964001601 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 862964001602 active site 862964001603 Int/Topo IB signature motif; other site 862964001604 HMMPfam hit to PF02899, Phage_integr_N, score 1.6e-33 862964001605 HMMPfam hit to PF00589, Phage_integrase, score 5.5e-69 862964001606 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 862964001607 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 862964001608 Walker A motif; other site 862964001609 ATP binding site [chemical binding]; other site 862964001610 Walker B motif; other site 862964001611 arginine finger; other site 862964001612 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 862964001613 HMMPfam hit to PF05491, RuvB_C, score 1.1e-55 862964001614 HMMPfam hit to PF00004, AAA, score 1.9e-36 862964001615 HMMPfam hit to PF05496, RuvB_N, score 2.2e-29 862964001616 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 862964001617 RuvA N terminal domain; Region: RuvA_N; pfam01330 862964001618 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 862964001619 HMMPfam hit to PF07499, RuvA_C, score 9.2e-18 862964001620 HMMPfam hit to PF01330, RuvA_N, score 2e-30 862964001621 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 862964001622 active site 862964001623 putative DNA-binding cleft [nucleotide binding]; other site 862964001624 dimer interface [polypeptide binding]; other site 862964001625 HMMPfam hit to PF02075, RuvC, score 1.1e-101 862964001626 hypothetical protein; Validated; Region: PRK00110 862964001627 HMMPfam hit to PF01709, DUF28, score 7.6e-153 862964001628 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 862964001629 nudix motif; other site 862964001630 HMMPfam hit to PF00293, NUDIX, score 1.9e-27 862964001631 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 862964001632 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 862964001633 dimer interface [polypeptide binding]; other site 862964001634 anticodon binding site; other site 862964001635 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 862964001636 homodimer interface [polypeptide binding]; other site 862964001637 motif 1; other site 862964001638 active site 862964001639 motif 2; other site 862964001640 GAD domain; Region: GAD; pfam02938 862964001641 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 862964001642 active site 862964001643 motif 3; other site 862964001644 HMMPfam hit to PF00152, tRNA-synt_2, score 2.7e-218 862964001645 HMMPfam hit to PF02938, GAD, score 2.4e-54 862964001646 HMMPfam hit to PF01336, tRNA_anti, score 1.2e-26 862964001647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 862964001648 HMMPfam hit to PF04140, ICMT, score 5.6e-49 862964001649 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 862964001650 S-adenosylmethionine binding site [chemical binding]; other site 862964001651 HMMPfam hit to PF08242, Methyltransf_12, score 5.2e-12 862964001652 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 862964001653 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 862964001654 dimer interface [polypeptide binding]; other site 862964001655 active site 862964001656 metal binding site [ion binding]; metal-binding site 862964001657 glutathione binding site [chemical binding]; other site 862964001658 HMMPfam hit to PF00903, Glyoxalase, score 2.5e-42 862964001659 ribonuclease T; Provisional; Region: PRK05168 862964001660 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 862964001661 active site 862964001662 catalytic site [active] 862964001663 substrate binding site [chemical binding]; other site 862964001664 HMMPfam hit to PF00929, Exonuc_X-T, score 1.4e-37 862964001665 Predicted permease [General function prediction only]; Region: COG2056 862964001666 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 862964001667 HMMPfam hit to PF03553, Na_H_antiporter, score 3.1e-101 862964001668 Primosomal replication protein N'' [DNA replication, recombination, and repair]; Region: PriC; COG3923 862964001669 elongation factor P; Validated; Region: PRK00529 862964001670 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 862964001671 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 862964001672 RNA binding site [nucleotide binding]; other site 862964001673 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 862964001674 RNA binding site [nucleotide binding]; other site 862964001675 HMMPfam hit to PF09285, Elong-fact-P_C, score 4e-35 862964001676 HMMPfam hit to PF01132, EFP, score 1.8e-28 862964001677 HMMPfam hit to PF08207, EFP_N, score 1.1e-33 862964001678 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 862964001679 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 862964001680 FeS/SAM binding site; other site 862964001681 HMMPfam hit to PF04055, Radical_SAM, score 8.7e-12 862964001682 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 862964001683 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 862964001684 HMMPfam hit to PF08525, OapA_N, score 1.7e-09 862964001685 HMMPfam hit to PF04225, OapA, score 2e-51 862964001686 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 862964001687 Recombination protein O N terminal; Region: RecO_N; pfam11967 862964001688 Recombination protein O C terminal; Region: RecO_C; pfam02565 862964001689 HMMPfam hit to PF02565, RecO, score 1.1e-124 862964001690 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 862964001691 TRAM domain; Region: TRAM; pfam01938 862964001692 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 862964001693 S-adenosylmethionine binding site [chemical binding]; other site 862964001694 HMMPfam hit to PF01938, TRAM, score 9.3e-15 862964001695 HMMPfam hit to PF05958, tRNA_U5-meth_tr, score 2.7e-11 862964001696 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 862964001697 HD domain; Region: HD_4; pfam13328 862964001698 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 862964001699 synthetase active site [active] 862964001700 NTP binding site [chemical binding]; other site 862964001701 metal binding site [ion binding]; metal-binding site 862964001702 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 862964001703 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 862964001704 HMMPfam hit to PF04607, RelA_SpoT, score 3.1e-46 862964001705 HMMPfam hit to PF02824, TGS, score 2.3e-30 862964001706 HMMPfam hit to PF01842, ACT, score 1.9e-08 862964001707 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 862964001708 HMMPfam hit to PF01219, DAGK_prokar, score 4.3e-72 862964001709 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 862964001710 MPT binding site; other site 862964001711 trimer interface [polypeptide binding]; other site 862964001712 HMMPfam hit to PF00994, MoCF_biosynth, score 5.5e-29 862964001713 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 862964001714 Nitrogen regulatory protein P-II; Region: P-II; smart00938 862964001715 HMMPfam hit to PF00543, P-II, score 5.9e-81 862964001716 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 862964001717 Domain of unknown function DUF20; Region: UPF0118; pfam01594 862964001718 HMMPfam hit to PF01594, UPF0118, score 8.5e-88 862964001719 primosome assembly protein PriA; Validated; Region: PRK05580 862964001720 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 862964001721 ATP binding site [chemical binding]; other site 862964001722 putative Mg++ binding site [ion binding]; other site 862964001723 helicase superfamily c-terminal domain; Region: HELICc; smart00490 862964001724 nucleotide binding region [chemical binding]; other site 862964001725 ATP-binding site [chemical binding]; other site 862964001726 HMMPfam hit to PF00271, Helicase_C, score 9.7e-08 862964001727 HMMPfam hit to PF00270, DEAD, score 3.9e-27 862964001728 tRNA (guanine-N(7)-)-methyltransferase; Region: TIGR00091 862964001729 HMMPfam hit to PF02390, Methyltransf_4, score 1.7e-103 862964001730 hypothetical protein; Provisional; Region: PRK11702 862964001731 HMMPfam hit to PF04320, DUF469, score 3.2e-81 862964001732 ferredoxin-type protein NapF; Region: napF; TIGR00402 862964001733 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 862964001734 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 862964001735 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 862964001736 HMMPfam hit to PF00037, Fer4, score 0.0018 862964001737 HMMPfam hit to PF00037, Fer4, score 9e-05 862964001738 HMMPfam hit to PF00037, Fer4, score 4.6e-08 862964001739 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 862964001740 HMMPfam hit to PF03927, NapD, score 2.2e-41 862964001741 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 862964001742 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 862964001743 [4Fe-4S] binding site [ion binding]; other site 862964001744 molybdopterin cofactor binding site; other site 862964001745 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 862964001746 molybdopterin cofactor binding site; other site 862964001747 HMMPfam hit to PF04879, Molybdop_Fe4S4, score 1.9e-23 862964001748 HMMPfam hit to PF00384, Molybdopterin, score 1.5e-128 862964001749 HMMPfam hit to PF01568, Molydop_binding, score 2.2e-31 862964001750 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 862964001751 HMMPfam hit to PF00037, Fer4, score 1.7e-05 862964001752 HMMPfam hit to PF00037, Fer4, score 0.0015 862964001753 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 862964001754 4Fe-4S binding domain; Region: Fer4_5; pfam12801 862964001755 4Fe-4S binding domain; Region: Fer4_6; pfam12837 862964001756 HMMPfam hit to PF00037, Fer4, score 0.00083 862964001757 HMMPfam hit to PF00037, Fer4, score 0.0015 862964001758 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 862964001759 HMMPfam hit to PF03892, NapB, score 3.9e-100 862964001760 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 862964001761 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 862964001762 HMMPfam hit to PF03264, Cytochrom_NNT, score 1.6e-117 862964001763 adenylate kinase; Reviewed; Region: adk; PRK00279 862964001764 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 862964001765 AMP-binding site [chemical binding]; other site 862964001766 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 862964001767 HMMPfam hit to PF00406, ADK, score 6e-102 862964001768 HMMPfam hit to PF05191, ADK_lid, score 5.4e-21 862964001769 muropeptide transporter; Reviewed; Region: ampG; PRK11902 862964001770 AmpG-like permease; Region: 2A0125; TIGR00901 862964001771 HMMPfam hit to PF07690, MFS_1, score 9.1e-11 862964001772 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 862964001773 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 862964001774 NAD binding site [chemical binding]; other site 862964001775 homodimer interface [polypeptide binding]; other site 862964001776 active site 862964001777 substrate binding site [chemical binding]; other site 862964001778 HMMPfam hit to PF01370, Epimerase, score 2.4e-85 862964001779 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 862964001780 HMMPfam hit to PF06002, CST-I, score 3.2e-107 862964001781 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 862964001782 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964001783 Walker A/P-loop; other site 862964001784 ATP binding site [chemical binding]; other site 862964001785 Q-loop/lid; other site 862964001786 ABC transporter signature motif; other site 862964001787 Walker B; other site 862964001788 D-loop; other site 862964001789 H-loop/switch region; other site 862964001790 HMMPfam hit to PF00005, ABC_tran, score 1.1e-51 862964001791 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 862964001792 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 862964001793 dimer interface [polypeptide binding]; other site 862964001794 conserved gate region; other site 862964001795 putative PBP binding loops; other site 862964001796 ABC-ATPase subunit interface; other site 862964001797 HMMPfam hit to PF00528, BPD_transp_1, score 4.9e-42 862964001798 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; cl17432 862964001799 NMT1/THI5 like; Region: NMT1; pfam09084 862964001800 HMMPfam hit to PF09084, NMT1, score 6.8e-95 862964001801 Putative transcription activator [Transcription]; Region: TenA; COG0819 862964001802 HMMPfam hit to PF03070, TENA_THI-4, score 2.7e-88 862964001803 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 862964001804 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 862964001805 ABC-ATPase subunit interface; other site 862964001806 dimer interface [polypeptide binding]; other site 862964001807 putative PBP binding regions; other site 862964001808 HMMPfam hit to PF00950, ABC-3, score 1e-148 862964001809 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 862964001810 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 862964001811 ABC-ATPase subunit interface; other site 862964001812 dimer interface [polypeptide binding]; other site 862964001813 putative PBP binding regions; other site 862964001814 HMMPfam hit to PF00950, ABC-3, score 7.4e-134 862964001815 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 862964001816 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 862964001817 HMMPfam hit to PF00005, ABC_tran, score 6.6e-52 862964001818 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 862964001819 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 862964001820 metal binding site [ion binding]; metal-binding site 862964001821 HMMPfam hit to PF01297, SBP_bac_9, score 4.7e-148 862964001822 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 862964001823 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 862964001824 HMMPfam hit to PF00768, Peptidase_S11, score 1.9e-13 862964001825 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 862964001826 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 862964001827 FeS/SAM binding site; other site 862964001828 HMMPfam hit to PF04055, Radical_SAM, score 1.5e-14 862964001829 TPR repeat; Region: TPR_11; pfam13414 862964001830 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 862964001831 TPR motif; other site 862964001832 binding surface 862964001833 HMMPfam hit to PF00515, TPR_1, score 0.00071 862964001834 HMMPfam hit to PF00515, TPR_1, score 0.071 862964001835 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 862964001836 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 862964001837 non-specific DNA binding site [nucleotide binding]; other site 862964001838 salt bridge; other site 862964001839 sequence-specific DNA binding site [nucleotide binding]; other site 862964001840 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 862964001841 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 862964001842 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 862964001843 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 862964001844 HMMPfam hit to PF04551, GcpE, score 2e-250 862964001845 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 862964001846 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 862964001847 dimer interface [polypeptide binding]; other site 862964001848 motif 1; other site 862964001849 active site 862964001850 motif 2; other site 862964001851 motif 3; other site 862964001852 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 862964001853 anticodon binding site; other site 862964001854 HMMPfam hit to PF00587, tRNA-synt_2b, score 6.8e-56 862964001855 HMMPfam hit to PF03129, HGTP_anticodon, score 3.8e-17 862964001856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 862964001857 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 862964001858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2975 862964001859 HMMPfam hit to PF04384, DUF528, score 2.2e-46 862964001860 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 862964001861 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 862964001862 catalytic loop [active] 862964001863 iron binding site [ion binding]; other site 862964001864 HMMPfam hit to PF00111, Fer2, score 7.2e-18 862964001865 chaperone protein HscA; Provisional; Region: hscA; PRK05183 862964001866 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 862964001867 nucleotide binding site [chemical binding]; other site 862964001868 putative NEF/HSP70 interaction site [polypeptide binding]; other site 862964001869 SBD interface [polypeptide binding]; other site 862964001870 HMMPfam hit to PF00012, HSP70, score 5.1e-249 862964001871 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 862964001872 co-chaperone HscB; Provisional; Region: hscB; PRK01773 862964001873 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 862964001874 HSP70 interaction site [polypeptide binding]; other site 862964001875 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 862964001876 HMMPfam hit to PF07743, HSCB_C, score 1.6e-33 862964001877 HMMPfam hit to PF00226, DnaJ, score 9.1e-10 862964001878 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 862964001879 HMMPfam hit to PF01521, Fe-S_biosyn, score 2.3e-45 862964001880 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 862964001881 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 862964001882 trimerization site [polypeptide binding]; other site 862964001883 active site 862964001884 HMMPfam hit to PF01592, NifU_N, score 8e-80 862964001885 cysteine desulfurase; Provisional; Region: PRK14012 862964001886 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 862964001887 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 862964001888 catalytic residue [active] 862964001889 HMMPfam hit to PF00266, Aminotran_5, score 4.3e-115 862964001890 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 862964001891 Rrf2 family protein; Region: rrf2_super; TIGR00738 862964001892 HMMPfam hit to PF02082, Rrf2, score 9.1e-56 862964001893 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 862964001894 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 862964001895 HMMPfam hit to PF00588, SpoU_methylase, score 5e-43 862964001896 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 862964001897 ligand binding site [chemical binding]; other site 862964001898 HMMPfam hit to PF00691, OmpA, score 5.5e-50 862964001899 translocation protein TolB; Provisional; Region: tolB; PRK01742 862964001900 TolB amino-terminal domain; Region: TolB_N; pfam04052 862964001901 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 862964001902 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 862964001903 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 862964001904 HMMPfam hit to PF07676, PD40, score 8.3e-06 862964001905 HMMPfam hit to PF07676, PD40, score 1.9e-09 862964001906 HMMPfam hit to PF07676, PD40, score 3.6e-08 862964001907 HMMPfam hit to PF07676, PD40, score 2e-05 862964001908 HMMPfam hit to PF04052, TolB_N, score 3.3e-83 862964001909 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 862964001910 TolA C-terminal; Region: TolA; pfam06519 862964001911 HMMPfam hit to PF06519, TolA, score 1.1e-147 862964001912 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 862964001913 colicin uptake protein TolR; Provisional; Region: PRK11024 862964001914 HMMPfam hit to PF02472, ExbD, score 9.5e-08 862964001915 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 862964001916 HMMPfam hit to PF01618, MotA_ExbB, score 3.9e-64 862964001917 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 862964001918 active site 862964001919 HMMPfam hit to PF03061, 4HBT, score 4e-17 862964001920 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 862964001921 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 862964001922 DEAD_2; Region: DEAD_2; pfam06733 862964001923 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 862964001924 nucleotide binding region [chemical binding]; other site 862964001925 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 862964001926 Glycoprotease family; Region: Peptidase_M22; pfam00814 862964001927 HMMPfam hit to PF00814, Peptidase_M22, score 7.5e-63 862964001928 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 862964001929 HMMPfam hit to PF03843, Slp, score 1e-96 862964001930 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 862964001931 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 862964001932 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 862964001933 acyl-activating enzyme (AAE) consensus motif; other site 862964001934 putative AMP binding site [chemical binding]; other site 862964001935 putative active site [active] 862964001936 putative CoA binding site [chemical binding]; other site 862964001937 HMMPfam hit to PF00501, AMP-binding, score 2e-122 862964001938 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 862964001939 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 862964001940 catalytic site [active] 862964001941 putative active site [active] 862964001942 putative substrate binding site [chemical binding]; other site 862964001943 Helicase and RNase D C-terminal; Region: HRDC; smart00341 862964001944 HMMPfam hit to PF01612, 3_5_exonuc, score 2.1e-68 862964001945 HMMPfam hit to PF00570, HRDC, score 1.5e-24 862964001946 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 862964001947 HMMPfam hit to PF01757, Acyl_transf_3, score 1.5e-58 862964001948 GTP-binding protein YchF; Reviewed; Region: PRK09601 862964001949 YchF GTPase; Region: YchF; cd01900 862964001950 G1 box; other site 862964001951 GTP/Mg2+ binding site [chemical binding]; other site 862964001952 Switch I region; other site 862964001953 G2 box; other site 862964001954 Switch II region; other site 862964001955 G3 box; other site 862964001956 G4 box; other site 862964001957 G5 box; other site 862964001958 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 862964001959 HMMPfam hit to PF06071, DUF933, score 6.9e-60 862964001960 HMMPfam hit to PF01926, MMR_HSR1, score 1e-32 862964001961 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 862964001962 putative active site [active] 862964001963 catalytic residue [active] 862964001964 HMMPfam hit to PF01195, Pept_tRNA_hydro, score 7.3e-117 862964001965 hypothetical protein; Validated; Region: PRK01777 862964001966 HMMPfam hit to PF03658, UPF0125, score 7.4e-59 862964001967 Uncharacterized conserved protein [Function unknown]; Region: COG2850 862964001968 Cupin domain; Region: Cupin_2; cl17218 862964001969 HMMPfam hit to PF08007, Cupin_4, score 4.5e-150 862964001970 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 862964001971 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 862964001972 generic binding surface II; other site 862964001973 generic binding surface I; other site 862964001974 HMMPfam hit to PF01336, tRNA_anti, score 2.7e-12 862964001975 HMMPfam hit to PF02601, Exonuc_VII_L, score 1.6e-99 862964001976 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 862964001977 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 862964001978 dimer interface [polypeptide binding]; other site 862964001979 ADP-ribose binding site [chemical binding]; other site 862964001980 active site 862964001981 nudix motif; other site 862964001982 metal binding site [ion binding]; metal-binding site 862964001983 HMMPfam hit to PF00293, NUDIX, score 5e-21 862964001984 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 862964001985 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 862964001986 active site 862964001987 metal binding site [ion binding]; metal-binding site 862964001988 hexamer interface [polypeptide binding]; other site 862964001989 HMMPfam hit to PF00149, Metallophos, score 3.8e-21 862964001990 HMMPfam hit to PF08413, Metallophos_C, score 2e-45 862964001991 conserved hypothetical protein; Region: TIGR00743 862964001992 HMMPfam hit to PF04175, DUF406, score 9.9e-62 862964001993 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 862964001994 HMMPfam hit to PF03349, Toluene_X, score 4.1e-184 862964001995 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 862964001996 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 862964001997 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 862964001998 DNA binding site [nucleotide binding] 862964001999 active site 862964002000 HMMPfam hit to PF02870, Methyltransf_1N, score 1.2e-27 862964002001 HMMPfam hit to PF01035, DNA_binding_1, score 2.6e-54 862964002002 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 862964002003 putative DNA-binding cleft [nucleotide binding]; other site 862964002004 putative DNA clevage site; other site 862964002005 molecular lever; other site 862964002006 HMMPfam hit to PF02976, MutH, score 3.2e-60 862964002007 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 862964002008 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 862964002009 Ligand Binding Site [chemical binding]; other site 862964002010 TilS substrate binding domain; Region: TilS; pfam09179 862964002011 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 862964002012 HMMPfam hit to PF09179, DUF1946, score 1.3e-44 862964002013 HMMPfam hit to PF01171, ATP_bind_3, score 2e-97 862964002014 pyridoxamine kinase; Validated; Region: PRK05756 862964002015 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 862964002016 dimer interface [polypeptide binding]; other site 862964002017 pyridoxal binding site [chemical binding]; other site 862964002018 ATP binding site [chemical binding]; other site 862964002019 HMMPfam hit to PF00294, PfkB, score 5.8e-09 862964002020 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 862964002021 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 862964002022 HMMPfam hit to PF03255, ACCA, score 4.6e-99 862964002023 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 862964002024 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 862964002025 ABC-ATPase subunit interface; other site 862964002026 dimer interface [polypeptide binding]; other site 862964002027 putative PBP binding regions; other site 862964002028 HMMPfam hit to PF00950, ABC-3, score 1.9e-126 862964002029 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 862964002030 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964002031 Walker A/P-loop; other site 862964002032 ATP binding site [chemical binding]; other site 862964002033 Q-loop/lid; other site 862964002034 ABC transporter signature motif; other site 862964002035 Walker B; other site 862964002036 D-loop; other site 862964002037 H-loop/switch region; other site 862964002038 HMMPfam hit to PF00005, ABC_tran, score 1.4e-49 862964002039 putative peptidase; Provisional; Region: PRK11649 862964002040 Peptidase family M23; Region: Peptidase_M23; pfam01551 862964002041 HMMPfam hit to PF01551, Peptidase_M23, score 1.1e-57 862964002042 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 862964002043 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 862964002044 Walker A motif; other site 862964002045 ATP binding site [chemical binding]; other site 862964002046 Walker B motif; other site 862964002047 arginine finger; other site 862964002048 HMMPfam hit to PF00158, Sigma54_activat, score 3e-91 862964002049 bacterial Hfq-like; Region: Hfq; cd01716 862964002050 hexamer interface [polypeptide binding]; other site 862964002051 Sm1 motif; other site 862964002052 RNA binding site [nucleotide binding]; other site 862964002053 Sm2 motif; other site 862964002054 HMMPfam hit to PF01423, LSM, score 1.3e-11 862964002055 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 862964002056 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 862964002057 RNA binding surface [nucleotide binding]; other site 862964002058 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 862964002059 active site 862964002060 HMMPfam hit to PF00849, PseudoU_synth_2, score 6.5e-53 862964002061 HMMPfam hit to PF01479, S4, score 1.5e-10 862964002062 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 862964002063 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 862964002064 homodimer interface [polypeptide binding]; other site 862964002065 oligonucleotide binding site [chemical binding]; other site 862964002066 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 862964002067 HMMPfam hit to PF00575, S1, score 3.6e-15 862964002068 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 862964002069 HMMPfam hit to PF02462, Opacity, score 2.1e-05 862964002070 HMMPfam hit to PF02462, Opacity, score 0.00015 862964002071 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 862964002072 substrate binding site [chemical binding]; other site 862964002073 multimerization interface [polypeptide binding]; other site 862964002074 ATP binding site [chemical binding]; other site 862964002075 HMMPfam hit to PF02110, HK, score 1.1e-155 862964002076 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 862964002077 dimer interface [polypeptide binding]; other site 862964002078 substrate binding site [chemical binding]; other site 862964002079 ATP binding site [chemical binding]; other site 862964002080 HMMPfam hit to PF08543, Phos_pyr_kin, score 2.1e-148 862964002081 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 862964002082 thiamine phosphate binding site [chemical binding]; other site 862964002083 active site 862964002084 pyrophosphate binding site [ion binding]; other site 862964002085 HMMPfam hit to PF02581, TMP-TENI, score 1.4e-92 862964002086 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 862964002087 metabolite-proton symporter; Region: 2A0106; TIGR00883 862964002088 putative substrate translocation pore; other site 862964002089 HMMPfam hit to PF07690, MFS_1, score 2.5e-19 862964002090 putative protease; Provisional; Region: PRK15452 862964002091 Peptidase family U32; Region: Peptidase_U32; pfam01136 862964002092 HMMPfam hit to PF01136, Peptidase_U32, score 3.3e-141 862964002093 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 862964002094 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 862964002095 ATP binding site [chemical binding]; other site 862964002096 Mg++ binding site [ion binding]; other site 862964002097 motif III; other site 862964002098 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 862964002099 nucleotide binding region [chemical binding]; other site 862964002100 ATP-binding site [chemical binding]; other site 862964002101 HMMPfam hit to PF00271, Helicase_C, score 4.8e-32 862964002102 HMMPfam hit to PF00270, DEAD, score 3.5e-67 862964002103 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 862964002104 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 862964002105 S-adenosylmethionine binding site [chemical binding]; other site 862964002106 HMMPfam hit to PF08241, Methyltransf_11, score 8.3e-08 862964002107 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 862964002108 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 862964002109 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 862964002110 HMMPfam hit to PF00588, SpoU_methylase, score 4.4e-15 862964002111 HMMPfam hit to PF08032, SpoU_sub_bind, score 3e-13 862964002112 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 862964002113 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 862964002114 domain interface [polypeptide binding]; other site 862964002115 putative active site [active] 862964002116 catalytic site [active] 862964002117 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 862964002118 domain interface [polypeptide binding]; other site 862964002119 putative active site [active] 862964002120 catalytic site [active] 862964002121 HMMPfam hit to PF00614, PLDc, score 1.1e-05 862964002122 HMMPfam hit to PF00614, PLDc, score 2.9e-08 862964002123 fatty acid metabolism transcriptional regulator FadR; Region: fadR_gamma; TIGR02812 862964002124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 862964002125 DNA-binding site [nucleotide binding]; DNA binding site 862964002126 FadR C-terminal domain; Region: FadR_C; pfam07840 862964002127 HMMPfam hit to PF07840, FadR_C, score 8.9e-105 862964002128 HMMPfam hit to PF00392, GntR, score 1.9e-22 862964002129 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 862964002130 HMMPfam hit to PF06450, NhaB, score 0 862964002131 disulfide bond formation protein B; Provisional; Region: PRK01749 862964002132 HMMPfam hit to PF02600, DsbB, score 1.1e-85 862964002133 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 862964002134 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 862964002135 glutaminase active site [active] 862964002136 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 862964002137 dimer interface [polypeptide binding]; other site 862964002138 active site 862964002139 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 862964002140 dimer interface [polypeptide binding]; other site 862964002141 active site 862964002142 HMMPfam hit to PF01380, SIS, score 2e-30 862964002143 HMMPfam hit to PF01380, SIS, score 3e-44 862964002144 HMMPfam hit to PF00310, GATase_2, score 7.3e-65 862964002145 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 862964002146 IHF dimer interface [polypeptide binding]; other site 862964002147 IHF - DNA interface [nucleotide binding]; other site 862964002148 HMMPfam hit to PF00216, Bac_DNA_binding, score 8.4e-52 862964002149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 862964002150 HMMPfam hit to PF04222, DUF416, score 2.4e-160 862964002151 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 862964002152 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 862964002153 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 862964002154 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 862964002155 putative NADH binding site [chemical binding]; other site 862964002156 putative active site [active] 862964002157 nudix motif; other site 862964002158 putative metal binding site [ion binding]; other site 862964002159 HMMPfam hit to PF00293, NUDIX, score 5.6e-30 862964002160 HMMPfam hit to PF09297, zf-NADH-PPase, score 4.1e-13 862964002161 HMMPfam hit to PF09296, NUDIX-like, score 1.6e-14 862964002162 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 862964002163 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 862964002164 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 862964002165 HMMPfam hit to PF01106, NifU, score 3.5e-07 862964002166 HMMPfam hit to PF01521, Fe-S_biosyn, score 5.9e-33 862964002167 comF family protein; Region: comF; TIGR00201 862964002168 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964002169 active site 862964002170 HMMPfam hit to PF00156, Pribosyltran, score 2.1e-07 862964002171 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 862964002172 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 862964002173 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 862964002174 HMMPfam hit to PF00263, Secretin, score 2e-95 862964002175 HMMPfam hit to PF03958, Secretin_N, score 1.5e-11 862964002176 HMMPfam hit to PF05137, PilN, score 0.0033 862964002177 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 862964002178 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 862964002179 Transglycosylase; Region: Transgly; pfam00912 862964002180 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 862964002181 HMMPfam hit to PF00912, Transgly, score 4.4e-85 862964002182 HMMPfam hit to PF00905, Transpeptidase, score 3.2e-07 862964002183 HMMPfam hit to PF00905, Transpeptidase, score 1e-05 862964002184 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 862964002185 HMMPfam hit to PF04378, DUF519, score 3e-173 862964002186 hypothetical protein; Validated; Region: PRK00153 862964002187 HMMPfam hit to PF02575, DUF149, score 1.3e-54 862964002188 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 862964002189 RecR protein; Region: RecR; pfam02132 862964002190 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 862964002191 putative active site [active] 862964002192 putative metal-binding site [ion binding]; other site 862964002193 tetramer interface [polypeptide binding]; other site 862964002194 HMMPfam hit to PF02132, RecR, score 1.1e-22 862964002195 HMMPfam hit to PF01751, Toprim, score 4.6e-23 862964002196 DNA topoisomerase III; Provisional; Region: PRK07726 862964002197 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 862964002198 active site 862964002199 putative interdomain interaction site [polypeptide binding]; other site 862964002200 putative metal-binding site [ion binding]; other site 862964002201 putative nucleotide binding site [chemical binding]; other site 862964002202 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 862964002203 domain I; other site 862964002204 DNA binding groove [nucleotide binding] 862964002205 phosphate binding site [ion binding]; other site 862964002206 domain II; other site 862964002207 domain III; other site 862964002208 nucleotide binding site [chemical binding]; other site 862964002209 catalytic site [active] 862964002210 domain IV; other site 862964002211 HMMPfam hit to PF01751, Toprim, score 4.4e-34 862964002212 HMMPfam hit to PF01131, Topoisom_bac, score 1.9e-197 862964002213 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 862964002214 HMMPfam hit to PF03840, SecG, score 1.1e-34 862964002215 integrase; Provisional; Region: PRK09692 862964002216 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 862964002217 active site 862964002218 Int/Topo IB signature motif; other site 862964002219 HMMPfam hit to PF00589, Phage_integrase, score 1.1e-17 862964002220 D5 N terminal like; Region: D5_N; pfam08706 862964002221 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 862964002222 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 862964002223 HMMPfam hit to PF03288, Pox_D5, score 2.3e-34 862964002224 HMMPfam hit to PF08706, D5_N, score 5.9e-19 862964002225 Ash protein family; Region: Phage_ASH; pfam10554 862964002226 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 862964002227 HMMPfam hit to PF05930, Phage_AlpA, score 8.9e-09 862964002228 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 862964002229 HMMPfam hit to PF03354, Terminase_1, score 8e-104 862964002230 Phage terminase, small subunit; Region: Terminase_4; cl01525 862964002231 HMMPfam hit to PF05119, Terminase_4, score 1.3e-40 862964002232 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 862964002233 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 862964002234 active site 862964002235 HMMPfam hit to PF01844, HNH, score 2.5e-08 862964002236 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 862964002237 oligomerization interface [polypeptide binding]; other site 862964002238 HMMPfam hit to PF05135, Phage_QLRG, score 1.1e-42 862964002239 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 862964002240 HMMPfam hit to PF06264, DUF1026, score 4.2e-44 862964002241 Phage-related protein [Function unknown]; Region: COG4695 862964002242 Phage portal protein; Region: Phage_portal; pfam04860 862964002243 HMMPfam hit to PF04860, Phage_portal, score 8.9e-146 862964002244 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 862964002245 HMMPfam hit to PF04586, Peptidase_U35, score 6.9e-77 862964002246 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 862964002247 Phage capsid family; Region: Phage_capsid; pfam05065 862964002248 HMMPfam hit to PF05065, Phage_capsid, score 1.8e-126 862964002249 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 862964002250 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 862964002251 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 862964002252 active site 862964002253 P-loop; other site 862964002254 phosphorylation site [posttranslational modification] 862964002255 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 862964002256 HMMPfam hit to PF02378, PTS_EIIC, score 8.2e-12 862964002257 HMMPfam hit to PF02379, PTS_IIB_fruc, score 8.1e-52 862964002258 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 862964002259 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 862964002260 putative substrate binding site [chemical binding]; other site 862964002261 putative ATP binding site [chemical binding]; other site 862964002262 HMMPfam hit to PF00294, PfkB, score 2.3e-82 862964002263 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 862964002264 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 862964002265 active site 862964002266 phosphorylation site [posttranslational modification] 862964002267 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 862964002268 dimerization domain swap beta strand [polypeptide binding]; other site 862964002269 regulatory protein interface [polypeptide binding]; other site 862964002270 active site 862964002271 regulatory phosphorylation site [posttranslational modification]; other site 862964002272 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 862964002273 dimerization domain swap beta strand [polypeptide binding]; other site 862964002274 regulatory protein interface [polypeptide binding]; other site 862964002275 active site 862964002276 regulatory phosphorylation site [posttranslational modification]; other site 862964002277 HMMPfam hit to PF00381, PTS-HPr, score 4e-35 862964002278 HMMPfam hit to PF00381, PTS-HPr, score 4.7e-51 862964002279 HMMPfam hit to PF00359, PTS_EIIA_2, score 3.3e-80 862964002280 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 862964002281 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 862964002282 Domain of unknown function DUF21; Region: DUF21; pfam01595 862964002283 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 862964002284 Transporter associated domain; Region: CorC_HlyC; smart01091 862964002285 HMMPfam hit to PF03471, CorC_HlyC, score 7.3e-23 862964002286 HMMPfam hit to PF00571, CBS, score 3.6e-16 862964002287 HMMPfam hit to PF01595, DUF21, score 3.5e-67 862964002288 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 862964002289 HMMPfam hit to PF07509, DUF1523, score 2.2e-136 862964002290 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 862964002291 active site 862964002292 HMMPfam hit to PF01026, TatD_DNase, score 2e-123 862964002293 DNA polymerase III subunit delta'; Validated; Region: PRK06871 862964002294 DNA polymerase III subunit delta'; Validated; Region: PRK08485 862964002295 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 862964002296 HMMPfam hit to PF09115, DNApol3-delta_C, score 8.7e-45 862964002297 thymidylate kinase; Validated; Region: tmk; PRK00698 862964002298 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 862964002299 TMP-binding site; other site 862964002300 ATP-binding site [chemical binding]; other site 862964002301 HMMPfam hit to PF02223, Thymidylate_kin, score 5.4e-89 862964002302 conserved hypothetical protein, YceG family; Region: TIGR00247 862964002303 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 862964002304 dimerization interface [polypeptide binding]; other site 862964002305 HMMPfam hit to PF02618, ADC_lyase, score 2e-159 862964002306 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 862964002307 SurA N-terminal domain; Region: SurA_N; pfam09312 862964002308 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 862964002309 HMMPfam hit to PF00639, Rotamase, score 4e-44 862964002310 HMMPfam hit to PF09312, SurA_N, score 9.7e-12 862964002311 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 862964002312 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964002313 active site 862964002314 HMMPfam hit to PF00156, Pribosyltran, score 7.7e-15 862964002315 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 862964002316 homodimer interface [polypeptide binding]; other site 862964002317 MazG family protein; Region: mazG; TIGR00444 862964002318 metal binding site [ion binding]; metal-binding site 862964002319 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 862964002320 homodimer interface [polypeptide binding]; other site 862964002321 active site 862964002322 putative chemical substrate binding site [chemical binding]; other site 862964002323 metal binding site [ion binding]; metal-binding site 862964002324 HMMPfam hit to PF03819, MazG, score 4.6e-41 862964002325 HMMPfam hit to PF03819, MazG, score 9.5e-05 862964002326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 862964002327 HMMPfam hit to PF04393, DUF535, score 1.3e-155 862964002328 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 862964002329 Found in ATP-dependent protease La (LON); Region: LON; smart00464 862964002330 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 862964002331 Walker A motif; other site 862964002332 ATP binding site [chemical binding]; other site 862964002333 Walker B motif; other site 862964002334 arginine finger; other site 862964002335 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 862964002336 HMMPfam hit to PF02190, LON, score 2.3e-34 862964002337 HMMPfam hit to PF00004, AAA, score 7.7e-45 862964002338 HMMPfam hit to PF05362, Lon_C, score 3.4e-149 862964002339 HemN family oxidoreductase; Provisional; Region: PRK05660 862964002340 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 862964002341 FeS/SAM binding site; other site 862964002342 HemN C-terminal domain; Region: HemN_C; pfam06969 862964002343 HMMPfam hit to PF04055, Radical_SAM, score 2.3e-28 862964002344 HMMPfam hit to PF06969, HemN_C, score 4.6e-21 862964002345 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 862964002346 tetramer (dimer of dimers) interface [polypeptide binding]; other site 862964002347 active site 862964002348 dimer interface [polypeptide binding]; other site 862964002349 HMMPfam hit to PF06026, Rib_5-P_isom_A, score 6.3e-98 862964002350 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 862964002351 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 862964002352 ligand binding site [chemical binding]; other site 862964002353 NAD binding site [chemical binding]; other site 862964002354 tetramer interface [polypeptide binding]; other site 862964002355 catalytic site [active] 862964002356 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 862964002357 L-serine binding site [chemical binding]; other site 862964002358 ACT domain interface; other site 862964002359 HMMPfam hit to PF00389, 2-Hacid_dh, score 9.8e-39 862964002360 HMMPfam hit to PF02826, 2-Hacid_dh_C, score 1.1e-73 862964002361 HMMPfam hit to PF01842, ACT, score 2.9e-07 862964002362 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 862964002363 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 862964002364 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 862964002365 HMMPfam hit to PF01571, GCV_T, score 5e-06 862964002366 hypothetical protein; Provisional; Region: PRK11820 862964002367 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 862964002368 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 862964002369 HMMPfam hit to PF08340, DUF1732, score 2.4e-56 862964002370 HMMPfam hit to PF03755, YicC_N, score 2e-81 862964002371 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 862964002372 ATP phosphoribosyltransferase; Region: HisG; pfam01634 862964002373 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 862964002374 HMMPfam hit to PF01634, HisG, score 6e-89 862964002375 HMMPfam hit to PF08029, HisG_C, score 9.8e-38 862964002376 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 862964002377 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 862964002378 NAD binding site [chemical binding]; other site 862964002379 dimerization interface [polypeptide binding]; other site 862964002380 product binding site; other site 862964002381 substrate binding site [chemical binding]; other site 862964002382 zinc binding site [ion binding]; other site 862964002383 catalytic residues [active] 862964002384 HMMPfam hit to PF00815, Histidinol_dh, score 1.5e-283 862964002385 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 862964002386 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 862964002387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964002388 homodimer interface [polypeptide binding]; other site 862964002389 catalytic residue [active] 862964002390 HMMPfam hit to PF00155, Aminotran_1_2, score 2.3e-66 862964002391 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 862964002392 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 862964002393 active site 862964002394 motif I; other site 862964002395 motif II; other site 862964002396 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 862964002397 putative active site pocket [active] 862964002398 4-fold oligomerization interface [polypeptide binding]; other site 862964002399 metal binding residues [ion binding]; metal-binding site 862964002400 3-fold/trimer interface [polypeptide binding]; other site 862964002401 HMMPfam hit to PF08645, PNK3P, score 4.4e-05 862964002402 HMMPfam hit to PF00475, IGPD, score 1.3e-108 862964002403 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 862964002404 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 862964002405 putative active site [active] 862964002406 oxyanion strand; other site 862964002407 catalytic triad [active] 862964002408 HMMPfam hit to PF00117, GATase, score 1.5e-44 862964002409 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 862964002410 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 862964002411 catalytic residues [active] 862964002412 HMMPfam hit to PF00977, His_biosynth, score 8.8e-107 862964002413 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 862964002414 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 862964002415 substrate binding site [chemical binding]; other site 862964002416 glutamase interaction surface [polypeptide binding]; other site 862964002417 HMMPfam hit to PF00977, His_biosynth, score 4e-114 862964002418 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 862964002419 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 862964002420 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 862964002421 metal binding site [ion binding]; metal-binding site 862964002422 HMMPfam hit to PF01502, PRA-CH, score 7.5e-50 862964002423 HMMPfam hit to PF01503, PRA-PH, score 7.1e-49 862964002424 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 862964002425 aromatic amino acid transport protein; Region: araaP; TIGR00837 862964002426 HMMPfam hit to PF03222, Trp_Tyr_perm, score 1.2e-215 862964002427 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 862964002428 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 862964002429 gamma subunit interface [polypeptide binding]; other site 862964002430 epsilon subunit interface [polypeptide binding]; other site 862964002431 LBP interface [polypeptide binding]; other site 862964002432 HMMPfam hit to PF02823, ATP-synt_DE_N, score 1.2e-31 862964002433 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 862964002434 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 862964002435 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 862964002436 alpha subunit interaction interface [polypeptide binding]; other site 862964002437 Walker A motif; other site 862964002438 ATP binding site [chemical binding]; other site 862964002439 Walker B motif; other site 862964002440 inhibitor binding site; inhibition site 862964002441 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 862964002442 HMMPfam hit to PF00306, ATP-synt_ab_C, score 1.1e-55 862964002443 HMMPfam hit to PF00006, ATP-synt_ab, score 1.2e-93 862964002444 HMMPfam hit to PF02874, ATP-synt_ab_N, score 5.4e-26 862964002445 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 862964002446 core domain interface [polypeptide binding]; other site 862964002447 delta subunit interface [polypeptide binding]; other site 862964002448 epsilon subunit interface [polypeptide binding]; other site 862964002449 HMMPfam hit to PF00231, ATP-synt, score 6.9e-177 862964002450 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 862964002451 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 862964002452 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 862964002453 beta subunit interaction interface [polypeptide binding]; other site 862964002454 Walker A motif; other site 862964002455 ATP binding site [chemical binding]; other site 862964002456 Walker B motif; other site 862964002457 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 862964002458 HMMPfam hit to PF00306, ATP-synt_ab_C, score 1e-32 862964002459 HMMPfam hit to PF00006, ATP-synt_ab, score 2.1e-120 862964002460 HMMPfam hit to PF02874, ATP-synt_ab_N, score 1.4e-18 862964002461 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 862964002462 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 862964002463 HMMPfam hit to PF00213, OSCP, score 7.7e-54 862964002464 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 862964002465 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 862964002466 HMMPfam hit to PF00430, ATP-synt_B, score 2e-29 862964002467 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 862964002468 HMMPfam hit to PF00137, ATP-synt_C, score 1.1e-24 862964002469 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 862964002470 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 862964002471 HMMPfam hit to PF00119, ATP-synt_A, score 1.5e-97 862964002472 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 862964002473 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 862964002474 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 862964002475 HMMPfam hit to PF02527, GidB, score 2.3e-97 862964002476 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 862964002477 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 862964002478 motif II; other site 862964002479 HMMPfam hit to PF00702, Hydrolase, score 7.9e-32 862964002480 Predicted membrane protein [Function unknown]; Region: COG1238 862964002481 S-ribosylhomocysteinase; Provisional; Region: PRK02260 862964002482 HMMPfam hit to PF02664, LuxS, score 1.2e-117 862964002483 acid phosphatase/phosphotransferase; Provisional; Region: aphA; PRK11009 862964002484 HMMPfam hit to PF03767, Acid_phosphat_B, score 6.4e-11 862964002485 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 862964002486 HslU subunit interaction site [polypeptide binding]; other site 862964002487 HMMPfam hit to PF00227, Proteasome, score 2.9e-35 862964002488 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 862964002489 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 862964002490 Walker A motif; other site 862964002491 ATP binding site [chemical binding]; other site 862964002492 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 862964002493 Walker B motif; other site 862964002494 arginine finger; other site 862964002495 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 862964002496 HMMPfam hit to PF07724, AAA_2, score 1.5e-13 862964002497 HMMPfam hit to PF07724, AAA_2, score 1.1e-52 862964002498 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 862964002499 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 862964002500 HMMPfam hit to PF01547, SBP_bac_1, score 1.1e-10 862964002501 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 862964002502 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 862964002503 HMMPfam hit to PF01266, DAO, score 3.3e-100 862964002504 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 862964002505 RmuC family; Region: RmuC; pfam02646 862964002506 HMMPfam hit to PF02646, RmuC, score 3.1e-142 862964002507 D-ribose pyranase; Provisional; Region: PRK11797 862964002508 HMMPfam hit to PF05025, RbsD_FucU, score 4.2e-87 862964002509 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 862964002510 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 862964002511 Walker A/P-loop; other site 862964002512 ATP binding site [chemical binding]; other site 862964002513 Q-loop/lid; other site 862964002514 ABC transporter signature motif; other site 862964002515 Walker B; other site 862964002516 D-loop; other site 862964002517 H-loop/switch region; other site 862964002518 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 862964002519 HMMPfam hit to PF00005, ABC_tran, score 5.3e-52 862964002520 HMMPfam hit to PF00005, ABC_tran, score 9.3e-30 862964002521 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 862964002522 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 862964002523 TM-ABC transporter signature motif; other site 862964002524 HMMPfam hit to PF02653, BPD_transp_2, score 4.1e-71 862964002525 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 862964002526 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 862964002527 ligand binding site [chemical binding]; other site 862964002528 dimerization interface [polypeptide binding]; other site 862964002529 HMMPfam hit to PF00532, Peripla_BP_1, score 3.1e-07 862964002530 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 862964002531 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 862964002532 substrate binding site [chemical binding]; other site 862964002533 dimer interface [polypeptide binding]; other site 862964002534 ATP binding site [chemical binding]; other site 862964002535 HMMPfam hit to PF00294, PfkB, score 4.2e-82 862964002536 transcriptional repressor RbsR; Provisional; Region: PRK10423 862964002537 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 862964002538 DNA binding site [nucleotide binding] 862964002539 domain linker motif; other site 862964002540 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 862964002541 dimerization interface [polypeptide binding]; other site 862964002542 ligand binding site [chemical binding]; other site 862964002543 HMMPfam hit to PF00356, LacI, score 2.5e-12 862964002544 HMMPfam hit to PF00532, Peripla_BP_1, score 2e-17 862964002545 hypothetical protein; Provisional; Region: PRK05208 862964002546 HMMPfam hit to PF03350, UPF0114, score 3.8e-60 862964002547 regulator of ribonuclease activity A; Region: RraA_entero; TIGR02998 862964002548 HMMPfam hit to PF03737, Methyltransf_6, score 1.2e-85 862964002549 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 862964002550 UbiA prenyltransferase family; Region: UbiA; pfam01040 862964002551 HMMPfam hit to PF01040, UbiA, score 1.9e-21 862964002552 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 862964002553 homodimer interaction site [polypeptide binding]; other site 862964002554 cofactor binding site; other site 862964002555 HMMPfam hit to PF01980, UPF0066, score 3.4e-79 862964002556 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 862964002557 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 862964002558 gating phenylalanine in ion channel; other site 862964002559 HMMPfam hit to PF03595, C4dic_mal_tran, score 1.1e-82 862964002560 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 862964002561 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 862964002562 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 862964002563 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 862964002564 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 862964002565 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 862964002566 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 862964002567 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 862964002568 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 862964002569 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 862964002570 DNA binding site [nucleotide binding] 862964002571 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 862964002572 HMMPfam hit to PF04998, RNA_pol_Rpb1_5, score 3e-102 862964002573 HMMPfam hit to PF05000, RNA_pol_Rpb1_4, score 3.9e-31 862964002574 HMMPfam hit to PF04983, RNA_pol_Rpb1_3, score 7.1e-53 862964002575 HMMPfam hit to PF00623, RNA_pol_Rpb1_2, score 3.7e-81 862964002576 HMMPfam hit to PF04997, RNA_pol_Rpb1_1, score 5.9e-168 862964002577 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 862964002578 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 862964002579 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 862964002580 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 862964002581 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 862964002582 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 862964002583 RPB1 interaction site [polypeptide binding]; other site 862964002584 RPB11 interaction site [polypeptide binding]; other site 862964002585 RPB10 interaction site [polypeptide binding]; other site 862964002586 RPB3 interaction site [polypeptide binding]; other site 862964002587 HMMPfam hit to PF04560, RNA_pol_Rpb2_7, score 1.9e-49 862964002588 HMMPfam hit to PF00562, RNA_pol_Rpb2_6, score 1.6e-185 862964002589 HMMPfam hit to PF04565, RNA_pol_Rpb2_3, score 2.8e-42 862964002590 HMMPfam hit to PF04563, RNA_pol_Rpb2_1, score 1.6e-36 862964002591 HMMPfam hit to PF04561, RNA_pol_Rpb2_2, score 4.2e-08 862964002592 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 862964002593 mRNA/rRNA interface [nucleotide binding]; other site 862964002594 HMMPfam hit to PF00687, Ribosomal_L1, score 1.6e-133 862964002595 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 862964002596 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 862964002597 23S rRNA interface [nucleotide binding]; other site 862964002598 L7/L12 interface [polypeptide binding]; other site 862964002599 putative thiostrepton binding site; other site 862964002600 L25 interface [polypeptide binding]; other site 862964002601 HMMPfam hit to PF00298, Ribosomal_L11, score 4.6e-35 862964002602 HMMPfam hit to PF03946, Ribosomal_L11_N, score 1.4e-38 862964002603 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 862964002604 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 862964002605 HMMPfam hit to PF01048, PNP_UDP_1, score 2e-109 862964002606 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 862964002607 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 862964002608 Nucleoside recognition; Region: Gate; pfam07670 862964002609 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 862964002610 HMMPfam hit to PF07662, Nucleos_tra2_C, score 2.2e-102 862964002611 HMMPfam hit to PF07670, Gate, score 5e-20 862964002612 HMMPfam hit to PF01773, Nucleos_tra2_N, score 7.4e-35 862964002613 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 862964002614 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 862964002615 FeS/SAM binding site; other site 862964002616 HMMPfam hit to PF04055, Radical_SAM, score 4e-08 862964002617 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 862964002618 Pyruvate formate lyase; Region: PFL; pfam02901 862964002619 Predicted membrane protein [Function unknown]; Region: COG2364 862964002620 HMMPfam hit to PF02588, DUF161, score 1.2e-13 862964002621 HMMPfam hit to PF02588, DUF161, score 1.2e-13 862964002622 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 862964002623 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 862964002624 putative active site [active] 862964002625 HMMPfam hit to PF01075, Glyco_transf_9, score 2.1e-06 862964002626 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 862964002627 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 862964002628 active site 862964002629 intersubunit interface [polypeptide binding]; other site 862964002630 zinc binding site [ion binding]; other site 862964002631 Na+ binding site [ion binding]; other site 862964002632 HMMPfam hit to PF01116, F_bP_aldolase, score 1.5e-217 862964002633 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 862964002634 Phosphoglycerate kinase; Region: PGK; pfam00162 862964002635 substrate binding site [chemical binding]; other site 862964002636 hinge regions; other site 862964002637 ADP binding site [chemical binding]; other site 862964002638 catalytic site [active] 862964002639 HMMPfam hit to PF00162, PGK, score 1.3e-121 862964002640 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 862964002641 B1 nucleotide binding pocket [chemical binding]; other site 862964002642 B2 nucleotide binding pocket [chemical binding]; other site 862964002643 CAS motifs; other site 862964002644 active site 862964002645 HMMPfam hit to PF00445, Ribonuclease_T2, score 3.1e-06 862964002646 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 862964002647 HMMPfam hit to PF00037, Fer4, score 2.5e-05 862964002648 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 862964002649 aromatic amino acid transport protein; Region: araaP; TIGR00837 862964002650 HMMPfam hit to PF03222, Trp_Tyr_perm, score 5.9e-213 862964002651 thymidine kinase; Provisional; Region: PRK04296 862964002652 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 862964002653 ATP binding site [chemical binding]; other site 862964002654 Walker A motif; other site 862964002655 Walker B motif; other site 862964002656 HMMPfam hit to PF00265, TK, score 7.8e-105 862964002657 UGMP family protein; Validated; Region: PRK09604 862964002658 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 862964002659 HMMPfam hit to PF00814, Peptidase_M22, score 2.2e-83 862964002660 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 862964002661 HMMPfam hit to PF01165, Ribosomal_S21, score 2e-31 862964002662 DNA primase; Validated; Region: dnaG; PRK05667 862964002663 CHC2 zinc finger; Region: zf-CHC2; pfam01807 862964002664 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 862964002665 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 862964002666 active site 862964002667 metal binding site [ion binding]; metal-binding site 862964002668 interdomain interaction site; other site 862964002669 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 862964002670 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 862964002671 HMMPfam hit to PF01807, zf-CHC2, score 3.3e-70 862964002672 HMMPfam hit to PF08275, Toprim_N, score 4.9e-65 862964002673 HMMPfam hit to PF01751, Toprim, score 2.1e-25 862964002674 HMMPfam hit to PF08278, DnaG_DnaB_bind, score 1.9e-57 862964002675 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 862964002676 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 862964002677 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 862964002678 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 862964002679 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 862964002680 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 862964002681 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 862964002682 DNA binding residues [nucleotide binding] 862964002683 HMMPfam hit to PF03979, Sigma70_r1_1, score 4.1e-33 862964002684 HMMPfam hit to PF00140, Sigma70_r1_2, score 2.6e-14 862964002685 HMMPfam hit to PF04546, Sigma70_ner, score 7.9e-108 862964002686 HMMPfam hit to PF04542, Sigma70_r2, score 2e-28 862964002687 HMMPfam hit to PF04539, Sigma70_r3, score 3.2e-43 862964002688 HMMPfam hit to PF04545, Sigma70_r4, score 2.9e-25 862964002689 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 862964002690 Aspartase; Region: Aspartase; cd01357 862964002691 active sites [active] 862964002692 tetramer interface [polypeptide binding]; other site 862964002693 HMMPfam hit to PF00206, Lyase_1, score 8.9e-164 862964002694 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 862964002695 HMMPfam hit to PF01774, UreD, score 2.3e-99 862964002696 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 862964002697 G1 box; other site 862964002698 GTP/Mg2+ binding site [chemical binding]; other site 862964002699 G2 box; other site 862964002700 Switch I region; other site 862964002701 G3 box; other site 862964002702 Switch II region; other site 862964002703 G4 box; other site 862964002704 G5 box; other site 862964002705 HMMPfam hit to PF02492, cobW, score 1.3e-72 862964002706 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 862964002707 UreF; Region: UreF; pfam01730 862964002708 HMMPfam hit to PF01730, UreF, score 4e-80 862964002709 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 862964002710 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 862964002711 dimer interface [polypeptide binding]; other site 862964002712 catalytic residues [active] 862964002713 HMMPfam hit to PF05194, UreE_C, score 1.6e-34 862964002714 HMMPfam hit to PF02814, UreE_N, score 1.3e-21 862964002715 urease subunit alpha; Reviewed; Region: ureC; PRK13207 862964002716 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 862964002717 subunit interactions [polypeptide binding]; other site 862964002718 active site 862964002719 flap region; other site 862964002720 HMMPfam hit to PF01979, Amidohydro_1, score 4.6e-107 862964002721 HMMPfam hit to PF00449, Urease_alpha, score 1.5e-94 862964002722 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 862964002723 gamma-beta subunit interface [polypeptide binding]; other site 862964002724 alpha-beta subunit interface [polypeptide binding]; other site 862964002725 HMMPfam hit to PF00699, Urease_beta, score 8.4e-68 862964002726 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 862964002727 alpha-gamma subunit interface [polypeptide binding]; other site 862964002728 beta-gamma subunit interface [polypeptide binding]; other site 862964002729 HMMPfam hit to PF00547, Urease_gamma, score 1.1e-65 862964002730 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 862964002731 oligomerisation interface [polypeptide binding]; other site 862964002732 mobile loop; other site 862964002733 roof hairpin; other site 862964002734 HMMPfam hit to PF00166, Cpn10, score 1.7e-41 862964002735 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 862964002736 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 862964002737 ring oligomerisation interface [polypeptide binding]; other site 862964002738 ATP/Mg binding site [chemical binding]; other site 862964002739 stacking interactions; other site 862964002740 hinge regions; other site 862964002741 HMMPfam hit to PF00118, Cpn60_TCP1, score 6.2e-199 862964002742 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 862964002743 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 862964002744 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 862964002745 HMMPfam hit to PF03948, Ribosomal_L9_C, score 8.2e-45 862964002746 HMMPfam hit to PF01281, Ribosomal_L9_N, score 3.3e-29 862964002747 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 862964002748 HMMPfam hit to PF01084, Ribosomal_S18, score 2e-31 862964002749 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 862964002750 dimer interface [polypeptide binding]; other site 862964002751 ssDNA binding site [nucleotide binding]; other site 862964002752 tetramer (dimer of dimers) interface [polypeptide binding]; other site 862964002753 HMMPfam hit to PF00436, SSB, score 1.1e-16 862964002754 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 862964002755 HMMPfam hit to PF01250, Ribosomal_S6, score 1.2e-49 862964002756 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 862964002757 rRNA binding site [nucleotide binding]; other site 862964002758 predicted 30S ribosome binding site; other site 862964002759 HMMPfam hit to PF01176, eIF-1a, score 1.1e-36 862964002760 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 862964002761 HMMPfam hit to PF01755, Glyco_transf_25, score 1.9e-91 862964002762 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 862964002763 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 862964002764 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 862964002765 HMMPfam hit to PF00534, Glycos_transf_1, score 3.1e-15 862964002766 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 862964002767 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 862964002768 HMMPfam hit to PF00398, RrnaAD, score 1.2e-115 862964002769 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 862964002770 HMMPfam hit to PF01755, Glyco_transf_25, score 2e-98 862964002771 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 862964002772 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 862964002773 active site 862964002774 metal binding site [ion binding]; metal-binding site 862964002775 HMMPfam hit to PF00149, Metallophos, score 4.1e-16 862964002776 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 862964002777 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 862964002778 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 862964002779 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 862964002780 HMMPfam hit to PF00393, 6PGD, score 2.3e-241 862964002781 HMMPfam hit to PF03446, NAD_binding_2, score 7.4e-99 862964002782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 862964002783 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 862964002784 HMMPfam hit to PF06993, DUF1304, score 3.8e-20 862964002785 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 862964002786 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 862964002787 putative active site [active] 862964002788 HMMPfam hit to PF01182, Glucosamine_iso, score 0.00018 862964002789 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 862964002790 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 862964002791 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 862964002792 HMMPfam hit to PF02781, G6PD_C, score 4.6e-199 862964002793 HMMPfam hit to PF00479, G6PD_N, score 2.6e-119 862964002794 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 862964002795 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 862964002796 active site 862964002797 HMMPfam hit to PF00459, Inositol_P, score 3.2e-52 862964002798 Predicted membrane protein [Function unknown]; Region: COG1297 862964002799 putative oligopeptide transporter, OPT family; Region: TIGR00733 862964002800 HMMPfam hit to PF03169, OPT, score 2.5e-142 862964002801 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 862964002802 RNA binding surface [nucleotide binding]; other site 862964002803 HMMPfam hit to PF01479, S4, score 1.5e-12 862964002804 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 862964002805 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 862964002806 dimerization interface [polypeptide binding]; other site 862964002807 putative DNA binding site [nucleotide binding]; other site 862964002808 putative Zn2+ binding site [ion binding]; other site 862964002809 AsnC family; Region: AsnC_trans_reg; pfam01037 862964002810 HMMPfam hit to PF01037, AsnC_trans_reg, score 2.9e-20 862964002811 HMMPfam hit to PF08279, HTH_11, score 0.0039 862964002812 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 862964002813 dimer interface [polypeptide binding]; other site 862964002814 active site 862964002815 HMMPfam hit to PF03590, AsnA, score 1.9e-193 862964002816 phosphoglycolate phosphatase; Provisional; Region: PRK13222 862964002817 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 862964002818 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 862964002819 motif II; other site 862964002820 HMMPfam hit to PF00702, Hydrolase, score 2.7e-42 862964002821 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 862964002822 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 862964002823 substrate binding site [chemical binding]; other site 862964002824 hexamer interface [polypeptide binding]; other site 862964002825 metal binding site [ion binding]; metal-binding site 862964002826 HMMPfam hit to PF00834, Ribul_P_3_epim, score 3.8e-144 862964002827 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 862964002828 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 862964002829 ATP binding site [chemical binding]; other site 862964002830 Mg2+ binding site [ion binding]; other site 862964002831 G-X-G motif; other site 862964002832 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 862964002833 anchoring element; other site 862964002834 dimer interface [polypeptide binding]; other site 862964002835 ATP binding site [chemical binding]; other site 862964002836 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 862964002837 active site 862964002838 putative metal-binding site [ion binding]; other site 862964002839 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 862964002840 HMMPfam hit to PF00986, DNA_gyraseB_C, score 2e-46 862964002841 HMMPfam hit to PF01751, Toprim, score 7e-05 862964002842 HMMPfam hit to PF00204, DNA_gyraseB, score 3.5e-91 862964002843 HMMPfam hit to PF02518, HATPase_c, score 2.8e-34 862964002844 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 862964002845 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 862964002846 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 862964002847 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 862964002848 RNA binding site [nucleotide binding]; other site 862964002849 HMMPfam hit to PF00575, S1, score 6.3e-28 862964002851 HMMPfam hit to PF03449, GreA_GreB_N, score 7.5e-41 862964002852 HMMPfam hit to PF01272, GreA_GreB, score 3.7e-45 862964002853 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 862964002854 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 862964002855 HMMPfam hit to PF00440, TetR_N, score 9.2e-15 862964002856 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 862964002857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 862964002858 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 862964002859 dimerization interface [polypeptide binding]; other site 862964002860 HMMPfam hit to PF03466, LysR_substrate, score 1e-50 862964002861 HMMPfam hit to PF00126, HTH_1, score 7.5e-20 862964002862 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 862964002863 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 862964002864 catalytic triad [active] 862964002865 dimer interface [polypeptide binding]; other site 862964002866 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 862964002867 GSH binding site [chemical binding]; other site 862964002868 catalytic residues [active] 862964002869 HMMPfam hit to PF08534, Redoxin, score 2.3e-44 862964002870 HMMPfam hit to PF00462, Glutaredoxin, score 2.5e-23 862964002871 hypothetical protein; Provisional; Region: PRK02119 862964002872 HMMPfam hit to PF04102, SlyX, score 6e-44 862964002873 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 862964002874 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 862964002875 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 862964002876 HMMPfam hit to PF01346, FKBP_N, score 3.4e-12 862964002877 HMMPfam hit to PF00254, FKBP_C, score 4e-48 862964002878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 862964002879 YheO-like PAS domain; Region: PAS_6; pfam08348 862964002880 HTH domain; Region: HTH_22; pfam13309 862964002881 HMMPfam hit to PF08348, PAS_6, score 1e-64 862964002882 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 862964002883 HMMPfam hit to PF02635, DrsE, score 9.6e-57 862964002884 sulfur relay protein TusC; Validated; Region: PRK00211 862964002885 HMMPfam hit to PF02635, DrsE, score 2.1e-49 862964002886 Uncharacterized conserved protein involved in oxidation of intracellular sulfur [Inorganic ion transport and metabolism]; Region: DsrH; COG2168 862964002887 elongation factor Tu; Reviewed; Region: PRK00049 862964002888 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 862964002889 G1 box; other site 862964002890 GEF interaction site [polypeptide binding]; other site 862964002891 GTP/Mg2+ binding site [chemical binding]; other site 862964002892 Switch I region; other site 862964002893 G2 box; other site 862964002894 G3 box; other site 862964002895 Switch II region; other site 862964002896 G4 box; other site 862964002897 G5 box; other site 862964002898 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 862964002899 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 862964002900 Antibiotic Binding Site [chemical binding]; other site 862964002901 HMMPfam hit to PF03143, GTP_EFTU_D3, score 1.2e-61 862964002902 HMMPfam hit to PF03144, GTP_EFTU_D2, score 1.7e-25 862964002903 HMMPfam hit to PF00009, GTP_EFTU, score 9.4e-99 862964002904 elongation factor G; Reviewed; Region: PRK00007 862964002905 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 862964002906 G1 box; other site 862964002907 putative GEF interaction site [polypeptide binding]; other site 862964002908 GTP/Mg2+ binding site [chemical binding]; other site 862964002909 Switch I region; other site 862964002910 G2 box; other site 862964002911 G3 box; other site 862964002912 Switch II region; other site 862964002913 G4 box; other site 862964002914 G5 box; other site 862964002915 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 862964002916 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 862964002917 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 862964002918 HMMPfam hit to PF00679, EFG_C, score 8.4e-45 862964002919 HMMPfam hit to PF03764, EFG_IV, score 8.3e-70 862964002920 HMMPfam hit to PF03144, GTP_EFTU_D2, score 1.2e-20 862964002921 HMMPfam hit to PF00009, GTP_EFTU, score 1.2e-110 862964002922 30S ribosomal protein S7; Validated; Region: PRK05302 862964002923 HMMPfam hit to PF00177, Ribosomal_S7, score 9.6e-91 862964002924 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 862964002925 S17 interaction site [polypeptide binding]; other site 862964002926 S8 interaction site; other site 862964002927 16S rRNA interaction site [nucleotide binding]; other site 862964002928 streptomycin interaction site [chemical binding]; other site 862964002929 23S rRNA interaction site [nucleotide binding]; other site 862964002930 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 862964002931 HMMPfam hit to PF00164, Ribosomal_S12, score 9.2e-75 862964002932 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 862964002933 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 862964002934 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 862964002935 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 862964002936 HMMPfam hit to PF01134, GIDA, score 6.4e-273 862964002937 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 862964002938 HMMPfam hit to PF01545, Cation_efflux, score 1.3e-33 862964002939 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 862964002940 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 862964002941 DNA binding residues [nucleotide binding] 862964002942 dimer interface [polypeptide binding]; other site 862964002943 putative metal binding site [ion binding]; other site 862964002944 HMMPfam hit to PF00376, MerR, score 1.8e-09 862964002945 HMMPfam hit to PF09278, MerR-DNA-bind, score 1.8e-13 862964002946 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 862964002947 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 862964002948 active site 862964002949 metal binding site [ion binding]; metal-binding site 862964002950 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 862964002951 HMMPfam hit to PF02872, 5_nucleotid_C, score 9.9e-73 862964002952 HMMPfam hit to PF00149, Metallophos, score 9e-22 862964002953 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 862964002954 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 862964002955 putative metal binding site [ion binding]; other site 862964002956 dimer interface [polypeptide binding]; other site 862964002957 HMMPfam hit to PF01546, Peptidase_M20, score 6.9e-36 862964002958 HMMPfam hit to PF07687, M20_dimer, score 1.3e-08 862964002959 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 862964002960 HMMPfam hit to PF03606, DcuC, score 4.1e-07 862964002961 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 862964002962 active site pocket [active] 862964002963 oxyanion hole [active] 862964002964 catalytic triad [active] 862964002965 active site nucleophile [active] 862964002966 HMMPfam hit to PF03575, Peptidase_S51, score 2.1e-85 862964002967 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 862964002968 HMMPfam hit to PF04246, RseC_MucC, score 0.0021 862964002969 putrescine transporter; Provisional; Region: potE; PRK10655 862964002970 HMMPfam hit to PF00324, AA_permease, score 9.5e-10 862964002971 ornithine decarboxylase; Provisional; Region: PRK13578 862964002972 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 862964002973 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 862964002974 homodimer interface [polypeptide binding]; other site 862964002975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964002976 catalytic residue [active] 862964002977 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 862964002978 HMMPfam hit to PF03711, OKR_DC_1_C, score 7.5e-90 862964002979 HMMPfam hit to PF01276, OKR_DC_1, score 0 862964002980 HMMPfam hit to PF03709, OKR_DC_1_N, score 8.5e-38 862964002981 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 862964002982 HMMPfam hit to PF00185, OTCace, score 2e-12 862964002984 Predicted membrane protein [Function unknown]; Region: COG1288 862964002985 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 862964002986 HMMPfam hit to PF03606, DcuC, score 5.4e-261 862964002987 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 862964002988 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 862964002989 putative substrate binding site [chemical binding]; other site 862964002990 nucleotide binding site [chemical binding]; other site 862964002991 nucleotide binding site [chemical binding]; other site 862964002992 homodimer interface [polypeptide binding]; other site 862964002993 HMMPfam hit to PF00696, AA_kinase, score 6.1e-98 862964002994 ornithine carbamoyltransferase; Provisional; Region: PRK01713 862964002995 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 862964002996 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 862964002997 HMMPfam hit to PF00185, OTCace, score 9.7e-92 862964002998 HMMPfam hit to PF02729, OTCace_N, score 2.8e-85 862964002999 putative hydrolase; Provisional; Region: PRK10976 862964003000 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 862964003001 active site 862964003002 motif I; other site 862964003003 motif II; other site 862964003004 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 862964003005 HMMPfam hit to PF08282, Hydrolase_3, score 6e-77 862964003006 chromosome condensation membrane protein; Provisional; Region: PRK14196 862964003007 HMMPfam hit to PF02537, CRCB, score 3.4e-54 862964003008 recombination regulator RecX; Reviewed; Region: recX; PRK00117 862964003009 HMMPfam hit to PF02631, RecX, score 7.9e-71 862964003010 recombinase A; Provisional; Region: recA; PRK09354 862964003011 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 862964003012 hexamer interface [polypeptide binding]; other site 862964003013 Walker A motif; other site 862964003014 ATP binding site [chemical binding]; other site 862964003015 Walker B motif; other site 862964003016 HMMPfam hit to PF00154, RecA, score 1.4e-250 862964003017 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 862964003018 TfoX C-terminal domain; Region: TfoX_C; pfam04994 862964003019 HMMPfam hit to PF04993, TfoX_N, score 3.4e-16 862964003020 HMMPfam hit to PF04994, TfoX_C, score 5.8e-48 862964003021 Predicted membrane protein [Function unknown]; Region: COG3223 862964003022 HMMPfam hit to PF06146, PsiE, score 4e-28 862964003023 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 862964003024 HemY protein N-terminus; Region: HemY_N; pfam07219 862964003025 HMMPfam hit to PF07219, HemY_N, score 1e-61 862964003026 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 862964003027 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 862964003028 HMMPfam hit to PF04375, HemX, score 3.4e-121 862964003029 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 862964003030 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 862964003031 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 862964003032 HMMPfam hit to PF01295, Adenylate_cycl, score 0 862964003033 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 862964003034 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 862964003035 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 862964003036 HMMPfam hit to PF01210, NAD_Gly3P_dh_N, score 9.9e-81 862964003037 HMMPfam hit to PF07479, NAD_Gly3P_dh_C, score 1.2e-78 862964003038 serine acetyltransferase; Provisional; Region: cysE; PRK11132 862964003039 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 862964003040 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 862964003041 trimer interface [polypeptide binding]; other site 862964003042 active site 862964003043 substrate binding site [chemical binding]; other site 862964003044 CoA binding site [chemical binding]; other site 862964003045 HMMPfam hit to PF06426, SATase_N, score 2.2e-67 862964003046 HMMPfam hit to PF00132, Hexapep, score 54 862964003047 HMMPfam hit to PF00132, Hexapep, score 0.46 862964003048 HMMPfam hit to PF00132, Hexapep, score 18 862964003049 HMMPfam hit to PF00132, Hexapep, score 5.2 862964003050 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 862964003051 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 862964003052 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 862964003053 shikimate binding site; other site 862964003054 NAD(P) binding site [chemical binding]; other site 862964003055 HMMPfam hit to PF08501, Shikimate_dh_N, score 7.4e-23 862964003056 HMMPfam hit to PF01488, Shikimate_DH, score 1.9e-26 862964003057 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 862964003058 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 862964003059 transmembrane helices; other site 862964003060 HMMPfam hit to PF00939, Na_sulph_symp, score 1.7e-22 862964003061 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 862964003062 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 862964003063 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 862964003064 homodimer interface [polypeptide binding]; other site 862964003065 NADP binding site [chemical binding]; other site 862964003066 substrate binding site [chemical binding]; other site 862964003067 HMMPfam hit to PF02882, THF_DHG_CYH_C, score 8.4e-110 862964003068 HMMPfam hit to PF00763, THF_DHG_CYH, score 6.5e-71 862964003069 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 862964003070 L-fucose:H+ symporter permease; Region: fucP; TIGR00885 862964003071 HMMPfam hit to PF07690, MFS_1, score 6.7e-10 862964003072 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 862964003073 intersubunit interface [polypeptide binding]; other site 862964003074 active site 862964003075 Zn2+ binding site [ion binding]; other site 862964003076 HMMPfam hit to PF00596, Aldolase_II, score 2.4e-77 862964003077 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 862964003078 HMMPfam hit to PF05025, RbsD_FucU, score 3.6e-67 862964003079 L-fuculokinase; Region: fuculo_kin_coli; TIGR02628 862964003080 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 862964003081 nucleotide binding site [chemical binding]; other site 862964003082 HMMPfam hit to PF02782, FGGY_C, score 1.3e-16 862964003083 HMMPfam hit to PF00370, FGGY_N, score 7.8e-134 862964003084 L-fucose isomerase; Provisional; Region: fucI; PRK10991 862964003085 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 862964003086 hexamer (dimer of trimers) interface [polypeptide binding]; other site 862964003087 trimer interface [polypeptide binding]; other site 862964003088 substrate binding site [chemical binding]; other site 862964003089 Mn binding site [ion binding]; other site 862964003090 HMMPfam hit to PF02952, Fucose_iso_C, score 3.8e-122 862964003091 HMMPfam hit to PF07882, Fucose_iso_N2, score 2.7e-142 862964003092 HMMPfam hit to PF07881, Fucose_iso_N1, score 1.2e-130 862964003093 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 862964003094 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 862964003095 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 862964003096 HMMPfam hit to PF00455, DeoR, score 2.2e-77 862964003097 HMMPfam hit to PF08220, HTH_DeoR, score 8.4e-32 862964003098 ATP-dependent helicase HepA; Validated; Region: PRK04914 862964003099 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 862964003100 ATP binding site [chemical binding]; other site 862964003101 putative Mg++ binding site [ion binding]; other site 862964003102 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 862964003103 nucleotide binding region [chemical binding]; other site 862964003104 ATP-binding site [chemical binding]; other site 862964003105 HMMPfam hit to PF00176, SNF2_N, score 1.8e-37 862964003106 HMMPfam hit to PF00271, Helicase_C, score 1.1e-15 862964003107 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 862964003108 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 862964003109 active site 862964003110 HMMPfam hit to PF00849, PseudoU_synth_2, score 1.3e-58 862964003111 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 862964003112 HMMPfam hit to PF01694, Rhomboid, score 1.1e-39 862964003113 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 862964003114 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 862964003115 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 862964003116 HMMPfam hit to PF08220, HTH_DeoR, score 3.5e-31 862964003117 HMMPfam hit to PF00455, DeoR, score 2.4e-75 862964003118 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 862964003119 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 862964003120 HMMPfam hit to PF03180, Lipoprotein_9, score 6.5e-133 862964003121 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 862964003122 dimer interface [polypeptide binding]; other site 862964003123 conserved gate region; other site 862964003124 ABC-ATPase subunit interface; other site 862964003125 HMMPfam hit to PF00528, BPD_transp_1, score 9e-25 862964003126 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 862964003127 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 862964003128 Walker A/P-loop; other site 862964003129 ATP binding site [chemical binding]; other site 862964003130 Q-loop/lid; other site 862964003131 ABC transporter signature motif; other site 862964003132 Walker B; other site 862964003133 D-loop; other site 862964003134 H-loop/switch region; other site 862964003135 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 862964003136 HMMPfam hit to PF00005, ABC_tran, score 2.3e-73 862964003137 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 862964003138 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 862964003139 active site 862964003140 motif I; other site 862964003141 motif II; other site 862964003142 HMMPfam hit to PF00702, Hydrolase, score 3.2e-06 862964003143 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 862964003144 active site 862964003145 catalytic residues [active] 862964003146 metal binding site [ion binding]; metal-binding site 862964003147 HMMPfam hit to PF01327, Pep_deformylase, score 5.9e-91 862964003148 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 862964003149 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 862964003150 putative active site [active] 862964003151 substrate binding site [chemical binding]; other site 862964003152 putative cosubstrate binding site; other site 862964003153 catalytic site [active] 862964003154 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 862964003155 substrate binding site [chemical binding]; other site 862964003156 HMMPfam hit to PF00551, Formyl_trans_N, score 2.5e-86 862964003157 HMMPfam hit to PF02911, Formyl_trans_C, score 2.3e-43 862964003158 16S rRNA methyltransferase B; Provisional; Region: PRK10901 862964003159 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 862964003160 putative RNA binding site [nucleotide binding]; other site 862964003161 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 862964003162 S-adenosylmethionine binding site [chemical binding]; other site 862964003163 HMMPfam hit to PF01029, NusB, score 3e-45 862964003164 HMMPfam hit to PF01189, Nol1_Nop2_Fmu, score 4.7e-147 862964003165 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 862964003166 TrkA-N domain; Region: TrkA_N; pfam02254 862964003167 TrkA-C domain; Region: TrkA_C; pfam02080 862964003168 TrkA-N domain; Region: TrkA_N; pfam02254 862964003169 TrkA-C domain; Region: TrkA_C; pfam02080 862964003170 HMMPfam hit to PF02254, TrkA_N, score 5.6e-31 862964003171 HMMPfam hit to PF02080, TrkA_C, score 3e-11 862964003172 HMMPfam hit to PF02254, TrkA_N, score 4.4e-31 862964003173 HMMPfam hit to PF02080, TrkA_C, score 1.3e-13 862964003174 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 862964003175 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 862964003176 HMMPfam hit to PF01741, MscL, score 4.6e-83 862964003177 Uncharacterized conserved protein [Function unknown]; Region: COG2938 862964003178 HMMPfam hit to PF03937, DUF339, score 2.7e-35 862964003179 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 862964003180 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 862964003181 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 862964003182 DNA binding residues [nucleotide binding] 862964003183 HMMPfam hit to PF04542, Sigma70_r2, score 2e-20 862964003184 HMMPfam hit to PF08281, Sigma70_r4_2, score 1.2e-19 862964003185 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 862964003186 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 862964003187 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 862964003188 HMMPfam hit to PF03872, RseA_N, score 2.5e-50 862964003189 HMMPfam hit to PF03873, RseA_C, score 2.1e-25 862964003190 anti-sigma E factor; Provisional; Region: rseB; PRK09455 862964003191 MucB/RseB family; Region: MucB_RseB; pfam03888 862964003192 HMMPfam hit to PF03888, MucB_RseB, score 2.4e-214 862964003193 pantothenate kinase; Provisional; Region: PRK05439 862964003194 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 862964003195 ATP-binding site [chemical binding]; other site 862964003196 CoA-binding site [chemical binding]; other site 862964003197 Mg2+-binding site [ion binding]; other site 862964003198 HMMPfam hit to PF00485, PRK, score 5.6e-06 862964003199 elongation factor Tu; Reviewed; Region: PRK00049 862964003200 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 862964003201 G1 box; other site 862964003202 GEF interaction site [polypeptide binding]; other site 862964003203 GTP/Mg2+ binding site [chemical binding]; other site 862964003204 Switch I region; other site 862964003205 G2 box; other site 862964003206 G3 box; other site 862964003207 Switch II region; other site 862964003208 G4 box; other site 862964003209 G5 box; other site 862964003210 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 862964003211 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 862964003212 Antibiotic Binding Site [chemical binding]; other site 862964003213 HMMPfam hit to PF00009, GTP_EFTU, score 9.4e-99 862964003214 HMMPfam hit to PF03144, GTP_EFTU_D2, score 1.7e-25 862964003215 HMMPfam hit to PF03143, GTP_EFTU_D3, score 1.2e-61 862964003217 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 862964003218 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 862964003219 FMN binding site [chemical binding]; other site 862964003220 active site 862964003221 catalytic residues [active] 862964003222 substrate binding site [chemical binding]; other site 862964003223 HMMPfam hit to PF01207, Dus, score 8.9e-117 862964003224 conserved hypothetical protein; Region: TIGR00743 862964003225 HMMPfam hit to PF04175, DUF406, score 2.5e-57 862964003226 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 862964003227 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 862964003228 active site 862964003229 HIGH motif; other site 862964003230 dimer interface [polypeptide binding]; other site 862964003231 KMSKS motif; other site 862964003232 HMMPfam hit to PF00579, tRNA-synt_1b, score 1.8e-124 862964003233 Uncharacterized protein involved in purine metabolism [General function prediction only]; Region: COG2915 862964003234 HMMPfam hit to PF04356, DUF489, score 5e-142 862964003235 adenylosuccinate lyase; Provisional; Region: PRK09285 862964003236 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 862964003237 tetramer interface [polypeptide binding]; other site 862964003238 active site 862964003239 HMMPfam hit to PF00206, Lyase_1, score 3.3e-83 862964003240 HMMPfam hit to PF08328, ASL_C, score 7.7e-88 862964003241 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 862964003242 23S rRNA interface [nucleotide binding]; other site 862964003243 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 862964003244 HMMPfam hit to PF00466, Ribosomal_L10, score 9.9e-38 862964003245 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 862964003246 core dimer interface [polypeptide binding]; other site 862964003247 peripheral dimer interface [polypeptide binding]; other site 862964003248 L10 interface [polypeptide binding]; other site 862964003249 L11 interface [polypeptide binding]; other site 862964003250 putative EF-Tu interaction site [polypeptide binding]; other site 862964003251 putative EF-G interaction site [polypeptide binding]; other site 862964003252 HMMPfam hit to PF00542, Ribosomal_L12, score 1.1e-37 862964003253 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 862964003254 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 862964003255 Substrate binding site; other site 862964003256 Mg++ binding site; other site 862964003257 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 862964003258 active site 862964003259 substrate binding site [chemical binding]; other site 862964003260 CoA binding site [chemical binding]; other site 862964003261 HMMPfam hit to PF00483, NTP_transferase, score 1.2e-09 862964003262 HMMPfam hit to PF00132, Hexapep, score 0.023 862964003263 HMMPfam hit to PF00132, Hexapep, score 0.44 862964003264 HMMPfam hit to PF00132, Hexapep, score 22 862964003265 HMMPfam hit to PF00132, Hexapep, score 3 862964003266 HMMPfam hit to PF00132, Hexapep, score 16 862964003267 HMMPfam hit to PF00132, Hexapep, score 1.5 862964003268 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 862964003269 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 862964003270 HMMPfam hit to PF00561, Abhydrolase_1, score 6.5e-50 862964003271 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 862964003272 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 862964003273 HMMPfam hit to PF02774, Semialdhyde_dhC, score 9.4e-85 862964003274 HMMPfam hit to PF01118, Semialdhyde_dh, score 2.4e-32 862964003275 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 862964003276 MgtC family; Region: MgtC; pfam02308 862964003277 HMMPfam hit to PF02308, MgtC, score 1.9e-79 862964003278 HMMPfam hit to PF04055, Radical_SAM, score 6.7e-05 862964003279 potential frameshift: common BLAST hit: gi|319775410|ref|YP_004137898.1| 2-methylthioadenine synthetase 862964003280 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 862964003281 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 862964003282 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 862964003283 HMMPfam hit to PF02525, Flavodoxin_2, score 9.2e-85 862964003284 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 862964003285 Part of AAA domain; Region: AAA_19; pfam13245 862964003286 Family description; Region: UvrD_C_2; pfam13538 862964003287 HMMPfam hit to PF00580, UvrD-helicase, score 4.6e-223 862964003288 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 862964003289 HMMPfam hit to PF07119, DUF1375, score 8.5e-35 862964003290 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 862964003291 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 862964003292 active site 862964003293 (T/H)XGH motif; other site 862964003294 HMMPfam hit to PF01467, CTP_transf_2, score 9e-42 862964003295 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 862964003296 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 862964003297 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 862964003298 HMMPfam hit to PF00534, Glycos_transf_1, score 2.8e-20 862964003299 HMMPfam hit to PF04413, Glycos_transf_N, score 8.6e-112 862964003300 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 862964003301 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 862964003302 putative metal binding site; other site 862964003303 HMMPfam hit to PF00535, Glycos_transf_2, score 2.3e-25 862964003304 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 862964003305 HMMPfam hit to PF03352, Adenine_glyco, score 7.5e-135 862964003306 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 862964003307 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 862964003308 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 862964003309 shikimate binding site; other site 862964003310 NAD(P) binding site [chemical binding]; other site 862964003311 HMMPfam hit to PF01488, Shikimate_DH, score 1.3e-35 862964003312 HMMPfam hit to PF08501, Shikimate_dh_N, score 4.4e-30 862964003313 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 862964003314 HMMPfam hit to PF01300, Sua5_yciO_yrdC, score 3.7e-66 862964003315 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 862964003316 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 862964003317 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 862964003318 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 862964003319 HMMPfam hit to PF01396, zf-C4_Topoisom, score 2.9e-17 862964003320 HMMPfam hit to PF01396, zf-C4_Topoisom, score 1.1e-19 862964003321 HMMPfam hit to PF01396, zf-C4_Topoisom, score 2.3e-15 862964003322 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 862964003323 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964003324 Walker A/P-loop; other site 862964003325 ATP binding site [chemical binding]; other site 862964003326 Q-loop/lid; other site 862964003327 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 862964003328 ABC transporter; Region: ABC_tran_2; pfam12848 862964003329 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 862964003330 HMMPfam hit to PF00005, ABC_tran, score 1.2e-42 862964003331 HMMPfam hit to PF00005, ABC_tran, score 2.1e-48 862964003332 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 862964003333 non-specific DNA binding site [nucleotide binding]; other site 862964003334 salt bridge; other site 862964003335 sequence-specific DNA binding site [nucleotide binding]; other site 862964003336 HMMPfam hit to PF01381, HTH_3, score 5.1e-14 862964003337 Phage-related protein [Function unknown]; Region: COG4679 862964003338 HMMPfam hit to PF05973, Gp49, score 4.1e-19 862964003339 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 862964003340 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 862964003341 ligand-binding site [chemical binding]; other site 862964003342 HMMPfam hit to PF00593, TonB_dep_Rec, score 2.6e-29 862964003343 HMMPfam hit to PF07715, Plug, score 1.4e-19 862964003344 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 862964003345 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 862964003346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964003347 Walker A/P-loop; other site 862964003348 ATP binding site [chemical binding]; other site 862964003349 Q-loop/lid; other site 862964003350 ABC transporter signature motif; other site 862964003351 Walker B; other site 862964003352 D-loop; other site 862964003353 H-loop/switch region; other site 862964003354 HMMPfam hit to PF00664, ABC_membrane, score 8.7e-14 862964003355 HMMPfam hit to PF00005, ABC_tran, score 8.8e-53 862964003356 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 862964003357 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 862964003358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964003359 Walker A/P-loop; other site 862964003360 ATP binding site [chemical binding]; other site 862964003361 Q-loop/lid; other site 862964003362 ABC transporter signature motif; other site 862964003363 Walker B; other site 862964003364 D-loop; other site 862964003365 H-loop/switch region; other site 862964003366 HMMPfam hit to PF00664, ABC_membrane, score 3.3e-07 862964003367 HMMPfam hit to PF00005, ABC_tran, score 7.4e-60 862964003368 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 862964003369 HipA-like N-terminal domain; Region: HipA_N; pfam07805 862964003370 HipA-like C-terminal domain; Region: HipA_C; pfam07804 862964003371 HMMPfam hit to PF07804, HipA_C, score 1e-35 862964003372 HMMPfam hit to PF07805, HipA_N, score 8.5e-35 862964003373 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 862964003374 HipA N-terminal domain; Region: Couple_hipA; pfam13657 862964003375 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 862964003376 non-specific DNA binding site [nucleotide binding]; other site 862964003377 salt bridge; other site 862964003378 sequence-specific DNA binding site [nucleotide binding]; other site 862964003379 HMMPfam hit to PF01381, HTH_3, score 3.2e-07 862964003380 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 862964003381 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 862964003382 putative active site [active] 862964003383 HMMPfam hit to PF03320, FBPase_glpX, score 9.7e-246 862964003384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 862964003385 HMMPfam hit to PF06005, DUF904, score 1.3e-35 862964003386 FMN-binding protein MioC; Provisional; Region: PRK09004 862964003387 HMMPfam hit to PF00258, Flavodoxin_1, score 1.5e-38 862964003388 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 862964003389 putative active site [active] 862964003390 dimerization interface [polypeptide binding]; other site 862964003391 putative tRNAtyr binding site [nucleotide binding]; other site 862964003392 HMMPfam hit to PF02580, Tyr_Deacylase, score 4.6e-90 862964003393 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 862964003394 homotrimer interaction site [polypeptide binding]; other site 862964003395 zinc binding site [ion binding]; other site 862964003396 CDP-binding sites; other site 862964003397 HMMPfam hit to PF02542, YgbB, score 1.5e-103 862964003398 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 862964003399 substrate binding site; other site 862964003400 dimer interface; other site 862964003401 HMMPfam hit to PF01128, IspD, score 6.2e-147 862964003402 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 862964003403 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 862964003404 HMMPfam hit to PF04977, DivIC, score 1.1e-28 862964003405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964003406 active site 862964003407 HMMPfam hit to PF00156, Pribosyltran, score 8.8e-15 862964003408 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 862964003409 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 862964003410 metal binding site [ion binding]; metal-binding site 862964003411 dimer interface [polypeptide binding]; other site 862964003412 HMMPfam hit to PF01546, Peptidase_M20, score 4.2e-12 862964003413 HMMPfam hit to PF07687, M20_dimer, score 7.2e-15 862964003414 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 862964003415 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 862964003416 active site 862964003417 Int/Topo IB signature motif; other site 862964003418 HMMPfam hit to PF00589, Phage_integrase, score 4e-61 862964003419 HMMPfam hit to PF02899, Phage_integr_N, score 1.5e-34 862964003420 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 862964003421 triosephosphate isomerase; Provisional; Region: PRK14567 862964003422 substrate binding site [chemical binding]; other site 862964003423 dimer interface [polypeptide binding]; other site 862964003424 catalytic triad [active] 862964003425 HMMPfam hit to PF00121, TIM, score 7.3e-126 862964003426 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 862964003427 active site residue [active] 862964003428 HMMPfam hit to PF00581, Rhodanese, score 1.9e-19 862964003429 rarD protein; Region: rarD; TIGR00688 862964003430 HMMPfam hit to PF00892, DUF6, score 1.7e-06 862964003431 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 862964003432 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 862964003433 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 862964003434 putative dimerization interface [polypeptide binding]; other site 862964003435 HMMPfam hit to PF03466, LysR_substrate, score 2.5e-32 862964003436 HMMPfam hit to PF00126, HTH_1, score 3.9e-11 862964003437 ketol-acid reductoisomerase; Validated; Region: PRK05225 862964003438 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 862964003439 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 862964003440 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 862964003441 HMMPfam hit to PF07991, IlvN, score 2.5e-81 862964003442 HMMPfam hit to PF01450, IlvC, score 3.1e-152 862964003443 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 862964003444 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 862964003445 Cysteine-rich domain; Region: CCG; pfam02754 862964003446 Cysteine-rich domain; Region: CCG; pfam02754 862964003447 HMMPfam hit to PF02754, CCG, score 1.3e-17 862964003448 HMMPfam hit to PF02754, CCG, score 2e-10 862964003449 HMMPfam hit to PF00037, Fer4, score 0.0027 862964003450 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 862964003451 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 862964003452 HMMPfam hit to PF00890, FAD_binding_2, score 3.5e-101 862964003453 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 862964003454 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 862964003455 HMMPfam hit to PF04324, Fer2_BFD, score 1.2e-14 862964003456 HMMPfam hit to PF01266, DAO, score 8.3e-73 862964003457 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 862964003458 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 862964003459 putative substrate translocation pore; other site 862964003460 HMMPfam hit to PF07690, MFS_1, score 4.2e-45 862964003461 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 862964003462 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 862964003463 active site 862964003464 catalytic site [active] 862964003465 metal binding site [ion binding]; metal-binding site 862964003466 HMMPfam hit to PF03009, GDPD, score 3.8e-110 862964003467 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 862964003468 amphipathic channel; other site 862964003469 Asn-Pro-Ala signature motifs; other site 862964003470 HMMPfam hit to PF00230, MIP, score 3.3e-93 862964003471 glycerol kinase; Provisional; Region: glpK; PRK00047 862964003472 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 862964003473 N- and C-terminal domain interface [polypeptide binding]; other site 862964003474 active site 862964003475 MgATP binding site [chemical binding]; other site 862964003476 catalytic site [active] 862964003477 metal binding site [ion binding]; metal-binding site 862964003478 glycerol binding site [chemical binding]; other site 862964003479 homotetramer interface [polypeptide binding]; other site 862964003480 homodimer interface [polypeptide binding]; other site 862964003481 FBP binding site [chemical binding]; other site 862964003482 protein IIAGlc interface [polypeptide binding]; other site 862964003483 HMMPfam hit to PF00370, FGGY_N, score 6e-126 862964003484 HMMPfam hit to PF02782, FGGY_C, score 2.8e-93 862964003485 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964003486 active site 862964003487 HMMPfam hit to PF00156, Pribosyltran, score 8.8e-15 862964003488 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 862964003489 HMMPfam hit to PF03009, GDPD, score 4.2e-09 862964003490 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 862964003491 HMMPfam hit to PF03767, Acid_phosphat_B, score 4e-104 862964003492 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 862964003493 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 862964003494 probable active site [active] 862964003495 HMMPfam hit to PF00849, PseudoU_synth_2, score 4.7e-36 862964003496 exopolyphosphatase; Region: exo_poly_only; TIGR03706 862964003497 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 862964003498 HMMPfam hit to PF02541, Ppx-GppA, score 1.9e-145 862964003499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 862964003500 Family of unknown function (DUF490); Region: DUF490; pfam04357 862964003501 HMMPfam hit to PF04357, DUF490, score 4e-172 862964003502 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 862964003503 Surface antigen; Region: Bac_surface_Ag; pfam01103 862964003504 HMMPfam hit to PF01103, Bac_surface_Ag, score 4.7e-79 862964003505 HMMPfam hit to PF07244, Surf_Ag_VNR, score 0.00012 862964003506 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 862964003507 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 862964003508 HMMPfam hit to PF00254, FKBP_C, score 3.3e-07 862964003509 RNase E inhibitor protein; Provisional; Region: PRK11191 862964003510 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 862964003511 HMMPfam hit to PF06877, DUF1260, score 2.5e-48 862964003512 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 862964003513 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 862964003514 Permutation of conserved domain; other site 862964003515 active site 862964003516 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 862964003517 HMMPfam hit to PF01142, TruD, score 9.4e-166 862964003518 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 862964003519 HMMPfam hit to PF01975, SurE, score 8.2e-110 862964003520 Predicted membrane protein [Function unknown]; Region: COG1238 862964003521 HMMPfam hit to PF09335, SNARE_assoc, score 6.1e-05 862964003522 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 862964003523 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 862964003524 Peptidase family M23; Region: Peptidase_M23; pfam01551 862964003525 HMMPfam hit to PF01476, LysM, score 1.1e-13 862964003526 HMMPfam hit to PF01551, Peptidase_M23, score 3e-48 862964003527 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 862964003528 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 862964003529 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 862964003530 catalytic residue [active] 862964003531 HMMPfam hit to PF01212, Beta_elim_lyase, score 7.5e-205 862964003532 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 862964003533 aromatic amino acid transport protein; Region: araaP; TIGR00837 862964003534 HMMPfam hit to PF03222, Trp_Tyr_perm, score 2.8e-209 862964003535 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 862964003536 MutS domain I; Region: MutS_I; pfam01624 862964003537 MutS domain II; Region: MutS_II; pfam05188 862964003538 MutS domain III; Region: MutS_III; pfam05192 862964003539 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 862964003540 Walker A/P-loop; other site 862964003541 ATP binding site [chemical binding]; other site 862964003542 Q-loop/lid; other site 862964003543 ABC transporter signature motif; other site 862964003544 Walker B; other site 862964003545 D-loop; other site 862964003546 H-loop/switch region; other site 862964003547 HMMPfam hit to PF01624, MutS_I, score 2.1e-70 862964003548 HMMPfam hit to PF05188, MutS_II, score 6.6e-48 862964003549 HMMPfam hit to PF05192, MutS_III, score 2e-95 862964003550 HMMPfam hit to PF05190, MutS_IV, score 4.8e-42 862964003551 HMMPfam hit to PF00488, MutS_V, score 1.8e-170 862964003552 selenocysteine synthase; Provisional; Region: PRK04311 862964003553 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 862964003554 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 862964003555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 862964003556 catalytic residue [active] 862964003557 HMMPfam hit to PF03841, SelA, score 9.1e-281 862964003558 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 862964003559 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 862964003560 G1 box; other site 862964003561 putative GEF interaction site [polypeptide binding]; other site 862964003562 GTP/Mg2+ binding site [chemical binding]; other site 862964003563 Switch I region; other site 862964003564 G2 box; other site 862964003565 G3 box; other site 862964003566 Switch II region; other site 862964003567 G4 box; other site 862964003568 G5 box; other site 862964003569 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 862964003570 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 862964003571 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 862964003572 DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is...; Region: DEP; cl02442 862964003573 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 862964003574 HMMPfam hit to PF00009, GTP_EFTU, score 9.9e-33 862964003575 HMMPfam hit to PF03144, GTP_EFTU_D2, score 6.9e-12 862964003576 HMMPfam hit to PF09106, SelB-wing_2, score 2.6e-25 862964003577 HMMPfam hit to PF00610, DEP, score 7.5e-12 862964003578 HMMPfam hit to PF09107, SelB-wing_3, score 2.9e-24 862964003579 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238 862964003580 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 862964003581 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 862964003582 RelB antitoxin; Region: RelB; pfam04221 862964003583 HMMPfam hit to PF04221, RelB, score 1.1e-48 862964003584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 862964003585 HMMPfam hit to PF05016, Plasmid_stabil, score 5.4e-08 862964003586 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 862964003587 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 862964003588 HMMPfam hit to PF00593, TonB_dep_Rec, score 1.3e-23 862964003589 HMMPfam hit to PF07715, Plug, score 7.7e-21 862964003590 HMMPfam hit to PF04886, PT, score 5.8e-14 862964003591 trigger factor; Provisional; Region: tig; PRK01490 862964003592 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 862964003593 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 862964003594 HMMPfam hit to PF05697, Trigger_N, score 5.7e-71 862964003595 HMMPfam hit to PF00254, FKBP_C, score 3.6e-27 862964003596 HMMPfam hit to PF05698, Trigger_C, score 7.2e-57 862964003597 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 862964003598 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 862964003599 oligomer interface [polypeptide binding]; other site 862964003600 active site residues [active] 862964003601 HMMPfam hit to PF00574, CLP_protease, score 7.4e-137 862964003602 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 862964003603 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 862964003604 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 862964003605 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 862964003606 Walker A motif; other site 862964003607 ATP binding site [chemical binding]; other site 862964003608 Walker B motif; other site 862964003609 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 862964003610 HMMPfam hit to PF06689, zf-C4_ClpX, score 4.3e-21 862964003611 HMMPfam hit to PF07724, AAA_2, score 9.2e-77 862964003612 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 862964003613 HMMPfam hit to PF00584, SecE, score 5.2e-26 862964003614 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 862964003615 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 862964003616 putative homodimer interface [polypeptide binding]; other site 862964003617 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 862964003618 heterodimer interface [polypeptide binding]; other site 862964003619 homodimer interface [polypeptide binding]; other site 862964003620 HMMPfam hit to PF02357, NusG, score 4e-53 862964003621 HMMPfam hit to PF00467, KOW, score 7.5e-11 862964003622 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 862964003623 HMMPfam hit to PF04333, VacJ, score 9.1e-123 862964003624 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 862964003625 homotrimer interaction site [polypeptide binding]; other site 862964003626 putative active site [active] 862964003627 HMMPfam hit to PF01042, Ribonuc_L-PSP, score 2.4e-61 862964003628 heat shock protein HtpX; Provisional; Region: PRK05457 862964003629 HMMPfam hit to PF06509, HtpX_N, score 3e-50 862964003630 HMMPfam hit to PF01435, Peptidase_M48, score 1.4e-70 862964003631 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 862964003632 CPxP motif; other site 862964003633 HMMPfam hit to PF01206, SirA, score 2.1e-40 862964003634 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 862964003635 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 862964003636 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 862964003637 HMMPfam hit to PF01205, UPF0029, score 1.7e-67 862964003638 HMMPfam hit to PF09186, DUF1949, score 4.4e-16 862964003639 Cation transport protein; Region: TrkH; cl17365 862964003640 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 862964003641 HMMPfam hit to PF02386, TrkH, score 2.9e-121 862964003642 Der GTPase activator (YihI); Region: YihI; cl01172 862964003643 HMMPfam hit to PF04220, DUF414, score 8e-129 862964003644 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 862964003645 transcriptional regulator NarP; Provisional; Region: PRK10403 862964003646 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 862964003647 active site 862964003648 phosphorylation site [posttranslational modification] 862964003649 intermolecular recognition site; other site 862964003650 dimerization interface [polypeptide binding]; other site 862964003651 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 862964003652 DNA binding residues [nucleotide binding] 862964003653 dimerization interface [polypeptide binding]; other site 862964003654 HMMPfam hit to PF00196, GerE, score 2.1e-31 862964003655 HMMPfam hit to PF00072, Response_reg, score 2.7e-35 862964003656 diaminopimelate decarboxylase; Region: lysA; TIGR01048 862964003657 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 862964003658 active site 862964003659 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 862964003660 substrate binding site [chemical binding]; other site 862964003661 catalytic residues [active] 862964003662 dimer interface [polypeptide binding]; other site 862964003663 HMMPfam hit to PF00278, Orn_DAP_Arg_deC, score 1.1e-30 862964003664 HMMPfam hit to PF02784, Orn_Arg_deC_N, score 4.5e-124 862964003665 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 862964003666 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 862964003667 putative iron binding site [ion binding]; other site 862964003668 HMMPfam hit to PF01491, Frataxin_Cyay, score 1.1e-60 862964003669 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 862964003670 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 862964003671 ATP binding site [chemical binding]; other site 862964003672 putative Mg++ binding site [ion binding]; other site 862964003673 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 862964003674 nucleotide binding region [chemical binding]; other site 862964003675 ATP-binding site [chemical binding]; other site 862964003676 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 862964003677 Helicase and RNase D C-terminal; Region: HRDC; smart00341 862964003678 HMMPfam hit to PF00270, DEAD, score 6.9e-38 862964003679 HMMPfam hit to PF00271, Helicase_C, score 1.8e-28 862964003680 HMMPfam hit to PF00570, HRDC, score 5.4e-32 862964003681 prolyl-tRNA synthetase; Provisional; Region: PRK09194 862964003682 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 862964003683 dimer interface [polypeptide binding]; other site 862964003684 motif 1; other site 862964003685 active site 862964003686 motif 2; other site 862964003687 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 862964003688 putative deacylase active site [active] 862964003689 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 862964003690 active site 862964003691 motif 3; other site 862964003692 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 862964003693 anticodon binding site; other site 862964003694 HMMPfam hit to PF00587, tRNA-synt_2b, score 1.7e-65 862964003695 HMMPfam hit to PF04073, YbaK, score 1.1e-06 862964003696 HMMPfam hit to PF03129, HGTP_anticodon, score 1.2e-30 862964003697 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 862964003698 OstA-like protein; Region: OstA; pfam03968 862964003699 Organic solvent tolerance protein; Region: OstA_C; pfam04453 862964003700 HMMPfam hit to PF04453, OstA_C, score 2.7e-146 862964003701 HMMPfam hit to PF03968, OstA, score 2.6e-67 862964003702 FtsI repressor; Provisional; Region: PRK10883 862964003703 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 862964003704 HMMPfam hit to PF07732, Cu-oxidase_3, score 2.2e-29 862964003705 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 862964003706 putative acyl-acceptor binding pocket; other site 862964003707 HMMPfam hit to PF01553, Acyltransferase, score 5.8e-53 862964003708 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 862964003709 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 862964003710 putative active site [active] 862964003711 putative metal binding site [ion binding]; other site 862964003712 HMMPfam hit to PF00149, Metallophos, score 3.7e-12 862964003713 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 862964003714 Na2 binding site [ion binding]; other site 862964003715 putative substrate binding site 1 [chemical binding]; other site 862964003716 Na binding site 1 [ion binding]; other site 862964003717 putative substrate binding site 2 [chemical binding]; other site 862964003718 HMMPfam hit to PF00209, SNF, score 6.9e-236 862964003719 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 862964003720 PYR/PP interface [polypeptide binding]; other site 862964003721 dimer interface [polypeptide binding]; other site 862964003722 TPP binding site [chemical binding]; other site 862964003723 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 862964003724 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 862964003725 HMMPfam hit to PF02776, TPP_enzyme_N, score 1.3e-53 862964003726 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 862964003727 HMMPfam hit to PF00920, ILVD_EDD, score 0 862964003728 threonine dehydratase; Reviewed; Region: PRK09224 862964003729 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 862964003730 tetramer interface [polypeptide binding]; other site 862964003731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964003732 catalytic residue [active] 862964003733 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 862964003734 putative Ile/Val binding site [chemical binding]; other site 862964003735 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 862964003736 putative Ile/Val binding site [chemical binding]; other site 862964003737 HMMPfam hit to PF00291, PALP, score 7.9e-104 862964003738 HMMPfam hit to PF00585, Thr_dehydrat_C, score 5.1e-47 862964003739 HMMPfam hit to PF00585, Thr_dehydrat_C, score 1.7e-45 862964003740 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 862964003741 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 862964003742 putative active site [active] 862964003743 putative PHP Thumb interface [polypeptide binding]; other site 862964003744 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 862964003745 generic binding surface II; other site 862964003746 generic binding surface I; other site 862964003747 HMMPfam hit to PF01336, tRNA_anti, score 1.5e-11 862964003748 HMMPfam hit to PF07733, DNA_pol3_alpha, score 0 862964003749 HMMPfam hit to PF02811, PHP, score 8.3e-61 862964003750 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 862964003751 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 862964003752 active site 862964003753 substrate binding site [chemical binding]; other site 862964003754 metal binding site [ion binding]; metal-binding site 862964003755 HMMPfam hit to PF02878, PGM_PMM_I, score 1.3e-47 862964003756 HMMPfam hit to PF02879, PGM_PMM_II, score 6.7e-06 862964003757 HMMPfam hit to PF02880, PGM_PMM_III, score 0.022 862964003758 HMMPfam hit to PF00408, PGM_PMM_IV, score 0.0025 862964003759 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 862964003760 SecA binding site; other site 862964003761 Preprotein binding site; other site 862964003762 HMMPfam hit to PF02556, SecB, score 1.5e-110 862964003763 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 862964003764 active site residue [active] 862964003765 HMMPfam hit to PF00581, Rhodanese, score 3.1e-23 862964003766 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 862964003767 active site 862964003768 homotetramer interface [polypeptide binding]; other site 862964003769 homodimer interface [polypeptide binding]; other site 862964003770 HMMPfam hit to PF00710, Asparaginase, score 1.6e-169 862964003771 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 862964003772 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 862964003773 HMMPfam hit to PF03605, DcuA_DcuB, score 2.5e-255 862964003774 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 862964003775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 862964003776 HMMPfam hit to PF07992, Pyr_redox_2, score 1.5e-27 862964003777 HMMPfam hit to PF00070, Pyr_redox, score 5.8e-19 862964003778 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 862964003779 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 862964003780 putative acyl-acceptor binding pocket; other site 862964003781 HMMPfam hit to PF01553, Acyltransferase, score 4.3e-45 862964003782 LexA repressor; Validated; Region: PRK00215 862964003783 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 862964003784 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 862964003785 Catalytic site [active] 862964003786 HMMPfam hit to PF01726, LexA_DNA_bind, score 5.1e-46 862964003787 HMMPfam hit to PF00717, Peptidase_S24, score 3.6e-21 862964003788 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 862964003789 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 862964003790 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 862964003791 HMMPfam hit to PF01678, DAP_epimerase, score 3.1e-55 862964003792 HMMPfam hit to PF01678, DAP_epimerase, score 3.2e-53 862964003793 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 862964003794 dimer interface [polypeptide binding]; other site 862964003795 catalytic triad [active] 862964003796 peroxidatic and resolving cysteines [active] 862964003797 HMMPfam hit to PF08534, Redoxin, score 9.7e-39 862964003798 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 862964003799 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 862964003800 dimerization interface [polypeptide binding]; other site 862964003801 ATP binding site [chemical binding]; other site 862964003802 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 862964003803 dimerization interface [polypeptide binding]; other site 862964003804 ATP binding site [chemical binding]; other site 862964003805 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 862964003806 putative active site [active] 862964003807 catalytic triad [active] 862964003808 HMMPfam hit to PF00586, AIRS, score 8.2e-37 862964003809 HMMPfam hit to PF02769, AIRS_C, score 2.5e-36 862964003810 HMMPfam hit to PF02769, AIRS_C, score 3.6e-21 862964003811 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 862964003812 HMMPfam hit to PF01755, Glyco_transf_25, score 1.5e-86 862964003813 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 862964003814 NodB motif; other site 862964003815 putative active site [active] 862964003816 putative catalytic site [active] 862964003817 Zn binding site [ion binding]; other site 862964003818 HMMPfam hit to PF04748, Polysacc_deac_2, score 3e-125 862964003819 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 862964003820 Peptidase family M23; Region: Peptidase_M23; pfam01551 862964003821 HMMPfam hit to PF01551, Peptidase_M23, score 2e-43 862964003822 HMMPfam hit to PF04977, DivIC, score 0.00016 862964003823 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 862964003824 catalytic core [active] 862964003825 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 862964003826 HMMPfam hit to PF00300, PGAM, score 1.4e-43 862964003827 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 862964003828 HMMPfam hit to PF01197, Ribosomal_L31, score 2.1e-43 862964003829 adenine DNA glycosylase; Provisional; Region: PRK10880 862964003830 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 862964003831 minor groove reading motif; other site 862964003832 helix-hairpin-helix signature motif; other site 862964003833 substrate binding pocket [chemical binding]; other site 862964003834 active site 862964003835 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 862964003836 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 862964003837 DNA binding and oxoG recognition site [nucleotide binding] 862964003838 HMMPfam hit to PF00730, HhH-GPD, score 9.5e-21 862964003839 oxidative damage protection protein; Provisional; Region: PRK05408 862964003840 HMMPfam hit to PF04362, Iron_traffic, score 2.5e-73 862964003841 murein transglycosylase C; Provisional; Region: mltC; PRK11671 862964003842 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 862964003843 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 862964003844 N-acetyl-D-glucosamine binding site [chemical binding]; other site 862964003845 catalytic residue [active] 862964003846 HMMPfam hit to PF01464, SLT, score 3.3e-47 862964003847 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 862964003848 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 862964003849 active site 862964003850 metal binding site [ion binding]; metal-binding site 862964003851 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 862964003852 HMMPfam hit to PF00149, Metallophos, score 1.6e-08 862964003853 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 862964003854 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 862964003855 active site 862964003856 (T/H)XGH motif; other site 862964003857 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 862964003858 HMMPfam hit to PF01467, CTP_transf_2, score 3.3e-05 862964003859 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK01792 862964003860 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 862964003861 HMMPfam hit to PF00926, DHBP_synthase, score 7.2e-140 862964003862 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 862964003863 HMMPfam hit to PF01755, Glyco_transf_25, score 1.3e-74 862964003864 tRNA (cytidine(34)-2'-O)-methyltransferase; Region: tRNA_yibK_trmL; TIGR00185 862964003865 HMMPfam hit to PF00588, SpoU_methylase, score 6.1e-40 862964003866 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 862964003867 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 862964003868 S-adenosylmethionine binding site [chemical binding]; other site 862964003869 HMMPfam hit to PF03602, Cons_hypoth95, score 2.4e-96 862964003870 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 862964003871 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 862964003872 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 862964003873 P loop; other site 862964003874 GTP binding site [chemical binding]; other site 862964003875 HMMPfam hit to PF02881, SRP54_N, score 2.2e-18 862964003876 HMMPfam hit to PF00448, SRP54, score 1.9e-126 862964003877 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 862964003878 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964003879 Walker A/P-loop; other site 862964003880 ATP binding site [chemical binding]; other site 862964003881 Q-loop/lid; other site 862964003882 ABC transporter signature motif; other site 862964003883 Walker B; other site 862964003884 D-loop; other site 862964003885 H-loop/switch region; other site 862964003886 HMMPfam hit to PF00005, ABC_tran, score 5.7e-60 862964003887 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 862964003888 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 862964003889 HMMPfam hit to PF02687, FtsX, score 5.2e-26 862964003890 putative acyltransferase; Provisional; Region: PRK05790 862964003891 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 862964003892 dimer interface [polypeptide binding]; other site 862964003893 active site 862964003894 HMMPfam hit to PF02803, Thiolase_C, score 9.1e-91 862964003895 HMMPfam hit to PF00108, Thiolase_N, score 3.7e-180 862964003896 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 862964003897 HMMPfam hit to PF02667, SCFA_trans, score 0 862964003898 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 862964003899 HMMPfam hit to PF01144, CoA_trans, score 3.1e-60 862964003900 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 862964003901 HMMPfam hit to PF01144, CoA_trans, score 3.4e-79 862964003902 Transcriptional regulator [Transcription]; Region: LysR; COG0583 862964003903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 862964003904 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 862964003905 dimerization interface [polypeptide binding]; other site 862964003906 HMMPfam hit to PF00126, HTH_1, score 4.1e-14 862964003907 HMMPfam hit to PF03466, LysR_substrate, score 1.4e-14 862964003908 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 862964003909 HMMPfam hit to PF00338, Ribosomal_S10, score 5.8e-62 862964003910 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 862964003911 HMMPfam hit to PF00297, Ribosomal_L3, score 4.5e-97 862964003912 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 862964003913 HMMPfam hit to PF00573, Ribosomal_L4, score 3.4e-58 862964003914 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 862964003915 HMMPfam hit to PF00276, Ribosomal_L23, score 4.4e-34 862964003916 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 862964003917 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 862964003918 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 862964003919 HMMPfam hit to PF00181, Ribosomal_L2, score 2e-46 862964003920 HMMPfam hit to PF03947, Ribosomal_L2_C, score 5.2e-84 862964003921 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 862964003922 HMMPfam hit to PF00203, Ribosomal_S19, score 6.9e-54 862964003923 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 862964003924 protein-rRNA interface [nucleotide binding]; other site 862964003925 putative translocon binding site; other site 862964003926 HMMPfam hit to PF00237, Ribosomal_L22, score 3.7e-59 862964003927 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 862964003928 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 862964003929 G-X-X-G motif; other site 862964003930 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 862964003931 HMMPfam hit to PF00417, Ribosomal_S3_N, score 1.7e-31 862964003932 HMMPfam hit to PF07650, KH_2, score 1e-20 862964003933 HMMPfam hit to PF00189, Ribosomal_S3_C, score 6.4e-54 862964003934 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 862964003935 23S rRNA interface [nucleotide binding]; other site 862964003936 5S rRNA interface [nucleotide binding]; other site 862964003937 putative antibiotic binding site [chemical binding]; other site 862964003938 L25 interface [polypeptide binding]; other site 862964003939 L27 interface [polypeptide binding]; other site 862964003940 HMMPfam hit to PF00252, Ribosomal_L16, score 1.8e-93 862964003941 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 862964003942 23S rRNA interface [nucleotide binding]; other site 862964003943 putative translocon interaction site; other site 862964003944 signal recognition particle (SRP54) interaction site; other site 862964003945 L23 interface [polypeptide binding]; other site 862964003946 trigger factor interaction site; other site 862964003947 HMMPfam hit to PF00831, Ribosomal_L29, score 1.4e-29 862964003948 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 862964003949 HMMPfam hit to PF00366, Ribosomal_S17, score 9.3e-41 862964003950 potential frameshift: common BLAST hit: gi|148827976|ref|YP_001292729.1| 30S ribosomal protein S17 862964003951 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 862964003952 HMMPfam hit to PF00238, Ribosomal_L14, score 1.4e-79 862964003953 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 862964003954 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 862964003955 RNA binding site [nucleotide binding]; other site 862964003956 HMMPfam hit to PF00467, KOW, score 3.2e-08 862964003957 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 862964003958 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 862964003959 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 862964003960 HMMPfam hit to PF00281, Ribosomal_L5, score 1.2e-32 862964003961 HMMPfam hit to PF00673, Ribosomal_L5_C, score 1.1e-58 862964003962 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 862964003963 HMMPfam hit to PF00253, Ribosomal_S14, score 3.4e-26 862964003964 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 862964003965 HMMPfam hit to PF00410, Ribosomal_S8, score 1.3e-67 862964003966 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 862964003967 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 862964003968 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 862964003969 HMMPfam hit to PF00347, Ribosomal_L6, score 2.8e-24 862964003970 HMMPfam hit to PF00347, Ribosomal_L6, score 7.9e-31 862964003971 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 862964003972 5S rRNA interface [nucleotide binding]; other site 862964003973 L27 interface [polypeptide binding]; other site 862964003974 23S rRNA interface [nucleotide binding]; other site 862964003975 L5 interface [polypeptide binding]; other site 862964003976 HMMPfam hit to PF00861, Ribosomal_L18p, score 4.3e-50 862964003977 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 862964003978 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 862964003979 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 862964003980 HMMPfam hit to PF00333, Ribosomal_S5, score 3.4e-40 862964003981 HMMPfam hit to PF03719, Ribosomal_S5_C, score 7.7e-42 862964003982 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 862964003983 23S rRNA binding site [nucleotide binding]; other site 862964003984 HMMPfam hit to PF00327, Ribosomal_L30, score 4.1e-21 862964003985 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 862964003986 HMMPfam hit to PF01305, Ribosomal_L15, score 2.4e-54 862964003987 HMMPfam hit to PF00256, L15, score 2.8e-07 862964003988 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 862964003989 SecY translocase; Region: SecY; pfam00344 862964003990 HMMPfam hit to PF00344, SecY, score 2.6e-207 862964003991 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 862964003992 HMMPfam hit to PF00444, Ribosomal_L36, score 1.9e-16 862964003993 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 862964003994 30S ribosomal protein S13; Region: bact_S13; TIGR03631 862964003995 HMMPfam hit to PF00416, Ribosomal_S13, score 8.3e-61 862964003996 30S ribosomal protein S11; Validated; Region: PRK05309 862964003997 HMMPfam hit to PF00411, Ribosomal_S11, score 1.9e-75 862964003998 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 862964003999 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 862964004000 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 862964004001 RNA binding surface [nucleotide binding]; other site 862964004002 HMMPfam hit to PF00163, Ribosomal_S4, score 2.5e-37 862964004003 HMMPfam hit to PF01479, S4, score 6.6e-22 862964004004 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 862964004005 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 862964004006 alphaNTD homodimer interface [polypeptide binding]; other site 862964004007 alphaNTD - beta interaction site [polypeptide binding]; other site 862964004008 alphaNTD - beta' interaction site [polypeptide binding]; other site 862964004009 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 862964004010 HMMPfam hit to PF01193, RNA_pol_L, score 1.3e-21 862964004011 HMMPfam hit to PF01000, RNA_pol_A_bac, score 2.6e-56 862964004012 HMMPfam hit to PF03118, RNA_pol_A_CTD, score 8.7e-34 862964004013 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 862964004014 HMMPfam hit to PF01196, Ribosomal_L17, score 1.1e-65 862964004015 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 862964004016 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 862964004017 ligand binding site [chemical binding]; other site 862964004018 flexible hinge region; other site 862964004019 putative switch regulator; other site 862964004020 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 862964004021 non-specific DNA interactions [nucleotide binding]; other site 862964004022 DNA binding site [nucleotide binding] 862964004023 sequence specific DNA binding site [nucleotide binding]; other site 862964004024 putative cAMP binding site [chemical binding]; other site 862964004025 HMMPfam hit to PF00027, cNMP_binding, score 6.7e-19 862964004026 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 862964004027 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 862964004028 FeS/SAM binding site; other site 862964004029 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 862964004030 HMMPfam hit to PF04055, Radical_SAM, score 9e-20 862964004031 Predicted permeases [General function prediction only]; Region: COG0730 862964004032 HMMPfam hit to PF01925, DUF81, score 7.4e-10 862964004033 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 862964004034 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 862964004035 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 862964004036 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 862964004037 HMMPfam hit to PF08436, DXP_redisom_C, score 1.8e-62 862964004038 HMMPfam hit to PF02670, DXP_reductoisom, score 1.2e-74 862964004039 ribosome recycling factor; Reviewed; Region: frr; PRK00083 862964004040 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 862964004041 hinge region; other site 862964004042 HMMPfam hit to PF01765, RRF, score 2.3e-103 862964004043 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 862964004044 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 862964004045 active site 862964004046 substrate-binding site [chemical binding]; other site 862964004047 metal-binding site [ion binding] 862964004048 ATP binding site [chemical binding]; other site 862964004049 HMMPfam hit to PF01293, PEPCK_ATP, score 0 862964004050 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 862964004051 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 862964004052 dimerization interface [polypeptide binding]; other site 862964004053 domain crossover interface; other site 862964004054 redox-dependent activation switch; other site 862964004055 HMMPfam hit to PF01430, HSP33, score 1.1e-149 862964004056 argininosuccinate lyase; Provisional; Region: PRK04833 862964004057 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 862964004058 active sites [active] 862964004059 tetramer interface [polypeptide binding]; other site 862964004060 HMMPfam hit to PF00206, Lyase_1, score 1.9e-125 862964004061 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 862964004062 active site 862964004063 tetramer interface; other site 862964004064 HMMPfam hit to PF00483, NTP_transferase, score 9.6e-12 862964004065 carbon storage regulator; Provisional; Region: PRK01712 862964004066 HMMPfam hit to PF02599, CsrA, score 5.7e-33 862964004067 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 862964004068 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 862964004069 motif 1; other site 862964004070 active site 862964004071 motif 2; other site 862964004072 motif 3; other site 862964004073 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 862964004074 DHHA1 domain; Region: DHHA1; pfam02272 862964004075 HMMPfam hit to PF02272, DHHA1, score 1e-19 862964004076 HMMPfam hit to PF07973, tRNA_SAD, score 5.7e-21 862964004077 HMMPfam hit to PF01411, tRNA-synt_2c, score 0 862964004078 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 862964004079 Ligand Binding Site [chemical binding]; other site 862964004080 HMMPfam hit to PF00582, Usp, score 1.6e-17 862964004081 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 862964004082 proline aminopeptidase P II; Provisional; Region: PRK10879 862964004083 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 862964004084 active site 862964004085 HMMPfam hit to PF00557, Peptidase_M24, score 7.1e-92 862964004086 HMMPfam hit to PF05195, AMP_N, score 1.1e-72 862964004087 hypothetical protein; Reviewed; Region: PRK01736 862964004088 HMMPfam hit to PF03695, UPF0149, score 1.2e-115 862964004089 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 862964004090 active site 862964004091 catalytic residues [active] 862964004092 HMMPfam hit to PF01263, Aldose_epim, score 7.5e-126 862964004093 galactokinase; Provisional; Region: PRK05101 862964004094 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 862964004095 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 862964004096 HMMPfam hit to PF08544, GHMP_kinases_C, score 1.3e-11 862964004097 HMMPfam hit to PF00288, GHMP_kinases_N, score 3.9e-17 862964004098 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 862964004099 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 862964004100 dimer interface [polypeptide binding]; other site 862964004101 active site 862964004102 HMMPfam hit to PF02744, GalP_UDP_tr_C, score 2.1e-106 862964004103 HMMPfam hit to PF01087, GalP_UDP_transf, score 1.4e-108 862964004104 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 862964004105 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 862964004106 DNA binding site [nucleotide binding] 862964004107 domain linker motif; other site 862964004108 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 862964004109 ligand binding site [chemical binding]; other site 862964004110 dimerization interface (closed form) [polypeptide binding]; other site 862964004111 HMMPfam hit to PF00356, LacI, score 2.1e-11 862964004112 HMMPfam hit to PF00532, Peripla_BP_1, score 4.3e-17 862964004113 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 862964004114 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 862964004115 ligand binding site [chemical binding]; other site 862964004116 calcium binding site [ion binding]; other site 862964004117 HMMPfam hit to PF00532, Peripla_BP_1, score 0.0012 862964004118 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 862964004119 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 862964004120 Walker A/P-loop; other site 862964004121 ATP binding site [chemical binding]; other site 862964004122 Q-loop/lid; other site 862964004123 ABC transporter signature motif; other site 862964004124 Walker B; other site 862964004125 D-loop; other site 862964004126 H-loop/switch region; other site 862964004127 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 862964004128 HMMPfam hit to PF00005, ABC_tran, score 8.1e-42 862964004129 HMMPfam hit to PF00005, ABC_tran, score 7.6e-21 862964004130 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 862964004131 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 862964004132 TM-ABC transporter signature motif; other site 862964004133 HMMPfam hit to PF02653, BPD_transp_2, score 2.2e-62 862964004134 Intracellular septation protein A [Cell division and chromosome partitioning]; Region: COG2917 862964004135 HMMPfam hit to PF04279, IspA, score 1.9e-105 862964004136 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 862964004137 HMMPfam hit to PF03061, 4HBT, score 4.3e-22 862964004138 YciI-like protein; Reviewed; Region: PRK11370 862964004139 HMMPfam hit to PF03795, YCII, score 3.3e-50 862964004140 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 862964004141 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 862964004142 N-acetyl-D-glucosamine binding site [chemical binding]; other site 862964004143 catalytic residue [active] 862964004144 HMMPfam hit to PF01464, SLT, score 1.9e-36 862964004145 Trp operon repressor; Provisional; Region: PRK01381 862964004146 HMMPfam hit to PF01371, Trp_repressor, score 7.7e-42 862964004147 monofunctional biosynthetic peptidoglycan transglycosylase; Region: mono_pep_trsgly; TIGR02070 862964004148 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 862964004149 HMMPfam hit to PF00912, Transgly, score 3.5e-80 862964004150 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 862964004151 Iron-sulfur protein interface; other site 862964004152 proximal quinone binding site [chemical binding]; other site 862964004153 C-subunit interface; other site 862964004154 distal quinone binding site; other site 862964004155 HMMPfam hit to PF02313, Fumarate_red_D, score 1.1e-78 862964004156 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 862964004157 D-subunit interface [polypeptide binding]; other site 862964004158 Iron-sulfur protein interface; other site 862964004159 proximal quinone binding site [chemical binding]; other site 862964004160 distal quinone binding site [chemical binding]; other site 862964004161 HMMPfam hit to PF02300, Fumarate_red_C, score 1.1e-102 862964004162 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 862964004163 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 862964004164 HMMPfam hit to PF00037, Fer4, score 0.00045 862964004165 HMMPfam hit to PF00111, Fer2, score 0.042 862964004166 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 862964004167 L-aspartate oxidase; Provisional; Region: PRK06175 862964004168 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 862964004169 HMMPfam hit to PF02910, Succ_DH_flav_C, score 1.8e-74 862964004170 HMMPfam hit to PF00890, FAD_binding_2, score 3.6e-162 862964004171 poxB regulator PoxA; Provisional; Region: PRK09350 862964004172 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 862964004173 motif 1; other site 862964004174 dimer interface [polypeptide binding]; other site 862964004175 active site 862964004176 motif 2; other site 862964004177 motif 3; other site 862964004178 HMMPfam hit to PF00152, tRNA-synt_2, score 1.5e-67 862964004179 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 862964004180 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 862964004181 active site 862964004182 phosphorylation site [posttranslational modification] 862964004183 intermolecular recognition site; other site 862964004184 dimerization interface [polypeptide binding]; other site 862964004185 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 862964004186 DNA binding site [nucleotide binding] 862964004187 HMMPfam hit to PF00486, Trans_reg_C, score 4.4e-18 862964004188 HMMPfam hit to PF00072, Response_reg, score 9.4e-42 862964004189 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 862964004190 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 862964004191 HMMPfam hit to PF04355, SmpA_OmlA, score 6.8e-40 862964004192 Nucleoid-associated protein [General function prediction only]; Region: COG3081 862964004193 nucleoid-associated protein NdpA; Validated; Region: PRK00378 862964004194 HMMPfam hit to PF04245, NA37, score 3.7e-257 862964004195 hypothetical protein; Provisional; Region: PRK13689 862964004196 HMMPfam hit to PF07208, DUF1414, score 1.7e-45 862964004197 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 862964004198 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 862964004199 Sulfatase; Region: Sulfatase; cl17466 862964004200 HMMPfam hit to PF00884, Sulfatase, score 7.8e-11 862964004201 hypothetical protein; Validated; Region: PRK06886 862964004202 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 862964004203 active site 862964004204 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 862964004205 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 862964004206 GTP binding site; other site 862964004207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3084 862964004208 HMMPfam hit to PF06288, DUF1040, score 1.4e-54 862964004209 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 862964004210 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 862964004211 catalytic residues [active] 862964004212 hinge region; other site 862964004213 alpha helical domain; other site 862964004214 HMMPfam hit to PF01323, DSBA, score 4.8e-48 862964004215 hypothetical protein; Provisional; Region: PRK11027 862964004216 HMMPfam hit to PF04219, DUF413, score 6.4e-86 862964004217 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 862964004218 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 862964004219 S-adenosylmethionine binding site [chemical binding]; other site 862964004220 HMMPfam hit to PF05958, tRNA_U5-meth_tr, score 2.6e-286 862964004221 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 862964004222 HMMPfam hit to PF04445, DUF548, score 7.5e-172 862964004223 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 862964004224 HMMPfam hit to PF04246, RseC_MucC, score 6.6e-87 862964004225 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 862964004226 Walker A motif; other site 862964004227 HMMPfam hit to PF03205, MobB, score 2e-68 862964004228 putative transporter; Provisional; Region: PRK10504 862964004229 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 862964004230 putative substrate translocation pore; other site 862964004231 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 862964004232 HMMPfam hit to PF07690, MFS_1, score 2.2e-51 862964004233 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 862964004234 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 862964004235 peptide binding site [polypeptide binding]; other site 862964004236 HMMPfam hit to PF00496, SBP_bac_5, score 6e-95 862964004237 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 862964004238 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 862964004239 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 862964004240 HMMPfam hit to PF01243, Pyridox_oxidase, score 1.7e-24 862964004241 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 862964004242 HMMPfam hit to PF06354, DUF1063, score 1.5e-32 862964004243 DNA polymerase I; Provisional; Region: PRK05755 862964004244 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 862964004245 active site 862964004246 metal binding site 1 [ion binding]; metal-binding site 862964004247 putative 5' ssDNA interaction site; other site 862964004248 metal binding site 3; metal-binding site 862964004249 metal binding site 2 [ion binding]; metal-binding site 862964004250 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 862964004251 putative DNA binding site [nucleotide binding]; other site 862964004252 putative metal binding site [ion binding]; other site 862964004253 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 862964004254 active site 862964004255 catalytic site [active] 862964004256 substrate binding site [chemical binding]; other site 862964004257 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 862964004258 active site 862964004259 DNA binding site [nucleotide binding] 862964004260 catalytic site [active] 862964004261 HMMPfam hit to PF00476, DNA_pol_A, score 1.6e-236 862964004262 HMMPfam hit to PF01612, 3_5_exonuc, score 1.6e-70 862964004263 HMMPfam hit to PF01367, 5_3_exonuc, score 2.2e-54 862964004264 HMMPfam hit to PF02739, 5_3_exonuc_N, score 1.5e-94 862964004265 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 862964004266 HMMPfam hit to PF05164, ZapA, score 3.3e-38 862964004267 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 862964004268 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 862964004269 HMMPfam hit to PF01812, 5-FTHF_cyc-lig, score 6.8e-76 862964004270 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 862964004271 Clp amino terminal domain; Region: Clp_N; pfam02861 862964004272 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 862964004273 Walker A motif; other site 862964004274 ATP binding site [chemical binding]; other site 862964004275 Walker B motif; other site 862964004276 arginine finger; other site 862964004277 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 862964004278 Walker A motif; other site 862964004279 ATP binding site [chemical binding]; other site 862964004280 Walker B motif; other site 862964004281 arginine finger; other site 862964004282 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 862964004283 HMMPfam hit to PF02861, Clp_N, score 3e-15 862964004284 HMMPfam hit to PF02861, Clp_N, score 6.2e-13 862964004285 HMMPfam hit to PF00004, AAA, score 5.3e-18 862964004286 HMMPfam hit to PF07724, AAA_2, score 1.1e-112 862964004287 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 862964004288 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 862964004289 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 862964004290 HMMPfam hit to PF00588, SpoU_methylase, score 2e-61 862964004291 HMMPfam hit to PF08032, SpoU_sub_bind, score 4.8e-23 862964004292 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 862964004293 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 862964004294 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 862964004295 RNB domain; Region: RNB; pfam00773 862964004296 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 862964004297 RNA binding site [nucleotide binding]; other site 862964004298 HMMPfam hit to PF00575, S1, score 4.1e-14 862964004299 HMMPfam hit to PF00773, RNB, score 1.6e-152 862964004300 HMMPfam hit to PF08206, OB_RNB, score 5.5e-30 862964004301 HMMPfam hit to PF08461, HTH_12, score 1.2e-17 862964004302 hypothetical protein; Provisional; Region: PRK11212 862964004303 HMMPfam hit to PF02592, DUF165, score 6.8e-72 862964004304 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 862964004305 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 862964004306 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 862964004307 HMMPfam hit to PF01243, Pyridox_oxidase, score 2.3e-33 862964004308 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 862964004309 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 862964004310 G1 box; other site 862964004311 putative GEF interaction site [polypeptide binding]; other site 862964004312 GTP/Mg2+ binding site [chemical binding]; other site 862964004313 Switch I region; other site 862964004314 G2 box; other site 862964004315 G3 box; other site 862964004316 Switch II region; other site 862964004317 G4 box; other site 862964004318 G5 box; other site 862964004319 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 862964004320 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 862964004321 HMMPfam hit to PF00679, EFG_C, score 1.9e-20 862964004322 HMMPfam hit to PF03144, GTP_EFTU_D2, score 6.2e-15 862964004323 HMMPfam hit to PF00009, GTP_EFTU, score 2.8e-76 862964004324 glutamine synthetase; Provisional; Region: glnA; PRK09469 862964004325 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 862964004326 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 862964004327 HMMPfam hit to PF03951, Gln-synt_N, score 5.9e-41 862964004328 HMMPfam hit to PF00120, Gln-synt_C, score 2.9e-173 862964004329 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 862964004330 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 862964004331 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 862964004332 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 862964004333 active site 862964004334 HMMPfam hit to PF00535, Glycos_transf_2, score 1e-41 862964004335 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 862964004336 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 862964004337 active site 862964004338 HMMPfam hit to PF00535, Glycos_transf_2, score 7.4e-21 862964004339 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 862964004340 HMMPfam hit to PF05855, LST, score 2.3e-173 862964004341 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 862964004342 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 862964004343 HMMPfam hit to PF02397, Bac_transf, score 1.7e-143 862964004344 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 862964004345 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 862964004346 NAD binding site [chemical binding]; other site 862964004347 substrate binding site [chemical binding]; other site 862964004348 homodimer interface [polypeptide binding]; other site 862964004349 active site 862964004350 HMMPfam hit to PF01370, Epimerase, score 1.8e-93 862964004351 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 862964004352 O-Antigen ligase; Region: Wzy_C; pfam04932 862964004353 HMMPfam hit to PF04932, Wzy_C, score 3.3e-21 862964004354 aminopeptidase B; Provisional; Region: PRK05015 862964004355 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 862964004356 interface (dimer of trimers) [polypeptide binding]; other site 862964004357 Substrate-binding/catalytic site; other site 862964004358 Zn-binding sites [ion binding]; other site 862964004359 HMMPfam hit to PF00883, Peptidase_M17, score 1.3e-140 862964004360 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 862964004361 active site 862964004362 multimer interface [polypeptide binding]; other site 862964004363 HMMPfam hit to PF00334, NDK, score 1.2e-94 862964004364 GTPase CgtA; Reviewed; Region: obgE; PRK12298 862964004365 GTP1/OBG; Region: GTP1_OBG; pfam01018 862964004366 Obg GTPase; Region: Obg; cd01898 862964004367 G1 box; other site 862964004368 GTP/Mg2+ binding site [chemical binding]; other site 862964004369 Switch I region; other site 862964004370 G2 box; other site 862964004371 G3 box; other site 862964004372 Switch II region; other site 862964004373 G4 box; other site 862964004374 G5 box; other site 862964004375 HMMPfam hit to PF01926, MMR_HSR1, score 5.2e-39 862964004376 HMMPfam hit to PF01018, GTP1_OBG, score 5.6e-92 862964004377 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 862964004378 EamA-like transporter family; Region: EamA; pfam00892 862964004379 EamA-like transporter family; Region: EamA; pfam00892 862964004380 HMMPfam hit to PF00892, DUF6, score 4.5e-18 862964004381 HMMPfam hit to PF00892, DUF6, score 3.6e-24 862964004382 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 862964004383 HMMPfam hit to PF01016, Ribosomal_L27, score 5.9e-55 862964004384 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 862964004385 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 862964004386 HMMPfam hit to PF00829, Ribosomal_L21p, score 2.1e-58 862964004387 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 862964004388 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 862964004389 substrate binding pocket [chemical binding]; other site 862964004390 chain length determination region; other site 862964004391 substrate-Mg2+ binding site; other site 862964004392 catalytic residues [active] 862964004393 aspartate-rich region 1; other site 862964004394 active site lid residues [active] 862964004395 aspartate-rich region 2; other site 862964004396 HMMPfam hit to PF00348, polyprenyl_synt, score 3.1e-126 862964004397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 862964004398 HMMPfam hit to PF02677, DUF208, score 2.2e-150 862964004399 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 862964004400 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 862964004401 HMMPfam hit to PF01235, Na_Ala_symp, score 1.9e-284 862964004402 two-component response regulator; Provisional; Region: PRK11173 862964004403 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 862964004404 active site 862964004405 phosphorylation site [posttranslational modification] 862964004406 intermolecular recognition site; other site 862964004407 dimerization interface [polypeptide binding]; other site 862964004408 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 862964004409 DNA binding site [nucleotide binding] 862964004410 HMMPfam hit to PF00486, Trans_reg_C, score 2.2e-15 862964004411 HMMPfam hit to PF00072, Response_reg, score 2.5e-38 862964004412 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 862964004413 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 862964004414 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 862964004415 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 862964004416 DsbD alpha interface [polypeptide binding]; other site 862964004417 catalytic residues [active] 862964004418 HMMPfam hit to PF02683, DsbD, score 1.3e-07 862964004419 HMMPfam hit to PF00085, Thioredoxin, score 1.6e-05 862964004420 Predicted membrane protein [Function unknown]; Region: COG2259 862964004421 HMMPfam hit to PF07681, DoxX, score 1.2e-21 862964004422 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 862964004423 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 862964004424 purine monophosphate binding site [chemical binding]; other site 862964004425 dimer interface [polypeptide binding]; other site 862964004426 putative catalytic residues [active] 862964004427 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 862964004428 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 862964004429 HMMPfam hit to PF02142, MGS, score 3.4e-62 862964004430 HMMPfam hit to PF01808, AICARFT_IMPCHas, score 3.2e-228 862964004431 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 862964004432 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 862964004433 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 862964004434 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 862964004435 HMMPfam hit to PF02844, GARS_N, score 6.8e-68 862964004436 HMMPfam hit to PF01071, GARS_A, score 7.2e-134 862964004437 HMMPfam hit to PF02843, GARS_C, score 3.9e-56 862964004438 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 862964004439 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 862964004440 dimer interface [polypeptide binding]; other site 862964004441 active site 862964004442 glycine-pyridoxal phosphate binding site [chemical binding]; other site 862964004443 folate binding site [chemical binding]; other site 862964004444 HMMPfam hit to PF00464, SHMT, score 1.7e-274 862964004445 dephospho-CoA kinase; Region: TIGR00152 862964004446 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 862964004447 CoA-binding site [chemical binding]; other site 862964004448 ATP-binding [chemical binding]; other site 862964004449 HMMPfam hit to PF01121, CoaE, score 8.3e-117 862964004450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 862964004451 HMMPfam hit to PF03884, DUF329, score 1.3e-41 862964004452 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 862964004453 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 862964004454 ATP binding site [chemical binding]; other site 862964004455 Mg++ binding site [ion binding]; other site 862964004456 motif III; other site 862964004457 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 862964004458 nucleotide binding region [chemical binding]; other site 862964004459 ATP-binding site [chemical binding]; other site 862964004460 HMMPfam hit to PF00270, DEAD, score 2e-62 862964004461 HMMPfam hit to PF00271, Helicase_C, score 3.5e-33 862964004462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 862964004463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 862964004464 HMMPfam hit to PF00440, TetR_N, score 4.6e-15 862964004465 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 862964004466 HlyD family secretion protein; Region: HlyD_3; pfam13437 862964004467 HMMPfam hit to PF00529, HlyD, score 3e-13 862964004468 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 862964004469 HMMPfam hit to PF00873, ACR_tran, score 2.6e-269 862964004470 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 862964004471 Sporulation related domain; Region: SPOR; pfam05036 862964004472 HMMPfam hit to PF05036, SPOR, score 4.6e-20 862964004473 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 862964004474 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 862964004475 putative substrate translocation pore; other site 862964004476 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 862964004477 HMMPfam hit to PF07690, MFS_1, score 1.4e-54 862964004478 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 862964004479 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 862964004480 HlyD family secretion protein; Region: HlyD_3; pfam13437 862964004481 HMMPfam hit to PF00529, HlyD, score 1e-89 862964004482 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 862964004483 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 862964004484 folate binding site [chemical binding]; other site 862964004485 NADP+ binding site [chemical binding]; other site 862964004486 HMMPfam hit to PF00186, DHFR_1, score 1.2e-57 862964004487 gamma-glutamyl kinase; Provisional; Region: PRK05429 862964004488 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 862964004489 nucleotide binding site [chemical binding]; other site 862964004490 homotetrameric interface [polypeptide binding]; other site 862964004491 putative phosphate binding site [ion binding]; other site 862964004492 putative allosteric binding site; other site 862964004493 PUA domain; Region: PUA; pfam01472 862964004494 HMMPfam hit to PF00696, AA_kinase, score 2.3e-59 862964004495 HMMPfam hit to PF01472, PUA, score 1.9e-26 862964004496 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 862964004497 putative active site [active] 862964004498 Ap4A binding site [chemical binding]; other site 862964004499 nudix motif; other site 862964004500 putative metal binding site [ion binding]; other site 862964004501 HMMPfam hit to PF00293, NUDIX, score 3.8e-30 862964004502 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 862964004503 HMMPfam hit to PF01925, DUF81, score 6.5e-68 862964004504 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 862964004505 HMMPfam hit to PF01790, LGT, score 9.5e-130 862964004506 thymidylate synthase; Reviewed; Region: thyA; PRK01827 862964004507 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 862964004508 dimerization interface [polypeptide binding]; other site 862964004509 active site 862964004510 HMMPfam hit to PF00303, Thymidylat_synt, score 1.2e-54 862964004511 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 862964004512 nucleoside/Zn binding site; other site 862964004513 dimer interface [polypeptide binding]; other site 862964004514 catalytic motif [active] 862964004515 HMMPfam hit to PF00383, dCMP_cyt_deam_1, score 1.3e-44 862964004516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 862964004517 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 862964004518 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 862964004519 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 862964004520 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 862964004521 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; cl17351 862964004522 nucleotide binding region [chemical binding]; other site 862964004523 ATP-binding site [chemical binding]; other site 862964004524 SEC-C motif; Region: SEC-C; pfam02810 862964004525 HMMPfam hit to PF07517, SecA_DEAD, score 1.4e-208 862964004526 HMMPfam hit to PF01043, SecA_PP_bind, score 2.5e-83 862964004527 HMMPfam hit to PF07516, SecA_SW, score 1.1e-121 862964004528 HMMPfam hit to PF02810, SEC-C, score 1.4e-11 862964004529 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 862964004530 active site 862964004531 8-oxo-dGMP binding site [chemical binding]; other site 862964004532 nudix motif; other site 862964004533 metal binding site [ion binding]; metal-binding site 862964004534 HMMPfam hit to PF00293, NUDIX, score 1.5e-30 862964004535 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 862964004536 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 862964004537 TrkA-N domain; Region: TrkA_N; pfam02254 862964004538 HMMPfam hit to PF00999, Na_H_Exchanger, score 2.3e-94 862964004539 HMMPfam hit to PF02254, TrkA_N, score 2.2e-25 862964004540 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 862964004541 HMMPfam hit to PF08241, Methyltransf_11, score 9.6e-24 862964004542 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 862964004543 rRNA interaction site [nucleotide binding]; other site 862964004544 S8 interaction site; other site 862964004545 putative laminin-1 binding site; other site 862964004546 HMMPfam hit to PF00318, Ribosomal_S2, score 6e-121 862964004547 elongation factor Ts; Provisional; Region: tsf; PRK09377 862964004548 UBA/TS-N domain; Region: UBA; pfam00627 862964004549 Elongation factor TS; Region: EF_TS; pfam00889 862964004550 Elongation factor TS; Region: EF_TS; pfam00889 862964004551 HMMPfam hit to PF00627, UBA, score 1.3e-12 862964004552 HMMPfam hit to PF00889, EF_TS, score 1.2e-105 862964004553 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 862964004554 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 862964004555 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 862964004556 trimer interface [polypeptide binding]; other site 862964004557 active site 862964004558 UDP-GlcNAc binding site [chemical binding]; other site 862964004559 lipid binding site [chemical binding]; lipid-binding site 862964004560 HMMPfam hit to PF00132, Hexapep, score 20 862964004561 HMMPfam hit to PF00132, Hexapep, score 13 862964004562 HMMPfam hit to PF00132, Hexapep, score 1.8 862964004563 HMMPfam hit to PF00132, Hexapep, score 0.059 862964004564 HMMPfam hit to PF00132, Hexapep, score 0.0015 862964004565 HMMPfam hit to PF00132, Hexapep, score 0.055 862964004566 HMMPfam hit to PF00132, Hexapep, score 0.0061 862964004567 HMMPfam hit to PF00132, Hexapep, score 0.018 862964004568 HMMPfam hit to PF04613, LpxD, score 1.3e-29 862964004569 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 862964004570 periplasmic chaperone; Provisional; Region: PRK10780 862964004571 HMMPfam hit to PF03938, OmpH, score 4.1e-31 862964004572 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 862964004573 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 862964004574 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 862964004575 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 862964004576 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 862964004577 Surface antigen; Region: Bac_surface_Ag; pfam01103 862964004578 HMMPfam hit to PF01103, Bac_surface_Ag, score 1.4e-73 862964004579 HMMPfam hit to PF07244, Surf_Ag_VNR, score 3.3e-18 862964004580 HMMPfam hit to PF07244, Surf_Ag_VNR, score 7.3e-10 862964004581 HMMPfam hit to PF07244, Surf_Ag_VNR, score 5.4e-17 862964004582 HMMPfam hit to PF07244, Surf_Ag_VNR, score 5e-13 862964004583 HMMPfam hit to PF07244, Surf_Ag_VNR, score 3.2e-05 862964004584 zinc metallopeptidase RseP; Provisional; Region: PRK10779 862964004585 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 862964004586 active site 862964004587 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 862964004588 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 862964004589 protein binding site [polypeptide binding]; other site 862964004590 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 862964004591 putative substrate binding region [chemical binding]; other site 862964004592 HMMPfam hit to PF02163, Peptidase_M50, score 6.2e-94 862964004593 HMMPfam hit to PF00595, PDZ, score 2.5e-10 862964004594 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 862964004595 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 862964004596 HMMPfam hit to PF01148, CTP_transf_1, score 1.6e-103 862964004597 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 862964004598 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 862964004599 catalytic residue [active] 862964004600 putative FPP diphosphate binding site; other site 862964004601 putative FPP binding hydrophobic cleft; other site 862964004602 dimer interface [polypeptide binding]; other site 862964004603 putative IPP diphosphate binding site; other site 862964004604 HMMPfam hit to PF01255, Prenyltransf, score 1.5e-157 862964004605 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 862964004606 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 862964004607 HIGH motif; other site 862964004608 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 862964004609 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 862964004610 active site 862964004611 KMSKS motif; other site 862964004612 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 862964004613 tRNA binding surface [nucleotide binding]; other site 862964004614 HMMPfam hit to PF09334, tRNA-synt_1g, score 8.6e-09 862964004615 HMMPfam hit to PF08264, Anticodon_1, score 3.8e-09 862964004616 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 862964004617 HMMPfam hit to PF04390, RplB, score 5e-84 862964004618 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 862964004619 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 862964004620 HMMPfam hit to PF06144, DNA_pol3_delta, score 3.2e-125 862964004621 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 862964004622 HMMPfam hit to PF05016, Plasmid_stabil, score 3.9e-17 862964004623 primosomal protein DnaI; Provisional; Region: PRK02854 862964004624 HMMPfam hit to PF02604, PhdYeFM, score 1.5e-08 862964004625 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 862964004626 HMMPfam hit to PF05125, Phage_cap_P2, score 4.4e-12 862964004627 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 862964004628 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 862964004629 HMMPfam hit to PF05746, DALR_1, score 3.7e-06 862964004630 HMMPfam hit to PF02092, tRNA_synt_2f, score 0 862964004631 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 862964004632 putative active site [active] 862964004633 HMMPfam hit to PF04480, DUF559, score 1.6e-74 862964004634 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 862964004635 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 862964004636 dimer interface [polypeptide binding]; other site 862964004637 motif 1; other site 862964004638 active site 862964004639 motif 2; other site 862964004640 motif 3; other site 862964004641 HMMPfam hit to PF02091, tRNA-synt_2e, score 8.2e-239 862964004642 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 862964004643 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 862964004644 tetramer interface [polypeptide binding]; other site 862964004645 heme binding pocket [chemical binding]; other site 862964004646 NADPH binding site [chemical binding]; other site 862964004647 HMMPfam hit to PF00199, Catalase, score 8.5e-299 862964004648 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 862964004649 HMMPfam hit to PF03738, GSP_synth, score 4.9e-266 862964004650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 862964004651 enolase; Provisional; Region: eno; PRK00077 862964004652 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 862964004653 dimer interface [polypeptide binding]; other site 862964004654 metal binding site [ion binding]; metal-binding site 862964004655 substrate binding pocket [chemical binding]; other site 862964004656 HMMPfam hit to PF00113, Enolase_C, score 1.1e-177 862964004657 HMMPfam hit to PF03952, Enolase_N, score 4.3e-70 862964004658 Predicted flavoproteins [General function prediction only]; Region: COG2081 862964004659 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 862964004660 HMMPfam hit to PF03486, HI0933_like, score 2.2e-227 862964004661 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 862964004662 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 862964004663 binding surface 862964004664 TPR motif; other site 862964004665 TPR repeat; Region: TPR_11; pfam13414 862964004666 HMMPfam hit to PF03918, CcmH, score 3.9e-97 862964004667 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 862964004668 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 862964004669 catalytic residues [active] 862964004670 central insert; other site 862964004671 HMMPfam hit to PF00578, AhpC-TSA, score 5.8e-14 862964004672 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 862964004673 HMMPfam hit to PF01578, Cytochrom_C_asm, score 3.6e-81 862964004674 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 862964004675 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 862964004676 active site 862964004677 dimerization interface [polypeptide binding]; other site 862964004678 HMMPfam hit to PF00459, Inositol_P, score 2.9e-115 862964004679 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 862964004680 HMMPfam hit to PF07963, N_methyl, score 2.8e-05 862964004681 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 862964004682 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 862964004683 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 862964004684 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 862964004685 HMMPfam hit to PF04257, Exonuc_V_gamma, score 0 862964004686 transcriptional regulator NrdR; Region: TIGR00244 862964004687 ATP cone domain; Region: ATP-cone; pfam03477 862964004688 HMMPfam hit to PF03477, ATP-cone, score 2.3e-33 862964004689 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 862964004690 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 862964004691 catalytic motif [active] 862964004692 Zn binding site [ion binding]; other site 862964004693 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 862964004694 HMMPfam hit to PF00383, dCMP_cyt_deam_1, score 4.1e-43 862964004695 HMMPfam hit to PF01872, RibD_C, score 1.8e-89 862964004696 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 862964004697 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 862964004698 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 862964004699 HMMPfam hit to PF00089, Trypsin, score 3.6e-29 862964004700 HMMPfam hit to PF00595, PDZ, score 9.4e-20 862964004701 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 862964004702 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 862964004703 DNA binding site [nucleotide binding] 862964004704 catalytic residue [active] 862964004705 H2TH interface [polypeptide binding]; other site 862964004706 putative catalytic residues [active] 862964004707 turnover-facilitating residue; other site 862964004708 intercalation triad [nucleotide binding]; other site 862964004709 8OG recognition residue [nucleotide binding]; other site 862964004710 putative reading head residues; other site 862964004711 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 862964004712 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 862964004713 HMMPfam hit to PF06827, zf-FPG_IleRS, score 0.0054 862964004714 HMMPfam hit to PF06831, H2TH, score 3.7e-51 862964004715 HMMPfam hit to PF01149, Fapy_DNA_glyco, score 4.4e-51 862964004716 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 862964004717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964004718 catalytic residue [active] 862964004719 HMMPfam hit to PF00282, Pyridoxal_deC, score 4e-38 862964004720 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 862964004721 oligomeric interface; other site 862964004722 putative active site [active] 862964004723 homodimer interface [polypeptide binding]; other site 862964004724 HMMPfam hit to PF01850, PIN, score 6.6e-26 862964004725 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 862964004726 HMMPfam hit to PF04014, SpoVT_AbrB, score 0.00045 862964004727 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 862964004728 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 862964004729 inhibitor-cofactor binding pocket; inhibition site 862964004730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964004731 catalytic residue [active] 862964004732 HMMPfam hit to PF00202, Aminotran_3, score 1.1e-185 862964004733 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 862964004734 HMMPfam hit to PF00471, Ribosomal_L33, score 1e-20 862964004735 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 862964004736 HMMPfam hit to PF00830, Ribosomal_L28, score 2.3e-33 862964004737 hypothetical protein; Reviewed; Region: PRK00024 862964004738 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 862964004739 MPN+ (JAMM) motif; other site 862964004740 Zinc-binding site [ion binding]; other site 862964004741 HMMPfam hit to PF04002, RadC, score 6.5e-83 862964004742 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 862964004743 Flavoprotein; Region: Flavoprotein; pfam02441 862964004744 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 862964004745 HMMPfam hit to PF02441, Flavoprotein, score 8e-50 862964004746 HMMPfam hit to PF04127, DFP, score 2.6e-75 862964004747 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 862964004748 trimer interface [polypeptide binding]; other site 862964004749 active site 862964004750 HMMPfam hit to PF00692, dUTPase, score 7.1e-59 862964004751 division inhibitor protein; Provisional; Region: slmA; PRK09480 862964004752 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 862964004753 HMMPfam hit to PF00440, TetR_N, score 1.6e-14 862964004754 hypothetical protein; Provisional; Region: PRK04966 862964004755 HMMPfam hit to PF06794, UPF0270, score 2e-36 862964004756 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 862964004757 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 862964004758 ligand binding site [chemical binding]; other site 862964004759 flexible hinge region; other site 862964004760 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 862964004761 putative switch regulator; other site 862964004762 non-specific DNA interactions [nucleotide binding]; other site 862964004763 DNA binding site [nucleotide binding] 862964004764 sequence specific DNA binding site [nucleotide binding]; other site 862964004765 putative cAMP binding site [chemical binding]; other site 862964004766 HMMPfam hit to PF00027, cNMP_binding, score 2.2e-26 862964004767 HMMPfam hit to PF00325, Crp, score 1.4e-15 862964004768 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 862964004769 HMMPfam hit to PF05958, tRNA_U5-meth_tr, score 0.00015 862964004770 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 862964004771 beta-hexosaminidase; Provisional; Region: PRK05337 862964004772 HMMPfam hit to PF00933, Glyco_hydro_3, score 7.9e-88 862964004773 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 862964004774 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 862964004775 putative dimer interface [polypeptide binding]; other site 862964004776 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 862964004777 nucleotide binding site/active site [active] 862964004778 HIT family signature motif; other site 862964004779 catalytic residue [active] 862964004780 HMMPfam hit to PF01230, HIT, score 5.2e-47 862964004781 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 862964004782 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 862964004783 active site 862964004784 HIGH motif; other site 862964004785 nucleotide binding site [chemical binding]; other site 862964004786 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 862964004787 active site 862964004788 KMSKS motif; other site 862964004789 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 862964004790 tRNA binding surface [nucleotide binding]; other site 862964004791 anticodon binding site; other site 862964004792 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 862964004793 HMMPfam hit to PF06827, zf-FPG_IleRS, score 6.6e-15 862964004794 HMMPfam hit to PF08264, Anticodon_1, score 6.1e-58 862964004795 HMMPfam hit to PF00133, tRNA-synt_1, score 0 862964004796 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 862964004797 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 862964004798 active site 862964004799 Riboflavin kinase; Region: Flavokinase; smart00904 862964004800 HMMPfam hit to PF01687, Flavokinase, score 1.6e-71 862964004801 HMMPfam hit to PF06574, FAD_syn, score 2.7e-80 862964004802 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 862964004803 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 862964004804 HMMPfam hit to PF03023, MVIN, score 1.5e-213 862964004805 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 862964004806 HMMPfam hit to PF01649, Ribosomal_S20p, score 4.2e-47 862964004807 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 862964004808 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 862964004809 substrate binding site [chemical binding]; other site 862964004810 oxyanion hole (OAH) forming residues; other site 862964004811 trimer interface [polypeptide binding]; other site 862964004812 HMMPfam hit to PF00378, ECH, score 4e-73 862964004813 O-succinylbenzoate synthase [Coenzyme metabolism]; Region: MenC; COG1441 862964004814 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 862964004815 active site 862964004816 HMMPfam hit to PF01188, MR_MLE, score 2.9e-10 862964004817 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 862964004818 Dehydroquinase class II; Region: DHquinase_II; pfam01220 862964004819 active site 862964004820 trimer interface [polypeptide binding]; other site 862964004821 dimer interface [polypeptide binding]; other site 862964004822 HMMPfam hit to PF01220, DHquinase_II, score 2.8e-108 862964004823 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 862964004824 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 862964004825 carboxyltransferase (CT) interaction site; other site 862964004826 biotinylation site [posttranslational modification]; other site 862964004827 HMMPfam hit to PF00364, Biotin_lipoyl, score 4.8e-35 862964004828 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 862964004829 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 862964004830 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 862964004831 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 862964004832 HMMPfam hit to PF00289, CPSase_L_chain, score 6.1e-57 862964004833 HMMPfam hit to PF02786, CPSase_L_D2, score 5.2e-124 862964004834 HMMPfam hit to PF02785, Biotin_carb_C, score 2.9e-66 862964004835 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 862964004836 HMMPfam hit to PF01298, Lipoprotein_5, score 6.8e-11 862964004837 Protein of unknown function (DUF560); Region: DUF560; pfam04575 862964004838 HMMPfam hit to PF04575, DUF560, score 1.7e-25 862964004839 Predicted membrane protein [Function unknown]; Region: COG3924 862964004840 HMMPfam hit to PF06196, DUF997, score 8.3e-52 862964004841 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 862964004842 Na binding site [ion binding]; other site 862964004843 HMMPfam hit to PF00474, SSF, score 7.3e-212 862964004844 EamA-like transporter family; Region: EamA; pfam00892 862964004845 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 862964004846 EamA-like transporter family; Region: EamA; pfam00892 862964004847 HMMPfam hit to PF00892, DUF6, score 2.4e-21 862964004848 HMMPfam hit to PF00892, DUF6, score 5.8e-21 862964004849 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 862964004850 Fic/DOC family; Region: Fic; cl00960 862964004851 HMMPfam hit to PF02661, Fic, score 6.4e-38 862964004852 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 862964004853 Methyltransferase domain; Region: Methyltransf_18; pfam12847 862964004854 HMMPfam hit to PF06325, PrmA, score 5.3e-177 862964004855 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 862964004856 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 862964004857 FMN binding site [chemical binding]; other site 862964004858 active site 862964004859 catalytic residues [active] 862964004860 substrate binding site [chemical binding]; other site 862964004861 HMMPfam hit to PF01207, Dus, score 8.8e-164 862964004862 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 862964004863 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 862964004864 HMMPfam hit to PF02954, HTH_8, score 3.1e-16 862964004865 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 862964004866 SmpB-tmRNA interface; other site 862964004867 HMMPfam hit to PF01668, SmpB, score 3.5e-43 862964004868 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 862964004869 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 862964004870 active site 862964004871 ADP/pyrophosphate binding site [chemical binding]; other site 862964004872 dimerization interface [polypeptide binding]; other site 862964004873 allosteric effector site; other site 862964004874 fructose-1,6-bisphosphate binding site; other site 862964004875 HMMPfam hit to PF00365, PFK, score 2.6e-195 862964004876 hypothetical protein; Validated; Region: PRK02101 862964004877 HMMPfam hit to PF03883, DUF328, score 1.1e-178 862964004878 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 862964004879 DNA protecting protein DprA; Region: dprA; TIGR00732 862964004880 HMMPfam hit to PF02481, SMF, score 1.5e-132 862964004881 2-isopropylmalate synthase; Validated; Region: PRK00915 862964004882 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 862964004883 active site 862964004884 catalytic residues [active] 862964004885 metal binding site [ion binding]; metal-binding site 862964004886 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 862964004887 HMMPfam hit to PF00682, HMGL-like, score 5.3e-151 862964004888 HMMPfam hit to PF08502, LeuA_dimer, score 3.9e-52 862964004889 tartrate dehydrogenase; Region: TTC; TIGR02089 862964004890 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 862964004891 HMMPfam hit to PF00180, Iso_dh, score 1.5e-215 862964004892 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 862964004893 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 862964004894 substrate binding site [chemical binding]; other site 862964004895 ligand binding site [chemical binding]; other site 862964004896 HMMPfam hit to PF00330, Aconitase, score 3.8e-292 862964004897 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 862964004898 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 862964004899 substrate binding site [chemical binding]; other site 862964004900 HMMPfam hit to PF00694, Aconitase_C, score 1.7e-64 862964004901 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 862964004902 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 862964004903 Autotransporter beta-domain; Region: Autotransporter; pfam03797 862964004904 HMMPfam hit to PF03797, Autotransporter, score 1.1e-32 862964004905 HMMPfam hit to PF03212, Pertactin, score 9.6e-09 862964004906 HMMPfam hit to PF02395, Peptidase_S6, score 0 862964004907 recF protein; Region: recf; TIGR00611 862964004908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964004909 Walker A/P-loop; other site 862964004910 ATP binding site [chemical binding]; other site 862964004911 Q-loop/lid; other site 862964004912 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964004913 ABC transporter signature motif; other site 862964004914 Walker B; other site 862964004915 D-loop; other site 862964004916 H-loop/switch region; other site 862964004917 HMMPfam hit to PF02463, SMC_N, score 1.2e-62 862964004918 DNA polymerase III subunit beta; Validated; Region: PRK05643 862964004919 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 862964004920 putative DNA binding surface [nucleotide binding]; other site 862964004921 dimer interface [polypeptide binding]; other site 862964004922 beta-clamp/clamp loader binding surface; other site 862964004923 beta-clamp/translesion DNA polymerase binding surface; other site 862964004924 HMMPfam hit to PF02768, DNA_pol3_beta_3, score 3.8e-64 862964004925 HMMPfam hit to PF02767, DNA_pol3_beta_2, score 3.5e-66 862964004926 HMMPfam hit to PF00712, DNA_pol3_beta, score 1.8e-66 862964004927 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 862964004928 DnaA N-terminal domain; Region: DnaA_N; pfam11638 862964004929 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 862964004930 Walker A motif; other site 862964004931 ATP binding site [chemical binding]; other site 862964004932 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 862964004933 Walker B motif; other site 862964004934 arginine finger; other site 862964004935 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 862964004936 DnaA box-binding interface [nucleotide binding]; other site 862964004937 HMMPfam hit to PF08299, Bac_DnaA_C, score 2.2e-44 862964004938 HMMPfam hit to PF00308, Bac_DnaA, score 7.3e-154 862964004939 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 862964004940 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 862964004941 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 862964004942 ligand-binding site [chemical binding]; other site 862964004943 HMMPfam hit to PF00593, TonB_dep_Rec, score 2.6e-20 862964004944 HMMPfam hit to PF07715, Plug, score 1.3e-22 862964004945 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 862964004946 HMMPfam hit to PF01298, Lipoprotein_5, score 3.3e-235 862964004947 Protein of unknown function (DUF560); Region: DUF560; pfam04575 862964004948 HMMPfam hit to PF04575, DUF560, score 4.2e-31 862964004949 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 862964004950 HMMPfam hit to PF00468, Ribosomal_L34, score 7.1e-22 862964004951 Ribonuclease P; Region: Ribonuclease_P; cl00457 862964004952 HMMPfam hit to PF00825, Ribonuclease_P, score 1.1e-10 862964004953 hypothetical protein; Validated; Region: PRK00041 862964004954 HMMPfam hit to PF01809, DUF37, score 1.4e-16 862964004955 membrane protein insertase; Provisional; Region: PRK01318 862964004956 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 862964004957 HMMPfam hit to PF02096, 60KD_IMP, score 2.7e-126 862964004958 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 862964004959 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 862964004960 trmE is a tRNA modification GTPase; Region: trmE; cd04164 862964004961 G1 box; other site 862964004962 GTP/Mg2+ binding site [chemical binding]; other site 862964004963 Switch I region; other site 862964004964 G2 box; other site 862964004965 Switch II region; other site 862964004966 G3 box; other site 862964004967 G4 box; other site 862964004968 G5 box; other site 862964004969 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 862964004970 HMMPfam hit to PF01926, MMR_HSR1, score 5e-42 862964004971 periplasmic folding chaperone; Provisional; Region: PRK10788 862964004972 SurA N-terminal domain; Region: SurA_N_3; cl07813 862964004973 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 862964004974 HMMPfam hit to PF00639, Rotamase, score 6.8e-42 862964004975 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 862964004976 Sulfatase; Region: Sulfatase; pfam00884 862964004977 HMMPfam hit to PF00884, Sulfatase, score 5.7e-83 862964004978 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 862964004979 lipoprotein signal peptidase; Provisional; Region: PRK14787 862964004980 HMMPfam hit to PF01252, Peptidase_A8, score 3.4e-89 862964004981 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 862964004982 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 862964004983 HMMPfam hit to PF02401, LYTB, score 1.3e-193 862964004984 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 862964004985 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 862964004986 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 862964004987 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 862964004988 HMMPfam hit to PF00455, DeoR, score 2.2e-51 862964004989 HMMPfam hit to PF08220, HTH_DeoR, score 2.2e-15 862964004990 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 862964004991 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 862964004992 HMMPfam hit to PF03446, NAD_binding_2, score 1.1e-55 862964004993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 862964004994 HMMPfam hit to PF07005, DUF1537, score 5.5e-141 862964004995 putative aldolase; Validated; Region: PRK08130 862964004996 intersubunit interface [polypeptide binding]; other site 862964004997 active site 862964004998 Zn2+ binding site [ion binding]; other site 862964004999 HMMPfam hit to PF00596, Aldolase_II, score 4.9e-66 862964005000 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 862964005001 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 862964005002 Metal-binding active site; metal-binding site 862964005003 HMMPfam hit to PF01261, AP_endonuc_2, score 4.9e-50 862964005004 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 862964005005 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 862964005006 putative NAD(P) binding site [chemical binding]; other site 862964005007 active site 862964005008 putative substrate binding site [chemical binding]; other site 862964005009 HMMPfam hit to PF01370, Epimerase, score 8.3e-29 862964005010 GntP family permease; Region: GntP_permease; pfam02447 862964005011 fructuronate transporter; Provisional; Region: PRK10034; cl15264 862964005012 HMMPfam hit to PF02447, GntP_permease, score 3.3e-253 862964005013 Putative cyclase; Region: Cyclase; cl00814 862964005014 HMMPfam hit to PF04199, Cyclase, score 9.6e-19 862964005015 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 862964005016 amphipathic channel; other site 862964005017 Asn-Pro-Ala signature motifs; other site 862964005018 HMMPfam hit to PF00230, MIP, score 6.4e-09 862964005019 potential frameshift: common BLAST hit: gi|170719025|ref|YP_001784183.1| transposase 862964005020 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 862964005021 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 862964005022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 862964005023 Helix-turn-helix domain; Region: HTH_28; pfam13518 862964005024 potential frameshift: common BLAST hit: gi|365967111|ref|YP_004948673.1| integrase catalytic subunit 862964005025 HTH-like domain; Region: HTH_21; pfam13276 862964005026 Integrase core domain; Region: rve; pfam00665 862964005027 Integrase core domain; Region: rve_2; pfam13333 862964005028 HMMPfam hit to PF00665, rve, score 4.2e-16 862964005029 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 862964005030 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 862964005031 HMMPfam hit to PF05159, Capsule_synth, score 6.8e-131 862964005032 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 862964005033 HMMPfam hit to PF05159, Capsule_synth, score 9.5e-92 862964005034 HMMPfam hit to PF05159, Capsule_synth, score 4.9e-105 862964005035 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 862964005036 HMMPfam hit to PF05704, Caps_synth, score 4.4e-132 862964005037 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 862964005038 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 862964005039 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 862964005040 HMMPfam hit to PF04464, Glyphos_transf, score 2e-57 862964005041 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 862964005042 substrate binding site; other site 862964005043 dimer interface; other site 862964005044 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 862964005045 classical (c) SDRs; Region: SDR_c; cd05233 862964005046 NAD(P) binding site [chemical binding]; other site 862964005047 active site 862964005048 HMMPfam hit to PF00106, adh_short, score 2.6e-11 862964005049 HMMPfam hit to PF01128, IspD, score 4e-42 862964005050 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 862964005051 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 862964005052 HMMPfam hit to PF02563, Poly_export, score 7.3e-09 862964005053 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 862964005054 HMMPfam hit to PF02706, Wzz, score 0.061 862964005055 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 862964005056 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 862964005057 HMMPfam hit to PF01061, ABC2_membrane, score 2.3e-24 862964005058 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 862964005059 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 862964005060 Walker A/P-loop; other site 862964005061 ATP binding site [chemical binding]; other site 862964005062 Q-loop/lid; other site 862964005063 ABC transporter signature motif; other site 862964005064 Walker B; other site 862964005065 D-loop; other site 862964005066 H-loop/switch region; other site 862964005067 HMMPfam hit to PF00005, ABC_tran, score 1.7e-19 862964005068 potential frameshift: common BLAST hit: gi|170719025|ref|YP_001784183.1| transposase 862964005069 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 862964005070 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 862964005071 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 862964005072 Helix-turn-helix domain; Region: HTH_28; pfam13518 862964005073 potential frameshift: common BLAST hit: gi|365967111|ref|YP_004948673.1| integrase catalytic subunit 862964005074 HTH-like domain; Region: HTH_21; pfam13276 862964005075 Integrase core domain; Region: rve; pfam00665 862964005076 Integrase core domain; Region: rve_2; pfam13333 862964005077 HMMPfam hit to PF00665, rve, score 4.2e-16 862964005078 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 862964005079 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 862964005080 HMMPfam hit to PF05159, Capsule_synth, score 6.8e-131 862964005081 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 862964005082 HMMPfam hit to PF05159, Capsule_synth, score 9.5e-92 862964005083 HMMPfam hit to PF05159, Capsule_synth, score 4.9e-105 862964005084 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 862964005085 HMMPfam hit to PF05704, Caps_synth, score 4.4e-132 862964005086 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 862964005087 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 862964005088 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 862964005089 HMMPfam hit to PF04464, Glyphos_transf, score 2e-57 862964005090 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 862964005091 substrate binding site; other site 862964005092 dimer interface; other site 862964005093 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 862964005094 classical (c) SDRs; Region: SDR_c; cd05233 862964005095 NAD(P) binding site [chemical binding]; other site 862964005096 active site 862964005097 HMMPfam hit to PF00106, adh_short, score 2.6e-11 862964005098 HMMPfam hit to PF01128, IspD, score 4e-42 862964005099 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 862964005100 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 862964005101 HMMPfam hit to PF02563, Poly_export, score 7.3e-09 862964005102 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 862964005103 HMMPfam hit to PF02706, Wzz, score 0.061 862964005104 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 862964005105 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 862964005106 HMMPfam hit to PF01061, ABC2_membrane, score 2.3e-24 862964005107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964005108 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 862964005109 thiamine ABC transporter, periplasmic binding protein; Region: thiB; TIGR01276 862964005110 HMMPfam hit to PF01547, SBP_bac_1, score 0.011 862964005111 thiamine ABC transporter, permease protein; Region: thiP; TIGR01253 862964005112 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 862964005113 dimer interface [polypeptide binding]; other site 862964005114 conserved gate region; other site 862964005115 putative PBP binding loops; other site 862964005116 ABC-ATPase subunit interface; other site 862964005117 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 862964005118 dimer interface [polypeptide binding]; other site 862964005119 conserved gate region; other site 862964005120 putative PBP binding loops; other site 862964005121 ABC-ATPase subunit interface; other site 862964005122 HMMPfam hit to PF00528, BPD_transp_1, score 0.00095 862964005123 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 862964005124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964005125 Walker A/P-loop; other site 862964005126 ATP binding site [chemical binding]; other site 862964005127 Q-loop/lid; other site 862964005128 ABC transporter signature motif; other site 862964005129 Walker B; other site 862964005130 D-loop; other site 862964005131 H-loop/switch region; other site 862964005132 HMMPfam hit to PF00005, ABC_tran, score 3.6e-65 862964005133 biotin synthase; Region: bioB; TIGR00433 862964005134 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 862964005135 FeS/SAM binding site; other site 862964005136 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 862964005137 HMMPfam hit to PF04055, Radical_SAM, score 1.7e-29 862964005138 HMMPfam hit to PF06968, BATS, score 8.8e-49 862964005139 transketolase; Reviewed; Region: PRK12753 862964005140 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 862964005141 TPP-binding site [chemical binding]; other site 862964005142 dimer interface [polypeptide binding]; other site 862964005143 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 862964005144 PYR/PP interface [polypeptide binding]; other site 862964005145 dimer interface [polypeptide binding]; other site 862964005146 TPP binding site [chemical binding]; other site 862964005147 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 862964005148 HMMPfam hit to PF02780, Transketolase_C, score 3.3e-15 862964005149 HMMPfam hit to PF02779, Transket_pyr, score 1.4e-71 862964005150 HMMPfam hit to PF00456, Transketolase_N, score 1.9e-255 862964005151 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 862964005152 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 862964005153 motif II; other site 862964005154 HMMPfam hit to PF00702, Hydrolase, score 1.3e-25 862964005155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 862964005156 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 862964005157 HMMPfam hit to PF04461, DUF520, score 1.3e-119 862964005158 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 862964005159 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 862964005160 Cl binding site [ion binding]; other site 862964005161 oligomer interface [polypeptide binding]; other site 862964005162 HMMPfam hit to PF01544, CorA, score 3e-102 862964005163 YGGT family; Region: YGGT; pfam02325 862964005164 YGGT family; Region: YGGT; pfam02325 862964005165 HMMPfam hit to PF02325, YGGT, score 1.6e-17 862964005166 HMMPfam hit to PF02325, YGGT, score 6.9e-30 862964005167 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 862964005168 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 862964005169 putative active site [active] 862964005170 putative dimer interface [polypeptide binding]; other site 862964005171 HMMPfam hit to PF00310, GATase_2, score 6.1e-39 862964005172 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 862964005173 non-specific DNA binding site [nucleotide binding]; other site 862964005174 salt bridge; other site 862964005175 sequence-specific DNA binding site [nucleotide binding]; other site 862964005176 HMMPfam hit to PF01381, HTH_3, score 2.4e-13 862964005177 ferredoxin-type protein NapF; Region: napF; TIGR00402 862964005178 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 862964005179 HMMPfam hit to PF00037, Fer4, score 1.7e-05 862964005180 HMMPfam hit to PF00037, Fer4, score 1.6e-06 862964005181 HMMPfam hit to PF00037, Fer4, score 6.8e-05 862964005182 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 862964005183 HMMPfam hit to PF06192, TorD, score 3.5e-62 862964005184 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 862964005185 HMMPfam hit to PF04976, DmsC, score 2.3e-166 862964005186 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 862964005187 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 862964005188 HMMPfam hit to PF00037, Fer4, score 8.7e-07 862964005189 HMMPfam hit to PF00037, Fer4, score 4.2e-05 862964005190 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 862964005191 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 862964005192 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 862964005193 putative [Fe4-S4] binding site [ion binding]; other site 862964005194 putative molybdopterin cofactor binding site [chemical binding]; other site 862964005195 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 862964005196 putative molybdopterin cofactor binding site; other site 862964005197 HMMPfam hit to PF01568, Molydop_binding, score 3.9e-35 862964005198 HMMPfam hit to PF00384, Molybdopterin, score 2.4e-188 862964005199 HMMPfam hit to PF04879, Molybdop_Fe4S4, score 1.9e-17 862964005200 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 862964005201 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 862964005202 HMMPfam hit to PF01841, Transglut_core, score 2.4e-26 862964005203 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 862964005204 metal-binding site [ion binding] 862964005205 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 862964005206 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 862964005207 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 862964005208 Walker A/P-loop; other site 862964005209 ATP binding site [chemical binding]; other site 862964005210 Q-loop/lid; other site 862964005211 ABC transporter signature motif; other site 862964005212 Walker B; other site 862964005213 D-loop; other site 862964005214 H-loop/switch region; other site 862964005215 HMMPfam hit to PF00005, ABC_tran, score 1.8e-55 862964005216 Cupin; Region: Cupin_6; pfam12852 862964005217 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 862964005218 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 862964005219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 862964005220 HMMPfam hit to PF00165, HTH_AraC, score 4.2e-14 862964005221 HMMPfam hit to PF00165, HTH_AraC, score 1.8e-09 862964005222 HMMPfam hit to PF02311, AraC_binding, score 7.5e-20 862964005223 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 862964005224 HMMPfam hit to PF02627, CMD, score 2.1e-22 862964005226 HMMPfam hit to PF04851, ResIII, score 6.6e-47 862964005227 potential frameshift: common BLAST hit: gi|319897460|ref|YP_004135657.1| type iii restriction-modification system hindvip enzyme mod 862964005228 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 862964005229 DNA methylase; Region: N6_N4_Mtase; cl17433 862964005230 DNA methylase; Region: N6_N4_Mtase; pfam01555 862964005231 HMMPfam hit to PF01555, N6_N4_Mtase, score 3.1e-31 862964005232 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 862964005233 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 862964005234 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 862964005235 RNA/DNA hybrid binding site [nucleotide binding]; other site 862964005236 active site 862964005237 HMMPfam hit to PF01351, RNase_HII, score 4.1e-95 862964005238 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 862964005239 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 862964005240 HMMPfam hit to PF02684, LpxB, score 9.9e-226 862964005241 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 862964005242 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 862964005243 active site 862964005244 HMMPfam hit to PF00132, Hexapep, score 3.8 862964005245 HMMPfam hit to PF00132, Hexapep, score 2 862964005246 HMMPfam hit to PF00132, Hexapep, score 18 862964005247 HMMPfam hit to PF00132, Hexapep, score 3.6 862964005248 HMMPfam hit to PF00132, Hexapep, score 0.51 862964005249 HMMPfam hit to PF00132, Hexapep, score 16 862964005250 HMMPfam hit to PF00132, Hexapep, score 0.003 862964005251 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 862964005252 HMMPfam hit to PF07977, FabA, score 7.2e-62 862964005253 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 862964005254 Sulfatase; Region: Sulfatase; pfam00884 862964005255 HMMPfam hit to PF00884, Sulfatase, score 3.4e-42 862964005256 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 862964005257 putative nucleotide binding site [chemical binding]; other site 862964005258 uridine monophosphate binding site [chemical binding]; other site 862964005259 homohexameric interface [polypeptide binding]; other site 862964005260 HMMPfam hit to PF00696, AA_kinase, score 6.2e-64 862964005261 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 862964005262 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 862964005263 HMMPfam hit to PF03916, NrfD, score 4.3e-164 862964005264 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 862964005265 HMMPfam hit to PF00037, Fer4, score 0.009 862964005266 HMMPfam hit to PF00037, Fer4, score 2e-05 862964005267 HMMPfam hit to PF00037, Fer4, score 0.0028 862964005268 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 862964005269 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 862964005270 HMMPfam hit to PF02335, Cytochrom_C552, score 0 862964005271 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 862964005272 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 862964005273 ATP binding site [chemical binding]; other site 862964005274 putative Mg++ binding site [ion binding]; other site 862964005275 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 862964005276 nucleotide binding region [chemical binding]; other site 862964005277 ATP-binding site [chemical binding]; other site 862964005278 Helicase associated domain (HA2); Region: HA2; pfam04408 862964005279 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 862964005280 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 862964005281 HMMPfam hit to PF07717, DUF1605, score 2.8e-26 862964005282 HMMPfam hit to PF04408, HA2, score 4.3e-26 862964005283 HMMPfam hit to PF00271, Helicase_C, score 1.8e-12 862964005284 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 862964005285 HMMPfam hit to PF04241, DUF423, score 3.6e-62 862964005286 Predicted membrane protein [Function unknown]; Region: COG2707 862964005287 HMMPfam hit to PF04284, DUF441, score 4e-89 862964005288 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 862964005289 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 862964005290 HMMPfam hit to PF02322, Cyto_ox_2, score 4.1e-219 862964005291 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 862964005292 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 862964005293 HMMPfam hit to PF01654, Bac_Ubq_Cox, score 0 862964005294 CTP synthetase; Validated; Region: pyrG; PRK05380 862964005295 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 862964005296 Catalytic site [active] 862964005297 active site 862964005298 UTP binding site [chemical binding]; other site 862964005299 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 862964005300 active site 862964005301 putative oxyanion hole; other site 862964005302 catalytic triad [active] 862964005303 HMMPfam hit to PF06418, CTP_synth_N, score 3.6e-214 862964005304 HMMPfam hit to PF00117, GATase, score 1.5e-80 862964005305 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 862964005306 HMMPfam hit to PF04973, NMN_transporter, score 2.3e-73 862964005307 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 862964005308 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 862964005309 Walker A/P-loop; other site 862964005310 ATP binding site [chemical binding]; other site 862964005311 Q-loop/lid; other site 862964005312 ABC transporter signature motif; other site 862964005313 Walker B; other site 862964005314 D-loop; other site 862964005315 H-loop/switch region; other site 862964005316 HMMPfam hit to PF00005, ABC_tran, score 2.6e-66 862964005317 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 862964005318 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 862964005319 dimer interface [polypeptide binding]; other site 862964005320 conserved gate region; other site 862964005321 putative PBP binding loops; other site 862964005322 ABC-ATPase subunit interface; other site 862964005323 HMMPfam hit to PF00528, BPD_transp_1, score 9.6e-23 862964005324 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 862964005325 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 862964005326 substrate binding pocket [chemical binding]; other site 862964005327 membrane-bound complex binding site; other site 862964005328 hinge residues; other site 862964005329 HMMPfam hit to PF00497, SBP_bac_3, score 4.9e-92 862964005330 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 862964005331 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 862964005332 hinge; other site 862964005333 active site 862964005334 HMMPfam hit to PF00275, EPSP_synthase, score 3.3e-188 862964005335 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 862964005336 HMMPfam hit to PF01722, BolA, score 4.1e-36 862964005337 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 862964005338 anti sigma factor interaction site; other site 862964005339 regulatory phosphorylation site [posttranslational modification]; other site 862964005340 HMMPfam hit to PF01740, STAS, score 3.3e-07 862964005341 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 862964005342 HMMPfam hit to PF05494, Tol_Tol_Ttg2, score 6e-88 862964005343 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 862964005344 mce related protein; Region: MCE; pfam02470 862964005345 HMMPfam hit to PF02470, MCE, score 2.8e-21 862964005346 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 862964005347 conserved hypothetical integral membrane protein; Region: TIGR00056 862964005348 HMMPfam hit to PF02405, DUF140, score 4.1e-132 862964005349 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 862964005350 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 862964005351 Walker A/P-loop; other site 862964005352 ATP binding site [chemical binding]; other site 862964005353 Q-loop/lid; other site 862964005354 ABC transporter signature motif; other site 862964005355 Walker B; other site 862964005356 D-loop; other site 862964005357 H-loop/switch region; other site 862964005358 HMMPfam hit to PF00005, ABC_tran, score 1e-53 862964005359 superoxide dismutase; Provisional; Region: PRK10925 862964005360 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 862964005361 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 862964005362 HMMPfam hit to PF02777, Sod_Fe_C, score 1.3e-73 862964005363 HMMPfam hit to PF00081, Sod_Fe_N, score 2.7e-44 862964005364 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 862964005365 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964005366 Walker A/P-loop; other site 862964005367 ATP binding site [chemical binding]; other site 862964005368 Q-loop/lid; other site 862964005369 ABC transporter signature motif; other site 862964005370 Walker B; other site 862964005371 D-loop; other site 862964005372 H-loop/switch region; other site 862964005373 HMMPfam hit to PF00005, ABC_tran, score 1.5e-36 862964005374 heme exporter protein CcmB; Region: ccmB; TIGR01190 862964005375 HMMPfam hit to PF03379, CcmB, score 8.2e-129 862964005376 heme exporter protein CcmC; Region: ccmC; TIGR01191 862964005377 HMMPfam hit to PF01578, Cytochrom_C_asm, score 1.5e-62 862964005378 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 862964005379 HMMPfam hit to PF04995, CcmD, score 1.8e-22 862964005380 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 862964005381 HMMPfam hit to PF03100, CcmE, score 3.7e-93 862964005382 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 862964005383 HMMPfam hit to PF01578, Cytochrom_C_asm, score 1.9e-84 862964005384 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 862964005385 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 862964005386 catalytic residues [active] 862964005387 central insert; other site 862964005388 HMMPfam hit to PF08534, Redoxin, score 3.5e-26 862964005389 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 862964005390 HMMPfam hit to PF03918, CcmH, score 1.4e-93 862964005391 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 862964005392 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 862964005393 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 862964005394 TPR motif; other site 862964005395 binding surface 862964005396 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 862964005397 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 862964005398 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 862964005399 nucleotide binding pocket [chemical binding]; other site 862964005400 K-X-D-G motif; other site 862964005401 catalytic site [active] 862964005402 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 862964005403 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 862964005404 Helix-hairpin-helix motif; Region: HHH; pfam00633 862964005405 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 862964005406 Dimer interface [polypeptide binding]; other site 862964005407 BRCT sequence motif; other site 862964005408 HMMPfam hit to PF00533, BRCT, score 6.6e-22 862964005409 HMMPfam hit to PF00633, HHH, score 2.4e-06 862964005410 HMMPfam hit to PF03119, DNA_ligase_ZBD, score 5.8e-13 862964005411 HMMPfam hit to PF03120, DNA_ligase_OB, score 3.7e-54 862964005412 HMMPfam hit to PF01653, DNA_ligase_aden, score 1.7e-213 862964005413 cell division protein ZipA; Provisional; Region: PRK01741 862964005414 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 862964005415 FtsZ protein binding site [polypeptide binding]; other site 862964005416 HMMPfam hit to PF04354, ZipA_C, score 1.2e-87 862964005417 putative sulfate transport protein CysZ; Validated; Region: PRK04949 862964005418 HMMPfam hit to PF04401, DUF540, score 1.7e-112 862964005419 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 862964005420 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 862964005421 dimer interface [polypeptide binding]; other site 862964005422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964005423 catalytic residue [active] 862964005424 HMMPfam hit to PF00291, PALP, score 7.7e-123 862964005425 benzoate transport; Region: 2A0115; TIGR00895 862964005426 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 862964005427 putative substrate translocation pore; other site 862964005428 HMMPfam hit to PF07690, MFS_1, score 3.8e-51 862964005429 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 862964005430 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 862964005431 putative active site [active] 862964005432 HMMPfam hit to PF01075, Glyco_transf_9, score 6.1e-122 862964005433 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 862964005434 putative dimerization interface [polypeptide binding]; other site 862964005435 Transcriptional regulators [Transcription]; Region: PurR; COG1609 862964005436 putative ligand binding site [chemical binding]; other site 862964005437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 862964005438 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 862964005439 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 862964005440 HMMPfam hit to PF00165, HTH_AraC, score 1.2e-15 862964005441 HMMPfam hit to PF00165, HTH_AraC, score 1.2e-07 862964005442 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 862964005443 HMMPfam hit to PF03553, Na_H_antiporter, score 3.6e-99 862964005444 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 862964005445 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 862964005446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964005447 homodimer interface [polypeptide binding]; other site 862964005448 catalytic residue [active] 862964005449 HMMPfam hit to PF00155, Aminotran_1_2, score 3.9e-16 862964005450 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 862964005451 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 862964005452 TM-ABC transporter signature motif; other site 862964005453 HMMPfam hit to PF02653, BPD_transp_2, score 3.6e-65 862964005454 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 862964005455 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 862964005456 Walker A/P-loop; other site 862964005457 ATP binding site [chemical binding]; other site 862964005458 Q-loop/lid; other site 862964005459 ABC transporter signature motif; other site 862964005460 Walker B; other site 862964005461 D-loop; other site 862964005462 H-loop/switch region; other site 862964005463 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 862964005464 HMMPfam hit to PF00005, ABC_tran, score 2.1e-24 862964005465 HMMPfam hit to PF00005, ABC_tran, score 2.8e-50 862964005466 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 862964005467 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 862964005468 putative ligand binding site [chemical binding]; other site 862964005469 HMMPfam hit to PF00532, Peripla_BP_1, score 0.00019 862964005470 xylose isomerase; Provisional; Region: PRK05474 862964005471 xylose isomerase; Region: xylose_isom_A; TIGR02630 862964005472 HMMPfam hit to PF01261, AP_endonuc_2, score 4.8e-10 862964005473 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 862964005474 N- and C-terminal domain interface [polypeptide binding]; other site 862964005475 D-xylulose kinase; Region: XylB; TIGR01312 862964005476 active site 862964005477 MgATP binding site [chemical binding]; other site 862964005478 catalytic site [active] 862964005479 metal binding site [ion binding]; metal-binding site 862964005480 xylulose binding site [chemical binding]; other site 862964005481 putative homodimer interface [polypeptide binding]; other site 862964005482 HMMPfam hit to PF00370, FGGY_N, score 2.4e-139 862964005483 HMMPfam hit to PF02782, FGGY_C, score 6.2e-110 862964005484 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 862964005485 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 862964005486 NADP binding site [chemical binding]; other site 862964005487 homopentamer interface [polypeptide binding]; other site 862964005488 substrate binding site [chemical binding]; other site 862964005489 active site 862964005490 HMMPfam hit to PF01370, Epimerase, score 7.6e-56 862964005491 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 862964005492 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 862964005493 catalytic residues [active] 862964005494 HMMPfam hit to PF00578, AhpC-TSA, score 5.6e-14 862964005495 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 862964005496 intersubunit interface [polypeptide binding]; other site 862964005497 active site 862964005498 catalytic residue [active] 862964005499 HMMPfam hit to PF01791, DeoC, score 4.2e-101 862964005500 Mg chelatase-related protein; Region: TIGR00368 862964005501 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 862964005502 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 862964005503 Walker A motif; other site 862964005504 ATP binding site [chemical binding]; other site 862964005505 Walker B motif; other site 862964005506 arginine finger; other site 862964005507 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 862964005508 HMMPfam hit to PF01078, Mg_chelatase, score 5e-145 862964005509 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 862964005510 G1 box; other site 862964005511 GTP/Mg2+ binding site [chemical binding]; other site 862964005512 Switch I region; other site 862964005513 G2 box; other site 862964005514 G3 box; other site 862964005515 Switch II region; other site 862964005516 G4 box; other site 862964005517 G5 box; other site 862964005518 HMMPfam hit to PF01926, MMR_HSR1, score 2.6e-30 862964005519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 862964005520 HMMPfam hit to PF04393, DUF535, score 6.6e-151 862964005521 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 862964005522 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 862964005523 Walker A/P-loop; other site 862964005524 ATP binding site [chemical binding]; other site 862964005525 Q-loop/lid; other site 862964005526 ABC transporter signature motif; other site 862964005527 Walker B; other site 862964005528 D-loop; other site 862964005529 H-loop/switch region; other site 862964005530 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 862964005531 HMMPfam hit to PF08352, oligo_HPY, score 6.4e-29 862964005532 HMMPfam hit to PF00005, ABC_tran, score 3.7e-66 862964005533 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 862964005534 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 862964005535 Walker A/P-loop; other site 862964005536 ATP binding site [chemical binding]; other site 862964005537 Q-loop/lid; other site 862964005538 ABC transporter signature motif; other site 862964005539 Walker B; other site 862964005540 D-loop; other site 862964005541 H-loop/switch region; other site 862964005542 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 862964005543 HMMPfam hit to PF08352, oligo_HPY, score 9.1e-29 862964005544 HMMPfam hit to PF00005, ABC_tran, score 1.1e-60 862964005545 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 862964005546 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 862964005547 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 862964005548 dimer interface [polypeptide binding]; other site 862964005549 conserved gate region; other site 862964005550 ABC-ATPase subunit interface; other site 862964005551 HMMPfam hit to PF00528, BPD_transp_1, score 1.6e-42 862964005552 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 862964005553 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 862964005554 dimer interface [polypeptide binding]; other site 862964005555 conserved gate region; other site 862964005556 putative PBP binding loops; other site 862964005557 ABC-ATPase subunit interface; other site 862964005558 HMMPfam hit to PF00528, BPD_transp_1, score 4.8e-57 862964005559 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 862964005560 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 862964005561 peptide binding site [polypeptide binding]; other site 862964005562 HMMPfam hit to PF00496, SBP_bac_5, score 5.7e-80 862964005563 transaldolase-like protein; Provisional; Region: PTZ00411 862964005564 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 862964005565 active site 862964005566 dimer interface [polypeptide binding]; other site 862964005567 catalytic residue [active] 862964005568 HMMPfam hit to PF00923, Transaldolase, score 1.6e-174 862964005569 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 862964005570 Carbon starvation protein CstA; Region: CstA; pfam02554 862964005571 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 862964005572 HMMPfam hit to PF02554, CstA, score 1.3e-205 862964005573 mraZ protein; Region: TIGR00242 862964005574 MraZ protein; Region: MraZ; pfam02381 862964005575 MraZ protein; Region: MraZ; pfam02381 862964005576 HMMPfam hit to PF02381, MraZ, score 1.9e-29 862964005577 HMMPfam hit to PF02381, MraZ, score 4.6e-28 862964005578 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 862964005579 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 862964005580 HMMPfam hit to PF01795, Methyltransf_5, score 1.2e-191 862964005581 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 862964005582 HMMPfam hit to PF04999, FtsL, score 3.1e-60 862964005583 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 862964005584 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 862964005585 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 862964005586 HMMPfam hit to PF03717, PBP_dimer, score 2.4e-56 862964005587 HMMPfam hit to PF00905, Transpeptidase, score 4.6e-112 862964005588 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 862964005589 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 862964005590 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 862964005591 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 862964005592 HMMPfam hit to PF01225, Mur_ligase, score 5.7e-20 862964005593 HMMPfam hit to PF08245, Mur_ligase_M, score 1.5e-67 862964005594 HMMPfam hit to PF02875, Mur_ligase_C, score 5.2e-37 862964005595 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 862964005596 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 862964005597 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 862964005598 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 862964005599 HMMPfam hit to PF01225, Mur_ligase, score 5.7e-19 862964005600 HMMPfam hit to PF08245, Mur_ligase_M, score 1.7e-57 862964005601 HMMPfam hit to PF02875, Mur_ligase_C, score 8.3e-15 862964005602 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 862964005603 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 862964005604 Mg++ binding site [ion binding]; other site 862964005605 putative catalytic motif [active] 862964005606 putative substrate binding site [chemical binding]; other site 862964005607 HMMPfam hit to PF00953, Glycos_transf_4, score 1e-70 862964005608 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 862964005609 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 862964005610 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 862964005611 HMMPfam hit to PF08245, Mur_ligase_M, score 3.7e-58 862964005612 HMMPfam hit to PF02875, Mur_ligase_C, score 6.8e-14 862964005613 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 862964005614 HMMPfam hit to PF01098, FTSW_RODA_SPOVE, score 2.6e-191 862964005615 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 862964005616 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 862964005617 active site 862964005618 homodimer interface [polypeptide binding]; other site 862964005619 HMMPfam hit to PF03033, Glyco_transf_28, score 4.8e-54 862964005620 HMMPfam hit to PF04101, Glyco_tran_28_C, score 4.7e-57 862964005621 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 862964005622 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 862964005623 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 862964005624 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 862964005625 HMMPfam hit to PF01225, Mur_ligase, score 8.3e-46 862964005626 HMMPfam hit to PF08245, Mur_ligase_M, score 2.1e-33 862964005627 HMMPfam hit to PF02875, Mur_ligase_C, score 3.6e-27 862964005628 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 862964005629 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 862964005630 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 862964005631 HMMPfam hit to PF01820, Dala_Dala_lig_N, score 1.9e-57 862964005632 HMMPfam hit to PF07478, Dala_Dala_lig_C, score 1.8e-115 862964005633 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 862964005634 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 862964005635 Cell division protein FtsQ; Region: FtsQ; pfam03799 862964005636 HMMPfam hit to PF08478, POTRA_1, score 6.2e-23 862964005637 HMMPfam hit to PF03799, FtsQ, score 9e-31 862964005638 cell division protein FtsA; Region: ftsA; TIGR01174 862964005639 Cell division protein FtsA; Region: FtsA; smart00842 862964005640 Cell division protein FtsA; Region: FtsA; pfam14450 862964005641 HMMPfam hit to PF02491, FtsA, score 4.9e-70 862964005642 HMMPfam hit to PF02491, FtsA, score 2.5e-65 862964005643 cell division protein FtsZ; Validated; Region: PRK09330 862964005644 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 862964005645 nucleotide binding site [chemical binding]; other site 862964005646 SulA interaction site; other site 862964005647 HMMPfam hit to PF00091, Tubulin, score 2.7e-96 862964005648 HMMPfam hit to PF03953, Tubulin_C, score 1.5e-32 862964005649 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 862964005650 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 862964005651 HMMPfam hit to PF03331, LpxC, score 2.1e-193 862964005652 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 862964005653 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 862964005654 Prephenate dehydratase; Region: PDT; pfam00800 862964005655 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 862964005656 putative L-Phe binding site [chemical binding]; other site 862964005657 HMMPfam hit to PF01817, CM_2, score 8.8e-27 862964005658 HMMPfam hit to PF00800, PDT, score 5.8e-105 862964005659 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 862964005660 AAA domain; Region: AAA_22; pfam13401 862964005661 HMMPfam hit to PF03668, ATP_bind_2, score 1.4e-212 862964005662 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 862964005663 active site 862964005664 phosphorylation site [posttranslational modification] 862964005665 HMMPfam hit to PF00359, PTS_EIIA_2, score 8.6e-15 862964005666 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 862964005667 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 862964005668 Walker A/P-loop; other site 862964005669 ATP binding site [chemical binding]; other site 862964005670 Q-loop/lid; other site 862964005671 ABC transporter signature motif; other site 862964005672 Walker B; other site 862964005673 D-loop; other site 862964005674 H-loop/switch region; other site 862964005675 HMMPfam hit to PF00005, ABC_tran, score 1e-59 862964005676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 862964005677 OstA-like protein; Region: OstA; cl00844 862964005678 HMMPfam hit to PF03968, OstA, score 1.2e-55 862964005679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 862964005680 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 862964005681 HMMPfam hit to PF06835, DUF1239, score 1.4e-60 862964005682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 862964005683 HMMPfam hit to PF04751, DUF615, score 7.3e-129 862964005684 peptidase PmbA; Provisional; Region: PRK11040 862964005685 HMMPfam hit to PF01523, PmbA_TldD, score 1.2e-102 862964005686 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964005687 active site 862964005688 HMMPfam hit to PF00156, Pribosyltran, score 3.3e-37 862964005689 LysE type translocator; Region: LysE; cl00565 862964005690 HMMPfam hit to PF01810, LysE, score 2.9e-07 862964005691 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 862964005692 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 862964005693 HMMPfam hit to PF00375, SDF, score 3.4e-190 862964005694 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 862964005695 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 862964005696 FeS/SAM binding site; other site 862964005697 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 862964005698 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 862964005699 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 862964005700 Walker A/P-loop; other site 862964005701 ATP binding site [chemical binding]; other site 862964005702 Q-loop/lid; other site 862964005703 ABC transporter signature motif; other site 862964005704 Walker B; other site 862964005705 D-loop; other site 862964005706 H-loop/switch region; other site 862964005707 HMMPfam hit to PF00005, ABC_tran, score 8.1e-56 862964005708 HMMPfam hit to PF00664, ABC_membrane, score 1.2e-08 862964005709 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 862964005710 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 862964005711 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964005712 Walker A/P-loop; other site 862964005713 ATP binding site [chemical binding]; other site 862964005714 Q-loop/lid; other site 862964005715 ABC transporter signature motif; other site 862964005716 Walker B; other site 862964005717 D-loop; other site 862964005718 H-loop/switch region; other site 862964005719 HMMPfam hit to PF00005, ABC_tran, score 2.8e-61 862964005720 HMMPfam hit to PF00664, ABC_membrane, score 1.2e-45 862964005721 thioredoxin reductase; Provisional; Region: PRK10262 862964005722 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 862964005723 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 862964005724 HMMPfam hit to PF07992, Pyr_redox_2, score 1.5e-47 862964005725 HMMPfam hit to PF00070, Pyr_redox, score 1.1e-23 862964005726 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 862964005727 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 862964005728 HMMPfam hit to PF00085, Thioredoxin, score 1.8e-06 862964005729 ferrochelatase; Region: hemH; TIGR00109 862964005730 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 862964005731 C-terminal domain interface [polypeptide binding]; other site 862964005732 active site 862964005733 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 862964005734 active site 862964005735 N-terminal domain interface [polypeptide binding]; other site 862964005736 HMMPfam hit to PF00762, Ferrochelatase, score 1e-162 862964005737 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 862964005738 CoenzymeA binding site [chemical binding]; other site 862964005739 subunit interaction site [polypeptide binding]; other site 862964005740 PHB binding site; other site 862964005741 HMMPfam hit to PF03061, 4HBT, score 4.5e-22 862964005742 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 862964005743 FAD binding domain; Region: FAD_binding_4; pfam01565 862964005744 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 862964005745 HMMPfam hit to PF02913, FAD-oxidase_C, score 1.9e-64 862964005746 HMMPfam hit to PF01565, FAD_binding_4, score 9.1e-46 862964005747 outer membrane protein A; Reviewed; Region: PRK10808 862964005748 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 862964005749 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 862964005750 ligand binding site [chemical binding]; other site 862964005751 HMMPfam hit to PF01389, OmpA_membrane, score 6.5e-131 862964005752 HMMPfam hit to PF00691, OmpA, score 5.8e-45 862964005753 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 862964005754 putative GSH binding site [chemical binding]; other site 862964005755 catalytic residues [active] 862964005756 HMMPfam hit to PF00462, Glutaredoxin, score 2.6e-26 862964005757 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 862964005758 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 862964005759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964005760 homodimer interface [polypeptide binding]; other site 862964005761 catalytic residue [active] 862964005762 HMMPfam hit to PF00155, Aminotran_1_2, score 2.4e-58 862964005763 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 862964005764 homodimer interface [polypeptide binding]; other site 862964005765 substrate-cofactor binding pocket; other site 862964005766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964005767 catalytic residue [active] 862964005768 HMMPfam hit to PF00266, Aminotran_5, score 9.9e-91 862964005769 hypothetical protein; Provisional; Region: PRK05423 862964005770 HMMPfam hit to PF04363, DUF496, score 7.4e-64 862964005771 hypothetical protein; Provisional; Region: PRK07101 862964005772 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 862964005773 substrate-cofactor binding pocket; other site 862964005774 para-aminobenzoate synthase component I; Validated; Region: PRK07093 862964005775 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 862964005776 HMMPfam hit to PF00425, Chorismate_bind, score 3.8e-18 862964005777 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 862964005778 Glutamine amidotransferase class-I; Region: GATase; pfam00117 862964005779 glutamine binding [chemical binding]; other site 862964005780 catalytic triad [active] 862964005781 HMMPfam hit to PF00117, GATase, score 4.4e-56 862964005782 S-adenosylmethionine synthetase; Validated; Region: PRK05250 862964005783 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 862964005784 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 862964005785 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 862964005786 HMMPfam hit to PF00438, S-AdoMet_synt_N, score 1.1e-60 862964005787 HMMPfam hit to PF02772, S-AdoMet_synt_M, score 7.1e-86 862964005788 HMMPfam hit to PF02773, S-AdoMet_synt_C, score 4e-98 862964005789 hypothetical protein; Provisional; Region: PRK04860 862964005790 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 862964005791 HMMPfam hit to PF03926, DUF335, score 2.5e-103 862964005792 Opacity family porin protein; Region: Opacity; pfam02462 862964005793 HMMPfam hit to PF02462, Opacity, score 3.9e-73 862964005794 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 862964005795 dimer interface [polypeptide binding]; other site 862964005796 conserved gate region; other site 862964005797 putative PBP binding loops; other site 862964005798 ABC-ATPase subunit interface; other site 862964005799 HMMPfam hit to PF00528, BPD_transp_1, score 2.2e-14 862964005800 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 862964005801 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 862964005802 dimer interface [polypeptide binding]; other site 862964005803 conserved gate region; other site 862964005804 putative PBP binding loops; other site 862964005805 ABC-ATPase subunit interface; other site 862964005806 HMMPfam hit to PF00528, BPD_transp_1, score 4.3e-17 862964005807 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 862964005808 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 862964005809 substrate binding pocket [chemical binding]; other site 862964005810 membrane-bound complex binding site; other site 862964005811 hinge residues; other site 862964005812 HMMPfam hit to PF00497, SBP_bac_3, score 8.2e-80 862964005813 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 862964005814 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964005815 Walker A/P-loop; other site 862964005816 ATP binding site [chemical binding]; other site 862964005817 Q-loop/lid; other site 862964005818 ABC transporter signature motif; other site 862964005819 Walker B; other site 862964005820 D-loop; other site 862964005821 H-loop/switch region; other site 862964005822 HMMPfam hit to PF00005, ABC_tran, score 7e-70 862964005823 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 862964005824 dimer interface [polypeptide binding]; other site 862964005825 active site 862964005826 HMMPfam hit to PF01380, SIS, score 4.4e-07 862964005827 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 862964005828 active site 862964005829 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK07636 862964005830 DNA binding site [nucleotide binding] 862964005831 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 862964005832 DNA binding site [nucleotide binding] 862964005833 HMMPfam hit to PF01068, DNA_ligase_A_M, score 2.8e-33 862964005834 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 862964005835 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 862964005836 Walker A/P-loop; other site 862964005837 ATP binding site [chemical binding]; other site 862964005838 Q-loop/lid; other site 862964005839 ABC transporter signature motif; other site 862964005840 Walker B; other site 862964005841 D-loop; other site 862964005842 H-loop/switch region; other site 862964005843 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 862964005844 HMMPfam hit to PF08352, oligo_HPY, score 3.4e-35 862964005845 HMMPfam hit to PF00005, ABC_tran, score 9.8e-61 862964005846 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 862964005847 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 862964005848 Walker A/P-loop; other site 862964005849 ATP binding site [chemical binding]; other site 862964005850 Q-loop/lid; other site 862964005851 ABC transporter signature motif; other site 862964005852 Walker B; other site 862964005853 D-loop; other site 862964005854 H-loop/switch region; other site 862964005855 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 862964005856 HMMPfam hit to PF08352, oligo_HPY, score 2.4e-26 862964005857 HMMPfam hit to PF00005, ABC_tran, score 3.9e-53 862964005858 dipeptide transporter; Provisional; Region: PRK10913 862964005859 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 862964005860 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 862964005861 dimer interface [polypeptide binding]; other site 862964005862 conserved gate region; other site 862964005863 putative PBP binding loops; other site 862964005864 ABC-ATPase subunit interface; other site 862964005865 HMMPfam hit to PF00528, BPD_transp_1, score 1.4e-45 862964005866 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 862964005867 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 862964005868 dimer interface [polypeptide binding]; other site 862964005869 conserved gate region; other site 862964005870 putative PBP binding loops; other site 862964005871 ABC-ATPase subunit interface; other site 862964005872 HMMPfam hit to PF00528, BPD_transp_1, score 4.8e-51 862964005873 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 862964005874 Part of AAA domain; Region: AAA_19; pfam13245 862964005875 Family description; Region: UvrD_C_2; pfam13538 862964005876 HMMPfam hit to PF00580, UvrD-helicase, score 1.6e-236 862964005877 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 862964005878 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 862964005879 FeS/SAM binding site; other site 862964005880 HMMPfam hit to PF04055, Radical_SAM, score 1.1e-13 862964005881 6-pyruvoyl tetrahydropterin synthase/QueD family protein; Region: 6PTHBS; TIGR00039 862964005882 active site 862964005883 HMMPfam hit to PF01242, PTPS, score 7e-06 862964005884 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 862964005885 Ligand Binding Site [chemical binding]; other site 862964005886 HMMPfam hit to PF06508, ExsB, score 6.3e-105 862964005887 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 862964005888 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 862964005889 non-specific DNA binding site [nucleotide binding]; other site 862964005890 salt bridge; other site 862964005891 sequence-specific DNA binding site [nucleotide binding]; other site 862964005892 HMMPfam hit to PF01381, HTH_3, score 4.4e-15 862964005893 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 862964005894 HMMPfam hit to PF01298, Lipoprotein_5, score 3e-11 862964005895 Protein of unknown function (DUF560); Region: DUF560; pfam04575 862964005896 HMMPfam hit to PF04575, DUF560, score 7.5e-07 862964005897 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 862964005898 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 862964005899 homodimer interface [polypeptide binding]; other site 862964005900 substrate-cofactor binding pocket; other site 862964005901 catalytic residue [active] 862964005902 HMMPfam hit to PF01063, Aminotran_4, score 3.4e-134 862964005903 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 862964005904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 862964005905 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 862964005906 dimerization interface [polypeptide binding]; other site 862964005907 substrate binding pocket [chemical binding]; other site 862964005908 HMMPfam hit to PF00126, HTH_1, score 1.9e-18 862964005909 HMMPfam hit to PF03466, LysR_substrate, score 6.9e-34 862964005910 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 862964005911 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 862964005912 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 862964005913 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 862964005914 CoA-ligase; Region: Ligase_CoA; pfam00549 862964005915 HMMPfam hit to PF08442, ATP-grasp_2, score 6.5e-136 862964005916 HMMPfam hit to PF00549, Ligase_CoA, score 9.1e-71 862964005917 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 862964005918 CoA binding domain; Region: CoA_binding; pfam02629 862964005919 CoA-ligase; Region: Ligase_CoA; pfam00549 862964005920 HMMPfam hit to PF02629, CoA_binding, score 2.4e-51 862964005921 HMMPfam hit to PF00549, Ligase_CoA, score 4.6e-60 862964005922 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 862964005923 HMMPfam hit to PF01300, Sua5_yciO_yrdC, score 2.9e-78 862964005924 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 862964005925 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 862964005926 RNA binding surface [nucleotide binding]; other site 862964005927 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 862964005928 probable active site [active] 862964005929 HMMPfam hit to PF01479, S4, score 1.5e-06 862964005930 HMMPfam hit to PF00849, PseudoU_synth_2, score 2.8e-11 862964005931 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 862964005932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 862964005933 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 862964005934 substrate binding site [chemical binding]; other site 862964005935 dimerization interface [polypeptide binding]; other site 862964005936 HMMPfam hit to PF00126, HTH_1, score 4e-16 862964005937 HMMPfam hit to PF03466, LysR_substrate, score 4.3e-43 862964005938 HemK family putative methylases; Region: hemK_fam; TIGR00536 862964005939 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 862964005940 S-adenosylmethionine binding site [chemical binding]; other site 862964005941 HMMPfam hit to PF05175, MTS, score 2.3e-10 862964005942 hypothetical protein; Provisional; Region: PRK04946 862964005943 Smr domain; Region: Smr; pfam01713 862964005944 HMMPfam hit to PF01713, Smr, score 1e-25 862964005945 phosphate acetyltransferase; Reviewed; Region: PRK05632 862964005946 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 862964005947 DRTGG domain; Region: DRTGG; pfam07085 862964005948 phosphate acetyltransferase; Region: pta; TIGR00651 862964005949 HMMPfam hit to PF01515, PTA_PTB, score 6.3e-185 862964005950 HMMPfam hit to PF07085, DRTGG, score 1.4e-48 862964005951 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 862964005952 propionate/acetate kinase; Provisional; Region: PRK12379 862964005953 HMMPfam hit to PF00871, Acetate_kinase, score 4.8e-261 862964005954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3092 862964005955 HMMPfam hit to PF04217, DUF412, score 3.2e-113 862964005956 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 862964005957 Colicin V production protein; Region: Colicin_V; cl00567 862964005958 HMMPfam hit to PF02674, Colicin_V, score 1.4e-59 862964005959 amidophosphoribosyltransferase; Provisional; Region: PRK09246 862964005960 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 862964005961 active site 862964005962 tetramer interface [polypeptide binding]; other site 862964005963 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964005964 active site 862964005965 HMMPfam hit to PF00310, GATase_2, score 1.2e-63 862964005966 HMMPfam hit to PF00156, Pribosyltran, score 1.3e-10 862964005967 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 862964005968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 862964005969 NAD(P) binding site [chemical binding]; other site 862964005970 active site 862964005971 HMMPfam hit to PF08338, DUF1731, score 6.1e-24 862964005972 HMMPfam hit to PF01370, Epimerase, score 3e-11 862964005973 arginine repressor; Provisional; Region: PRK05066 862964005974 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 862964005975 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 862964005976 HMMPfam hit to PF02863, Arg_repressor_C, score 4.7e-27 862964005977 HMMPfam hit to PF01316, Arg_repressor, score 1.1e-21 862964005978 malate dehydrogenase; Provisional; Region: PRK05086 862964005979 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 862964005980 NAD binding site [chemical binding]; other site 862964005981 dimerization interface [polypeptide binding]; other site 862964005982 Substrate binding site [chemical binding]; other site 862964005983 HMMPfam hit to PF00056, Ldh_1_N, score 1.5e-68 862964005984 HMMPfam hit to PF02866, Ldh_1_C, score 1.3e-70 862964005985 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 862964005986 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 862964005987 dimer interface [polypeptide binding]; other site 862964005988 putative anticodon binding site; other site 862964005989 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 862964005990 motif 1; other site 862964005991 active site 862964005992 motif 2; other site 862964005993 motif 3; other site 862964005994 HMMPfam hit to PF00152, tRNA-synt_2, score 2.9e-127 862964005995 HMMPfam hit to PF01336, tRNA_anti, score 2.3e-20 862964005996 peptide chain release factor 2; Provisional; Region: PRK08787 862964005997 This domain is found in peptide chain release factors; Region: PCRF; smart00937 862964005998 RF-1 domain; Region: RF-1; pfam00472 862964005999 HMMPfam hit to PF00472, RF-1, score 7.8e-74 862964006000 HMMPfam hit to PF03462, PCRF, score 2.4e-61 862964006001 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 862964006002 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 862964006003 dimerization domain [polypeptide binding]; other site 862964006004 dimer interface [polypeptide binding]; other site 862964006005 catalytic residues [active] 862964006006 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 862964006007 DHH family; Region: DHH; pfam01368 862964006008 DHHA1 domain; Region: DHHA1; pfam02272 862964006009 HMMPfam hit to PF01368, DHH, score 6.5e-54 862964006010 HMMPfam hit to PF02272, DHHA1, score 8.4e-16 862964006011 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 862964006012 catalytic residues [active] 862964006013 hinge region; other site 862964006014 alpha helical domain; other site 862964006015 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 862964006016 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 862964006017 HMMPfam hit to PF01048, PNP_UDP_1, score 6.9e-103 862964006018 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 862964006019 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 862964006020 HMMPfam hit to PF00593, TonB_dep_Rec, score 6.9e-22 862964006021 HMMPfam hit to PF07715, Plug, score 7.1e-14 862964006022 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 862964006023 L-lactate transport; Region: lctP; TIGR00795 862964006024 HMMPfam hit to PF02652, Lactate_perm, score 3.2e-286 862964006025 cytidylate kinase; Provisional; Region: cmk; PRK00023 862964006026 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 862964006027 CMP-binding site; other site 862964006028 The sites determining sugar specificity; other site 862964006029 HMMPfam hit to PF02224, Cytidylate_kin, score 2.2e-89 862964006030 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 862964006031 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 862964006032 RNA binding site [nucleotide binding]; other site 862964006033 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 862964006034 RNA binding site [nucleotide binding]; other site 862964006035 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 862964006036 RNA binding site [nucleotide binding]; other site 862964006037 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 862964006038 RNA binding site [nucleotide binding]; other site 862964006039 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 862964006040 RNA binding site [nucleotide binding]; other site 862964006041 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 862964006042 RNA binding site [nucleotide binding]; other site 862964006043 HMMPfam hit to PF00575, S1, score 5.4e-10 862964006044 HMMPfam hit to PF00575, S1, score 7.2e-14 862964006045 HMMPfam hit to PF00575, S1, score 2.1e-29 862964006046 HMMPfam hit to PF00575, S1, score 8e-29 862964006047 HMMPfam hit to PF00575, S1, score 1.2e-23 862964006048 HMMPfam hit to PF00575, S1, score 2.5e-05 862964006049 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 862964006050 IHF dimer interface [polypeptide binding]; other site 862964006051 IHF - DNA interface [nucleotide binding]; other site 862964006052 HMMPfam hit to PF00216, Bac_DNA_binding, score 4.2e-44 862964006053 Predicted membrane protein [Function unknown]; Region: COG3771 862964006054 HMMPfam hit to PF06305, DUF1049, score 5.3e-53 862964006055 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 862964006056 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 862964006057 binding surface 862964006058 TPR motif; other site 862964006059 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 862964006060 HMMPfam hit to PF00515, TPR_1, score 0.51 862964006061 HMMPfam hit to PF00515, TPR_1, score 0.00084 862964006062 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 862964006063 active site 862964006064 dimer interface [polypeptide binding]; other site 862964006065 HMMPfam hit to PF00215, OMPdecase, score 1.1e-88 862964006066 translation initiation factor Sui1; Validated; Region: PRK06824 862964006067 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 862964006068 putative rRNA binding site [nucleotide binding]; other site 862964006069 HMMPfam hit to PF01253, SUI1, score 3.8e-35 862964006070 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 862964006071 DNA replication initiation factor; Validated; Region: PRK06893 862964006072 HMMPfam hit to PF00308, Bac_DnaA, score 2e-06 862964006073 uracil-xanthine permease; Region: ncs2; TIGR00801 862964006074 HMMPfam hit to PF00860, Xan_ur_permease, score 7.8e-150 862964006075 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964006076 active site 862964006077 HMMPfam hit to PF00156, Pribosyltran, score 1.9e-16 862964006078 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 862964006079 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 862964006080 Walker A motif; other site 862964006081 ATP binding site [chemical binding]; other site 862964006082 Walker B motif; other site 862964006083 DNA polymerase III subunit delta'; Validated; Region: PRK08485 862964006084 arginine finger; other site 862964006085 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 862964006086 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 862964006087 HMMPfam hit to PF00004, AAA, score 1.6e-09 862964006088 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964006089 active site 862964006090 HMMPfam hit to PF00156, Pribosyltran, score 2.2e-50 862964006091 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 862964006092 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 862964006093 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 862964006094 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 862964006095 HMMPfam hit to PF02852, Pyr_redox_dim, score 5.3e-51 862964006096 HMMPfam hit to PF07992, Pyr_redox_2, score 5.4e-71 862964006097 HMMPfam hit to PF00070, Pyr_redox, score 3e-25 862964006098 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 862964006099 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 862964006100 E3 interaction surface; other site 862964006101 lipoyl attachment site [posttranslational modification]; other site 862964006102 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 862964006103 E3 interaction surface; other site 862964006104 lipoyl attachment site [posttranslational modification]; other site 862964006105 e3 binding domain; Region: E3_binding; pfam02817 862964006106 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 862964006107 HMMPfam hit to PF00198, 2-oxoacid_dh, score 4.1e-118 862964006108 HMMPfam hit to PF02817, E3_binding, score 2.8e-18 862964006109 HMMPfam hit to PF00364, Biotin_lipoyl, score 2.4e-27 862964006110 HMMPfam hit to PF00364, Biotin_lipoyl, score 2.7e-28 862964006111 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 862964006112 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 862964006113 dimer interface [polypeptide binding]; other site 862964006114 TPP-binding site [chemical binding]; other site 862964006115 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 862964006116 active site 862964006117 dimer interfaces [polypeptide binding]; other site 862964006118 catalytic residues [active] 862964006119 HMMPfam hit to PF02142, MGS, score 3e-25 862964006120 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 862964006121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 862964006122 HMMPfam hit to PF06097, DUF945, score 6.8e-23 862964006123 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 862964006124 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 862964006125 nucleotide binding site [chemical binding]; other site 862964006126 HMMPfam hit to PF00012, HSP70, score 0 862964006127 chaperone protein DnaJ; Provisional; Region: PRK10767 862964006128 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 862964006129 HSP70 interaction site [polypeptide binding]; other site 862964006130 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 862964006131 substrate binding site [polypeptide binding]; other site 862964006132 dimer interface [polypeptide binding]; other site 862964006133 HMMPfam hit to PF00226, DnaJ, score 1.2e-39 862964006134 HMMPfam hit to PF00684, DnaJ_CXXCXGXG, score 2e-45 862964006135 HMMPfam hit to PF01556, DnaJ_C, score 1.8e-82 862964006136 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 862964006137 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 862964006138 putative catalytic cysteine [active] 862964006139 Predicted membrane protein [Function unknown]; Region: COG2860 862964006140 UPF0126 domain; Region: UPF0126; pfam03458 862964006141 UPF0126 domain; Region: UPF0126; pfam03458 862964006142 HMMPfam hit to PF03458, UPF0126, score 1e-37 862964006143 HMMPfam hit to PF03458, UPF0126, score 1.8e-37 862964006144 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 862964006145 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 862964006146 putative substrate translocation pore; other site 862964006147 HMMPfam hit to PF07690, MFS_1, score 7.4e-52 862964006148 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 862964006149 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 862964006150 RNA binding surface [nucleotide binding]; other site 862964006151 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 862964006152 active site 862964006153 uracil binding [chemical binding]; other site 862964006154 HMMPfam hit to PF00849, PseudoU_synth_2, score 1.2e-24 862964006155 HMMPfam hit to PF01479, S4, score 1e-11 862964006156 Exopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3955 862964006157 HMMPfam hit to PF08942, DUF1919, score 6.3e-121 862964006158 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 862964006159 Malic enzyme, N-terminal domain; Region: malic; pfam00390 862964006160 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 862964006161 putative NAD(P) binding site [chemical binding]; other site 862964006162 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 862964006163 HMMPfam hit to PF00390, malic, score 1.3e-76 862964006164 HMMPfam hit to PF03949, Malic_M, score 2.9e-133 862964006165 HMMPfam hit to PF01515, PTA_PTB, score 3.3e-168 862964006166 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 862964006167 Sulfatase; Region: Sulfatase; pfam00884 862964006168 HMMPfam hit to PF00884, Sulfatase, score 1.8e-75 862964006169 excinuclease ABC subunit B; Provisional; Region: PRK05298 862964006170 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 862964006171 ATP binding site [chemical binding]; other site 862964006172 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 862964006173 nucleotide binding region [chemical binding]; other site 862964006174 ATP-binding site [chemical binding]; other site 862964006175 Ultra-violet resistance protein B; Region: UvrB; pfam12344 862964006176 UvrB/uvrC motif; Region: UVR; pfam02151 862964006177 HMMPfam hit to PF02151, UVR, score 3e-13 862964006178 HMMPfam hit to PF00271, Helicase_C, score 1.8e-22 862964006179 HMMPfam hit to PF04851, ResIII, score 1.9e-07 862964006180 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 862964006181 HMMPfam hit to PF03824, NicO, score 5.3e-56 862964006182 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 862964006183 HMMPfam hit to PF06226, DUF1007, score 1.9e-125 862964006184 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 862964006185 HMMPfam hit to PF05015, Plasmid_killer, score 1.3e-55 862964006186 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 862964006187 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 862964006188 non-specific DNA binding site [nucleotide binding]; other site 862964006189 salt bridge; other site 862964006190 sequence-specific DNA binding site [nucleotide binding]; other site 862964006191 HMMPfam hit to PF01381, HTH_3, score 2.1e-09 862964006192 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 862964006193 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 862964006194 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 862964006195 ABC transporter; Region: ABC_tran_2; pfam12848 862964006196 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 862964006197 HMMPfam hit to PF00005, ABC_tran, score 2.8e-60 862964006198 HMMPfam hit to PF00005, ABC_tran, score 8.6e-53 862964006199 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 862964006200 HMMPfam hit to PF04247, SirB, score 6.4e-60 862964006201 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 862964006202 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 862964006203 Helicase; Region: Helicase_RecD; pfam05127 862964006204 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 862964006205 Coenzyme A binding pocket [chemical binding]; other site 862964006206 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 862964006207 HMMPfam hit to PF05127, DUF699, score 2.6e-73 862964006208 HMMPfam hit to PF00583, Acetyltransf_1, score 0.00014 862964006209 transcription-repair coupling factor; Provisional; Region: PRK10689 862964006210 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 862964006211 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 862964006212 ATP binding site [chemical binding]; other site 862964006213 putative Mg++ binding site [ion binding]; other site 862964006214 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 862964006215 nucleotide binding region [chemical binding]; other site 862964006216 ATP-binding site [chemical binding]; other site 862964006217 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 862964006218 HMMPfam hit to PF02559, CarD_TRCF, score 6.1e-48 862964006219 HMMPfam hit to PF00270, DEAD, score 2e-44 862964006220 HMMPfam hit to PF00271, Helicase_C, score 7.6e-20 862964006221 HMMPfam hit to PF03461, TRCF, score 5.6e-56 862964006222 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 862964006223 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 862964006224 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 862964006225 protein binding site [polypeptide binding]; other site 862964006226 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 862964006227 HMMPfam hit to PF00595, PDZ, score 5.8e-18 862964006228 HMMPfam hit to PF00595, PDZ, score 6.8e-24 862964006229 HMMPfam hit to PF00089, Trypsin, score 4.6e-34 862964006230 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 862964006231 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 862964006232 HMMPfam hit to PF01039, Carboxyl_trans, score 3.1e-08 862964006233 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 862964006234 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 862964006235 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 862964006236 HMMPfam hit to PF08245, Mur_ligase_M, score 3.6e-07 862964006237 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 862964006238 putative active site [active] 862964006239 HMMPfam hit to PF02698, DUF218, score 3e-37 862964006240 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 862964006241 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 862964006242 HMMPfam hit to PF00561, Abhydrolase_1, score 1.1e-35 862964006243 DNA gyrase subunit A; Validated; Region: PRK05560 862964006244 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 862964006245 CAP-like domain; other site 862964006246 active site 862964006247 primary dimer interface [polypeptide binding]; other site 862964006248 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 862964006249 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 862964006250 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 862964006251 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 862964006252 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 862964006253 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 862964006254 HMMPfam hit to PF03989, DNA_gyraseA_C, score 1.6e-15 862964006255 HMMPfam hit to PF03989, DNA_gyraseA_C, score 8e-16 862964006256 HMMPfam hit to PF03989, DNA_gyraseA_C, score 1.1e-08 862964006257 HMMPfam hit to PF03989, DNA_gyraseA_C, score 1.4e-11 862964006258 HMMPfam hit to PF03989, DNA_gyraseA_C, score 8.1e-15 862964006259 HMMPfam hit to PF03989, DNA_gyraseA_C, score 1.8e-13 862964006260 HMMPfam hit to PF00521, DNA_topoisoIV, score 0 862964006261 uncharacterized domain; Region: TIGR00702 862964006262 YcaO-like family; Region: YcaO; pfam02624 862964006263 HMMPfam hit to PF02624, YcaO, score 1.6e-159 862964006264 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 862964006265 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 862964006266 putative metal binding site [ion binding]; other site 862964006267 HMMPfam hit to PF01497, Peripla_BP_2, score 3.5e-11 862964006268 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 862964006269 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 862964006270 ABC-ATPase subunit interface; other site 862964006271 dimer interface [polypeptide binding]; other site 862964006272 putative PBP binding regions; other site 862964006273 HMMPfam hit to PF01032, FecCD, score 8e-109 862964006274 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 862964006275 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 862964006276 Walker A/P-loop; other site 862964006277 ATP binding site [chemical binding]; other site 862964006278 Q-loop/lid; other site 862964006279 ABC transporter signature motif; other site 862964006280 Walker B; other site 862964006281 D-loop; other site 862964006282 H-loop/switch region; other site 862964006283 HMMPfam hit to PF00005, ABC_tran, score 2.2e-49 862964006284 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 862964006285 S-adenosylmethionine binding site [chemical binding]; other site 862964006286 HMMPfam hit to PF08242, Methyltransf_12, score 1.7e-06 862964006287 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 862964006288 HMMPfam hit to PF00753, Lactamase_B, score 2e-28 862964006289 tellurite resistance protein TehB; Provisional; Region: PRK12335 862964006290 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 862964006291 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 862964006292 S-adenosylmethionine binding site [chemical binding]; other site 862964006293 HMMPfam hit to PF03848, TehB, score 2.7e-169 862964006294 HMMPfam hit to PF09313, DUF1971, score 3.7e-51 862964006295 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 862964006296 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 862964006297 active site 862964006298 HIGH motif; other site 862964006299 KMSKS motif; other site 862964006300 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 862964006301 tRNA binding surface [nucleotide binding]; other site 862964006302 anticodon binding site; other site 862964006303 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 862964006304 dimer interface [polypeptide binding]; other site 862964006305 putative tRNA-binding site [nucleotide binding]; other site 862964006306 HMMPfam hit to PF01588, tRNA_bind, score 1.4e-40 862964006307 HMMPfam hit to PF09334, tRNA-synt_1g, score 1.8e-240 862964006308 antiporter inner membrane protein; Provisional; Region: PRK11670 862964006309 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 862964006310 Walker A motif; other site 862964006311 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 862964006312 dimer interface [polypeptide binding]; other site 862964006313 FMN binding site [chemical binding]; other site 862964006314 HMMPfam hit to PF00881, Nitroreductase, score 6.4e-77 862964006315 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 862964006316 ligand binding site; other site 862964006317 tetramer interface; other site 862964006318 HMMPfam hit to PF02348, CTP_transf_3, score 3e-66 862964006319 Integrase core domain; Region: rve; pfam00665 862964006320 ribosome maturation protein RimP; Reviewed; Region: PRK00092 862964006321 Sm and related proteins; Region: Sm_like; cl00259 862964006322 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 862964006323 putative oligomer interface [polypeptide binding]; other site 862964006324 putative RNA binding site [nucleotide binding]; other site 862964006325 HMMPfam hit to PF02576, DUF150, score 5.4e-71 862964006326 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 862964006327 NusA N-terminal domain; Region: NusA_N; pfam08529 862964006328 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 862964006329 RNA binding site [nucleotide binding]; other site 862964006330 homodimer interface [polypeptide binding]; other site 862964006331 NusA-like KH domain; Region: KH_5; pfam13184 862964006332 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 862964006333 G-X-X-G motif; other site 862964006334 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 862964006335 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 862964006336 HMMPfam hit to PF08529, NusA_N, score 4.3e-64 862964006337 HMMPfam hit to PF00575, S1, score 4.3e-11 862964006338 translation initiation factor IF-2; Region: IF-2; TIGR00487 862964006339 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 862964006340 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 862964006341 G1 box; other site 862964006342 putative GEF interaction site [polypeptide binding]; other site 862964006343 GTP/Mg2+ binding site [chemical binding]; other site 862964006344 Switch I region; other site 862964006345 G2 box; other site 862964006346 G3 box; other site 862964006347 Switch II region; other site 862964006348 G4 box; other site 862964006349 G5 box; other site 862964006350 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 862964006351 Translation-initiation factor 2; Region: IF-2; pfam11987 862964006352 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 862964006353 HMMPfam hit to PF08364, IF2_assoc, score 3.6e-14 862964006354 HMMPfam hit to PF04760, IF2_N, score 4e-23 862964006355 HMMPfam hit to PF00009, GTP_EFTU, score 1e-53 862964006356 HMMPfam hit to PF03144, GTP_EFTU_D2, score 1.3e-15 862964006357 HMMPfam hit to PF03144, GTP_EFTU_D2, score 3.4e-10 862964006358 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 862964006359 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 862964006360 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 862964006361 ATP binding site [chemical binding]; other site 862964006362 putative Mg++ binding site [ion binding]; other site 862964006363 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 862964006364 HMMPfam hit to PF04851, ResIII, score 2e-11 862964006365 HMMPfam hit to PF04313, HSDR_N, score 6e-71 862964006366 FRG domain; Region: FRG; pfam08867 862964006367 HMMPfam hit to PF08867, FRG, score 1.5e-20 862964006368 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 862964006369 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 862964006370 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 862964006371 HMMPfam hit to PF01420, Methylase_S, score 1.5e-07 862964006372 HMMPfam hit to PF01420, Methylase_S, score 3.5e-40 862964006373 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 862964006374 Methyltransferase domain; Region: Methyltransf_26; pfam13659 862964006375 HMMPfam hit to PF02384, N6_Mtase, score 2.9e-179 862964006376 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 862964006377 HMMPfam hit to PF02033, RBFA, score 4e-65 862964006378 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 862964006379 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 862964006380 RNA binding site [nucleotide binding]; other site 862964006381 active site 862964006382 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 862964006383 HMMPfam hit to PF01509, TruB_N, score 7.1e-87 862964006384 HMMPfam hit to PF09157, TruB-C_2, score 9.2e-19 862964006385 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 862964006386 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 862964006387 prephenate dehydrogenase; Validated; Region: PRK08507 862964006388 HMMPfam hit to PF01817, CM_2, score 1.1e-31 862964006389 HMMPfam hit to PF02153, PDH, score 2.9e-21 862964006390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 862964006391 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 862964006392 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 862964006393 HMMPfam hit to PF01227, GTP_cyclohydroI, score 7.2e-12 862964006394 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]; Region: COG5595 862964006395 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 862964006396 HMMPfam hit to PF02657, SufE, score 2.4e-70 862964006397 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 862964006398 Aminotransferase class-V; Region: Aminotran_5; pfam00266 862964006399 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 862964006400 catalytic residue [active] 862964006401 HMMPfam hit to PF00266, Aminotran_5, score 4.1e-188 862964006402 Staphylococcal nuclease homologues; Region: SNc; smart00318 862964006403 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 862964006404 Catalytic site; other site 862964006405 HMMPfam hit to PF00565, SNase, score 6.4e-60 862964006406 hypothetical protein; Provisional; Region: PRK01821 862964006407 HMMPfam hit to PF03788, LrgA, score 6e-52 862964006408 TIGR00659 family protein; Region: TIGR00659 862964006409 HMMPfam hit to PF04172, LrgB, score 2.2e-104 862964006410 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 862964006411 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 862964006412 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 862964006413 ABC transporter ATPase component; Reviewed; Region: PRK11147 862964006414 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 862964006415 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 862964006416 ABC transporter; Region: ABC_tran_2; pfam12848 862964006417 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 862964006418 HMMPfam hit to PF00005, ABC_tran, score 3.2e-51 862964006419 HMMPfam hit to PF00005, ABC_tran, score 1.2e-47 862964006420 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_cladeA; cd00883 862964006421 active site clefts [active] 862964006422 zinc binding site [ion binding]; other site 862964006423 dimer interface [polypeptide binding]; other site 862964006424 HMMPfam hit to PF00484, Pro_CA, score 5.5e-86 862964006425 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 862964006426 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 862964006427 putative anticodon binding site; other site 862964006428 putative dimer interface [polypeptide binding]; other site 862964006429 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 862964006430 homodimer interface [polypeptide binding]; other site 862964006431 motif 1; other site 862964006432 motif 2; other site 862964006433 active site 862964006434 motif 3; other site 862964006435 HMMPfam hit to PF00152, tRNA-synt_2, score 6.8e-81 862964006436 HMMPfam hit to PF01336, tRNA_anti, score 3.3e-18 862964006437 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 862964006438 homopentamer interface [polypeptide binding]; other site 862964006439 active site 862964006440 HMMPfam hit to PF00885, DMRL_synthase, score 2.4e-84 862964006441 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 862964006442 putative RNA binding site [nucleotide binding]; other site 862964006443 HMMPfam hit to PF01029, NusB, score 2.1e-52 862964006444 thiamine-monophosphate kinase; Region: thiL; TIGR01379 862964006445 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 862964006446 ATP binding site [chemical binding]; other site 862964006447 dimerization interface [polypeptide binding]; other site 862964006448 HMMPfam hit to PF02769, AIRS_C, score 0.00025 862964006449 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 862964006450 tetramer interfaces [polypeptide binding]; other site 862964006451 binuclear metal-binding site [ion binding]; other site 862964006452 HMMPfam hit to PF04608, PgpA, score 2.4e-72 862964006453 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 862964006454 HMMPfam hit to PF01810, LysE, score 9.2e-76 862964006455 dihydrodipicolinate reductase; Region: dapB; TIGR00036 862964006456 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 862964006457 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 862964006458 HMMPfam hit to PF01113, DapB_N, score 3e-68 862964006459 HMMPfam hit to PF05173, DapB_C, score 6.8e-80 862964006460 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 862964006461 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 862964006462 catalytic loop [active] 862964006463 iron binding site [ion binding]; other site 862964006464 HMMPfam hit to PF00111, Fer2, score 1.7e-15 862964006465 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 862964006466 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 862964006467 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 862964006468 dimer interface [polypeptide binding]; other site 862964006469 motif 1; other site 862964006470 active site 862964006471 motif 2; other site 862964006472 motif 3; other site 862964006473 HMMPfam hit to PF02912, Phe_tRNA-synt_N, score 5.5e-34 862964006474 HMMPfam hit to PF01409, tRNA-synt_2d, score 1.2e-158 862964006475 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 862964006476 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 862964006477 putative tRNA-binding site [nucleotide binding]; other site 862964006478 B3/4 domain; Region: B3_4; pfam03483 862964006479 tRNA synthetase B5 domain; Region: B5; smart00874 862964006480 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 862964006481 dimer interface [polypeptide binding]; other site 862964006482 motif 1; other site 862964006483 motif 3; other site 862964006484 motif 2; other site 862964006485 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 862964006486 HMMPfam hit to PF01588, tRNA_bind, score 2.1e-39 862964006487 HMMPfam hit to PF03483, B3_4, score 1.1e-108 862964006488 HMMPfam hit to PF03484, B5, score 1.8e-32 862964006489 HMMPfam hit to PF03147, FDX-ACB, score 2.6e-50 862964006490 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 862964006491 IHF dimer interface [polypeptide binding]; other site 862964006492 IHF - DNA interface [nucleotide binding]; other site 862964006493 HMMPfam hit to PF00216, Bac_DNA_binding, score 3.4e-44 862964006494 NlpC/P60 family; Region: NLPC_P60; pfam00877 862964006495 HMMPfam hit to PF00877, NLPC_P60, score 4.8e-53 862964006496 Predicted transcriptional regulator [Transcription]; Region: COG2378 862964006497 WYL domain; Region: WYL; pfam13280 862964006498 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 862964006499 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 862964006500 NAD-dependent deacetylase; Provisional; Region: PRK00481 862964006501 NAD+ binding site [chemical binding]; other site 862964006502 substrate binding site [chemical binding]; other site 862964006503 Zn binding site [ion binding]; other site 862964006504 HMMPfam hit to PF02146, SIR2, score 5.2e-76 862964006505 Opioid growth factor receptor (OGFr) conserved region; Region: OGFr_N; pfam04664 862964006506 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 862964006507 Fic/DOC family; Region: Fic; pfam02661 862964006508 Fic/DOC family; Region: Fic; cl00960 862964006509 HMMPfam hit to PF05012, DOC, score 1e-04 862964006510 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 862964006511 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 862964006512 HMMPfam hit to PF02146, SIR2, score 4.8e-10 862964006513 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 862964006514 active site 862964006515 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 862964006516 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 862964006517 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 862964006518 Walker A motif; other site 862964006519 ATP binding site [chemical binding]; other site 862964006520 Walker B motif; other site 862964006521 arginine finger; other site 862964006522 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 862964006523 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 862964006524 Walker A motif; other site 862964006525 ATP binding site [chemical binding]; other site 862964006526 Walker B motif; other site 862964006527 arginine finger; other site 862964006528 HMMPfam hit to PF00004, AAA, score 3e-08 862964006529 HMMPfam hit to PF00004, AAA, score 1e-30 862964006530 Sulfatase; Region: Sulfatase; cl17466 862964006531 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 862964006532 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 862964006533 active site 862964006534 phosphate binding residues; other site 862964006535 catalytic residues [active] 862964006536 HMMPfam hit to PF01263, Aldose_epim, score 1.2e-55 862964006537 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 862964006538 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 862964006539 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 862964006540 HMMPfam hit to PF05198, IF3_N, score 1.1e-09 862964006541 HMMPfam hit to PF00707, IF3_C, score 1.1e-54 862964006542 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 862964006543 HMMPfam hit to PF01632, Ribosomal_L35p, score 3.2e-30 862964006544 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 862964006545 23S rRNA binding site [nucleotide binding]; other site 862964006546 L21 binding site [polypeptide binding]; other site 862964006547 L13 binding site [polypeptide binding]; other site 862964006548 HMMPfam hit to PF00453, Ribosomal_L20, score 1.9e-68 862964006549 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 862964006550 Family description; Region: UvrD_C_2; pfam13538 862964006551 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 862964006552 HMMPfam hit to PF00580, UvrD-helicase, score 1.2e-183 862964006553 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 862964006554 AAA domain; Region: AAA_30; pfam13604 862964006555 Family description; Region: UvrD_C_2; pfam13538 862964006556 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 862964006557 HMMPfam hit to PF06303, DUF1047, score 6.3e-56 862964006558 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 862964006559 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 862964006560 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 862964006561 active site 1 [active] 862964006562 dimer interface [polypeptide binding]; other site 862964006563 active site 2 [active] 862964006564 HMMPfam hit to PF07977, FabA, score 8.4e-74 862964006565 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 862964006566 ATP binding site [chemical binding]; other site 862964006567 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 862964006568 16S/18S rRNA binding site [nucleotide binding]; other site 862964006569 S13e-L30e interaction site [polypeptide binding]; other site 862964006570 25S rRNA binding site [nucleotide binding]; other site 862964006571 HMMPfam hit to PF00312, Ribosomal_S15, score 6.3e-41 862964006572 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 862964006573 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 862964006574 HMMPfam hit to PF02113, Peptidase_S13, score 9e-208 862964006575 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 862964006576 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 862964006577 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 862964006578 HMMPfam hit to PF03449, GreA_GreB_N, score 8.2e-48 862964006579 HMMPfam hit to PF01272, GreA_GreB, score 2.1e-46 862964006580 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 862964006581 HMMPfam hit to PF01985, CRS1_YhbY, score 8.1e-38 862964006582 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 862964006583 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 862964006584 S-adenosylmethionine binding site [chemical binding]; other site 862964006585 HMMPfam hit to PF01728, FtsJ, score 7.3e-86 862964006586 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 862964006587 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 862964006588 Walker A motif; other site 862964006589 ATP binding site [chemical binding]; other site 862964006590 Walker B motif; other site 862964006591 arginine finger; other site 862964006592 Peptidase family M41; Region: Peptidase_M41; pfam01434 862964006593 HMMPfam hit to PF06480, FtsH_ext, score 5.3e-47 862964006594 HMMPfam hit to PF00004, AAA, score 9.7e-101 862964006595 HMMPfam hit to PF01434, Peptidase_M41, score 1.5e-125 862964006596 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 862964006597 active site 862964006598 substrate binding site [chemical binding]; other site 862964006599 HMMPfam hit to PF02880, PGM_PMM_III, score 4.7e-35 862964006600 HMMPfam hit to PF00408, PGM_PMM_IV, score 3.3e-21 862964006601 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 862964006602 catalytic core [active] 862964006603 HMMPfam hit to PF00300, PGAM, score 1.2e-16 862964006604 HMMPfam hit to PF02987, LEA_4, score 7.8e-08 862964006605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 862964006606 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 862964006607 Outer membrane efflux protein; Region: OEP; pfam02321 862964006608 HMMPfam hit to PF02321, OEP, score 1.2e-40 862964006609 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]; Region: COG5595 862964006610 Fe-S metabolism associated domain; Region: SufE; pfam02657 862964006611 HMMPfam hit to PF02657, SufE, score 1.5e-70 862964006612 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 862964006613 Aminotransferase class-V; Region: Aminotran_5; pfam00266 862964006614 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 862964006615 catalytic residue [active] 862964006616 HMMPfam hit to PF00266, Aminotran_5, score 3.4e-129 862964006617 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964006618 H-loop/switch region; other site 862964006619 ABC transporter; Region: ABC_tran_2; pfam12848 862964006620 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 862964006621 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 862964006622 HMMPfam hit to PF00005, ABC_tran, score 1.2e-47 862964006623 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 862964006624 Walker A/P-loop; other site 862964006625 ATP binding site [chemical binding]; other site 862964006626 Q-loop/lid; other site 862964006627 ABC transporter signature motif; other site 862964006628 Walker B; other site 862964006629 D-loop; other site 862964006630 H-loop/switch region; other site 862964006631 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 862964006632 putative active site [active] 862964006633 HMMPfam hit to PF03412, Peptidase_C39, score 2.2e-37 862964006634 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 862964006635 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 862964006636 HMMPfam hit to PF01547, SBP_bac_1, score 1.5e-24 862964006637 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 862964006638 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 862964006639 dimer interface [polypeptide binding]; other site 862964006640 conserved gate region; other site 862964006641 ABC-ATPase subunit interface; other site 862964006642 HMMPfam hit to PF00528, BPD_transp_1, score 5.9e-10 862964006643 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 862964006644 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 862964006645 dimer interface [polypeptide binding]; other site 862964006646 conserved gate region; other site 862964006647 putative PBP binding loops; other site 862964006648 ABC-ATPase subunit interface; other site 862964006649 HMMPfam hit to PF00528, BPD_transp_1, score 1e-20 862964006650 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 862964006651 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 862964006652 Walker A/P-loop; other site 862964006653 ATP binding site [chemical binding]; other site 862964006654 Q-loop/lid; other site 862964006655 ABC transporter signature motif; other site 862964006656 Walker B; other site 862964006657 D-loop; other site 862964006658 H-loop/switch region; other site 862964006659 TOBE domain; Region: TOBE_2; pfam08402 862964006660 HMMPfam hit to PF08402, TOBE_2, score 4.2e-09 862964006661 HMMPfam hit to PF00005, ABC_tran, score 1.8e-64 862964006662 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 862964006663 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 862964006664 metal binding site [ion binding]; metal-binding site 862964006665 dimer interface [polypeptide binding]; other site 862964006666 HMMPfam hit to PF01546, Peptidase_M20, score 1.8e-11 862964006667 HMMPfam hit to PF07687, M20_dimer, score 4.7e-17 862964006668 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 862964006669 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 862964006670 dimerization interface [polypeptide binding]; other site 862964006671 DPS ferroxidase diiron center [ion binding]; other site 862964006672 ion pore; other site 862964006673 HMMPfam hit to PF00210, Ferritin, score 4.9e-21 862964006674 cytidine deaminase; Provisional; Region: PRK09027 862964006675 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 862964006676 active site 862964006677 catalytic motif [active] 862964006678 Zn binding site [ion binding]; other site 862964006679 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 862964006680 active site 862964006681 catalytic motif [active] 862964006682 Zn binding site [ion binding]; other site 862964006683 HMMPfam hit to PF00383, dCMP_cyt_deam_1, score 1.1e-26 862964006684 HMMPfam hit to PF08211, dCMP_cyt_deam_2, score 2.1e-72 862964006685 Methyltransferase domain; Region: Methyltransf_23; pfam13489 862964006686 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 862964006687 S-adenosylmethionine binding site [chemical binding]; other site 862964006688 HMMPfam hit to PF08003, Methyltransf_9, score 7.3e-251 862964006689 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 862964006690 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 862964006691 Na binding site [ion binding]; other site 862964006692 HMMPfam hit to PF00474, SSF, score 5.7e-218 862964006693 ribonuclease G; Provisional; Region: PRK11712 862964006694 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 862964006695 homodimer interface [polypeptide binding]; other site 862964006696 oligonucleotide binding site [chemical binding]; other site 862964006697 HMMPfam hit to PF00575, S1, score 2.3e-15 862964006698 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 862964006699 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 862964006700 active site 862964006701 HIGH motif; other site 862964006702 nucleotide binding site [chemical binding]; other site 862964006703 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 862964006704 KMSKS motif; other site 862964006705 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 862964006706 HMMPfam hit to PF00749, tRNA-synt_1c, score 7.3e-188 862964006707 HMMPfam hit to PF03950, tRNA-synt_1c_C, score 1.1e-103 862964006708 Uncharacterized conserved protein [Function unknown]; Region: COG2983 862964006709 HMMPfam hit to PF03692, UPF0153, score 3.7e-20 862964006710 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 862964006711 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 862964006712 HMMPfam hit to PF02446, Glyco_hydro_77, score 7.9e-271 862964006713 glycogen branching enzyme; Provisional; Region: PRK05402 862964006714 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 862964006715 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 862964006716 active site 862964006717 catalytic site [active] 862964006718 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 862964006719 HMMPfam hit to PF02922, Isoamylase_N, score 3.8e-38 862964006720 HMMPfam hit to PF00128, Alpha-amylase, score 1.6e-13 862964006721 HMMPfam hit to PF02806, Alpha-amylase_C, score 9.5e-42 862964006722 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 862964006723 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 862964006724 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 862964006725 active site 862964006726 catalytic site [active] 862964006727 HMMPfam hit to PF02922, Isoamylase_N, score 1e-20 862964006728 HMMPfam hit to PF00128, Alpha-amylase, score 7.3e-15 862964006729 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 862964006730 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 862964006731 ligand binding site; other site 862964006732 oligomer interface; other site 862964006733 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 862964006734 dimer interface [polypeptide binding]; other site 862964006735 N-terminal domain interface [polypeptide binding]; other site 862964006736 sulfate 1 binding site; other site 862964006737 HMMPfam hit to PF00483, NTP_transferase, score 7.4e-72 862964006738 glycogen synthase; Provisional; Region: glgA; PRK00654 862964006739 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 862964006740 ADP-binding pocket [chemical binding]; other site 862964006741 homodimer interface [polypeptide binding]; other site 862964006742 HMMPfam hit to PF08323, Glyco_transf_5, score 1.6e-112 862964006743 HMMPfam hit to PF00534, Glycos_transf_1, score 0.00022 862964006744 glycogen phosphorylase; Provisional; Region: PRK14986 862964006745 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 862964006746 homodimer interface [polypeptide binding]; other site 862964006747 active site pocket [active] 862964006748 HMMPfam hit to PF00343, Phosphorylase, score 0 862964006749 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 862964006750 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 862964006751 ligand binding site [chemical binding]; other site 862964006752 homodimer interface [polypeptide binding]; other site 862964006753 NAD(P) binding site [chemical binding]; other site 862964006754 trimer interface B [polypeptide binding]; other site 862964006755 trimer interface A [polypeptide binding]; other site 862964006756 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 862964006757 HMMPfam hit to PF05222, AlaDh_PNT_N, score 4.2e-73 862964006758 HMMPfam hit to PF01262, AlaDh_PNT_C, score 1.5e-87 862964006759 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 862964006760 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 862964006761 HMMPfam hit to PF02233, PNTB, score 0 862964006762 Transcriptional regulator [Transcription]; Region: LysR; COG0583 862964006763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 862964006764 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 862964006765 putative effector binding pocket; other site 862964006766 dimerization interface [polypeptide binding]; other site 862964006767 HMMPfam hit to PF03466, LysR_substrate, score 1.5e-37 862964006768 HMMPfam hit to PF00126, HTH_1, score 1.8e-15 862964006769 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 862964006770 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 862964006771 active site 862964006772 interdomain interaction site; other site 862964006773 putative metal-binding site [ion binding]; other site 862964006774 nucleotide binding site [chemical binding]; other site 862964006775 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 862964006776 domain I; other site 862964006777 DNA binding groove [nucleotide binding] 862964006778 phosphate binding site [ion binding]; other site 862964006779 domain II; other site 862964006780 domain III; other site 862964006781 nucleotide binding site [chemical binding]; other site 862964006782 catalytic site [active] 862964006783 domain IV; other site 862964006784 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 862964006785 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 862964006786 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 862964006787 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 862964006788 HMMPfam hit to PF01751, Toprim, score 4.8e-39 862964006789 HMMPfam hit to PF01131, Topoisom_bac, score 2e-179 862964006790 HMMPfam hit to PF01396, zf-C4_Topoisom, score 0.00069 862964006791 HMMPfam hit to PF01396, zf-C4_Topoisom, score 1.3e-14 862964006792 HMMPfam hit to PF08272, Topo_Zn_Ribbon, score 2.2e-16 862964006793 HMMPfam hit to PF08272, Topo_Zn_Ribbon, score 1e-19 862964006794 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 862964006795 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 862964006796 HMMPfam hit to PF02525, Flavodoxin_2, score 2.4e-41 862964006797 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 862964006798 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 862964006799 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 862964006800 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 862964006801 active site 862964006802 dimer interface [polypeptide binding]; other site 862964006803 motif 1; other site 862964006804 motif 2; other site 862964006805 motif 3; other site 862964006806 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 862964006807 anticodon binding site; other site 862964006808 HMMPfam hit to PF02824, TGS, score 1.1e-16 862964006809 HMMPfam hit to PF07973, tRNA_SAD, score 1.3e-22 862964006810 HMMPfam hit to PF00587, tRNA-synt_2b, score 1.4e-65 862964006811 HMMPfam hit to PF03129, HGTP_anticodon, score 2.8e-31 862964006812 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 862964006813 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 862964006814 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 862964006815 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 862964006816 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 862964006817 HMMPfam hit to PF05193, Peptidase_M16_C, score 4.5e-21 862964006818 HMMPfam hit to PF05193, Peptidase_M16_C, score 3.6e-27 862964006819 HMMPfam hit to PF00675, Peptidase_M16, score 1.1e-56 862964006820 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 862964006821 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 862964006822 HMMPfam hit to PF00593, TonB_dep_Rec, score 2.1e-19 862964006823 HMMPfam hit to PF07715, Plug, score 1.2e-16 862964006824 molybdenum-pterin binding domain; Region: Mop; TIGR00638 862964006825 HMMPfam hit to PF03459, TOBE, score 1.4e-19 862964006826 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 862964006827 DsrC like protein; Region: DsrC; pfam04358 862964006828 HMMPfam hit to PF04358, DsrC, score 1.3e-80 862964006829 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 862964006830 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 862964006831 Ligand Binding Site [chemical binding]; other site 862964006832 HMMPfam hit to PF01171, ATP_bind_3, score 3.5e-07 862964006833 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukF; COG3006 862964006834 HMMPfam hit to PF03882, KicB, score 0 862964006835 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukE; COG3095 862964006836 HMMPfam hit to PF04288, MukE, score 8.4e-175 862964006837 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 862964006838 P-loop containing region of AAA domain; Region: AAA_29; cl17516 862964006839 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 862964006840 HMMPfam hit to PF04310, MukB, score 1.7e-159 862964006841 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 862964006842 Uncharacterized conserved protein [Function unknown]; Region: COG3586 862964006843 exonuclease I; Provisional; Region: sbcB; PRK11779 862964006844 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 862964006845 active site 862964006846 catalytic site [active] 862964006847 substrate binding site [chemical binding]; other site 862964006848 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 862964006849 HMMPfam hit to PF00929, Exonuc_X-T, score 4.6e-34 862964006850 HMMPfam hit to PF08411, Exonuc_X-T_C, score 4.4e-171 862964006851 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 862964006852 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 862964006853 putative active site [active] 862964006854 heme pocket [chemical binding]; other site 862964006855 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 862964006856 dimer interface [polypeptide binding]; other site 862964006857 phosphorylation site [posttranslational modification] 862964006858 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 862964006859 ATP binding site [chemical binding]; other site 862964006860 Mg2+ binding site [ion binding]; other site 862964006861 G-X-G motif; other site 862964006862 HMMPfam hit to PF02518, HATPase_c, score 1.8e-34 862964006863 HMMPfam hit to PF00512, HisKA, score 1.2e-18 862964006864 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 862964006865 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 862964006866 active site 862964006867 phosphorylation site [posttranslational modification] 862964006868 intermolecular recognition site; other site 862964006869 dimerization interface [polypeptide binding]; other site 862964006870 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 862964006871 DNA binding site [nucleotide binding] 862964006872 HMMPfam hit to PF00486, Trans_reg_C, score 7.2e-22 862964006873 HMMPfam hit to PF00072, Response_reg, score 1.6e-34 862964006874 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 862964006875 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 862964006876 Walker A/P-loop; other site 862964006877 ATP binding site [chemical binding]; other site 862964006878 Q-loop/lid; other site 862964006879 ABC transporter signature motif; other site 862964006880 Walker B; other site 862964006881 D-loop; other site 862964006882 H-loop/switch region; other site 862964006883 HMMPfam hit to PF00005, ABC_tran, score 1.5e-63 862964006884 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 862964006885 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 862964006886 dimer interface [polypeptide binding]; other site 862964006887 conserved gate region; other site 862964006888 putative PBP binding loops; other site 862964006889 ABC-ATPase subunit interface; other site 862964006890 HMMPfam hit to PF00528, BPD_transp_1, score 3.7e-34 862964006891 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 862964006892 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 862964006893 dimer interface [polypeptide binding]; other site 862964006894 conserved gate region; other site 862964006895 putative PBP binding loops; other site 862964006896 ABC-ATPase subunit interface; other site 862964006897 HMMPfam hit to PF00528, BPD_transp_1, score 2.4e-10 862964006898 PBP superfamily domain; Region: PBP_like_2; cl17296 862964006899 HMMPfam hit to PF01547, SBP_bac_1, score 5e-36 862964006900 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 862964006901 Ferritin-like domain; Region: Ferritin; pfam00210 862964006902 ferroxidase diiron center [ion binding]; other site 862964006903 HMMPfam hit to PF00210, Ferritin, score 8.3e-53 862964006904 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 862964006905 Ferritin-like domain; Region: Ferritin; pfam00210 862964006906 ferroxidase diiron center [ion binding]; other site 862964006907 HMMPfam hit to PF00210, Ferritin, score 2.2e-48 862964006908 anthranilate synthase component I; Provisional; Region: PRK13564 862964006909 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 862964006910 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 862964006911 HMMPfam hit to PF04715, Anth_synt_I_N, score 1.5e-23 862964006912 HMMPfam hit to PF00425, Chorismate_bind, score 4.4e-150 862964006913 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 862964006914 Glutamine amidotransferase class-I; Region: GATase; pfam00117 862964006915 glutamine binding [chemical binding]; other site 862964006916 catalytic triad [active] 862964006917 HMMPfam hit to PF00117, GATase, score 5e-70 862964006918 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 862964006919 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 862964006920 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 862964006921 HMMPfam hit to PF02885, Glycos_trans_3N, score 1.4e-25 862964006922 HMMPfam hit to PF00591, Glycos_transf_3, score 1.1e-155 862964006923 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 862964006924 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 862964006925 active site 862964006926 ribulose/triose binding site [chemical binding]; other site 862964006927 phosphate binding site [ion binding]; other site 862964006928 substrate (anthranilate) binding pocket [chemical binding]; other site 862964006929 product (indole) binding pocket [chemical binding]; other site 862964006930 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 862964006931 active site 862964006932 HMMPfam hit to PF00218, IGPS, score 3.9e-149 862964006933 HMMPfam hit to PF00697, PRAI, score 2.2e-95 862964006934 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 862964006935 HMMPfam hit to PF01455, HupF_HypC, score 6.3e-25 862964006936 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 862964006937 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 862964006938 HIGH motif; other site 862964006939 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 862964006940 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 862964006941 active site 862964006942 KMSKS motif; other site 862964006943 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 862964006944 tRNA binding surface [nucleotide binding]; other site 862964006945 anticodon binding site; other site 862964006946 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 862964006947 HMMPfam hit to PF08264, Anticodon_1, score 5.8e-67 862964006948 HMMPfam hit to PF00133, tRNA-synt_1, score 0 862964006949 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 862964006950 DNA methylase; Region: N6_N4_Mtase; pfam01555 862964006951 HMMPfam hit to PF01555, N6_N4_Mtase, score 1.2e-81 862964006952 HindIII restriction endonuclease; Region: RE_HindIII; pfam09518 862964006953 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 862964006954 HMMPfam hit to PF06164, DUF978, score 2.7e-76 862964006955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 862964006956 DNA polymerase III subunit chi; Validated; Region: PRK05728 862964006957 HMMPfam hit to PF04364, DNA_pol3_chi, score 3.6e-79 862964006958 fumarate hydratase; Reviewed; Region: fumC; PRK00485 862964006959 Class II fumarases; Region: Fumarase_classII; cd01362 862964006960 active site 862964006961 tetramer interface [polypeptide binding]; other site 862964006962 HMMPfam hit to PF00206, Lyase_1, score 3.1e-165 862964006963 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 862964006964 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 862964006965 active site 862964006966 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 862964006967 HMMPfam hit to PF02811, PHP, score 1.2e-49 862964006968 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 862964006969 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 862964006970 quinone interaction residues [chemical binding]; other site 862964006971 active site 862964006972 catalytic residues [active] 862964006973 FMN binding site [chemical binding]; other site 862964006974 substrate binding site [chemical binding]; other site 862964006975 HMMPfam hit to PF01180, DHO_dh, score 3.1e-86 862964006976 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 862964006977 Phage tail repeat like; Region: PTR; pfam12789 862964006978 HMMPfam hit to PF03406, Phage_fiber_2, score 5.6e-17 862964006979 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 862964006980 Baseplate J-like protein; Region: Baseplate_J; cl01294 862964006981 Baseplate J-like protein; Region: Baseplate_J; cl01294 862964006982 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 862964006983 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 862964006984 Apolipophorin-III precursor (apoLp-III); Region: ApoLp-III; pfam07464 862964006985 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 862964006986 Protein of unknown function (DUF2669); Region: DUF2669; pfam10876 862964006987 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 862964006988 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 862964006989 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 862964006990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 862964006991 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 862964006992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 862964006993 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 862964006994 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 862964006995 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 862964006996 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964006997 active site 862964006998 HMMPfam hit to PF04233, Phage_Mu_F, score 5e-48 862964006999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567 862964007000 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 862964007001 Phage terminase large subunit; Region: Terminase_3; cl12054 862964007002 HMMPfam hit to PF04466, Terminase_3, score 6.3e-194 862964007003 HMMPfam hit to PF07570, DUF1545, score 1.7e-09 862964007004 Terminase small subunit; Region: Terminase_2; pfam03592 862964007005 HMMPfam hit to PF03592, Terminase_2, score 1.3e-53 862964007006 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 862964007007 HMMPfam hit to PF05016, Plasmid_stabil, score 4.8e-06 862964007008 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 862964007009 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 862964007010 non-specific DNA binding site [nucleotide binding]; other site 862964007011 salt bridge; other site 862964007012 sequence-specific DNA binding site [nucleotide binding]; other site 862964007013 HMMPfam hit to PF01381, HTH_3, score 1.4e-11 862964007014 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 862964007015 Predicted chitinase [General function prediction only]; Region: COG3179 862964007016 catalytic residue [active] 862964007017 HMMPfam hit to PF00182, Glyco_hydro_19, score 0.00068 862964007018 phage holin, lambda family; Region: holin_lambda; TIGR01594 862964007019 HMMPfam hit to PF05106, Phage_holin_3, score 5.6e-67 862964007020 Prophage antirepressor [Transcription]; Region: COG3617 862964007021 BRO family, N-terminal domain; Region: Bro-N; smart01040 862964007022 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 862964007023 HMMPfam hit to PF02498, Bro-N, score 4.3e-36 862964007024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3657 862964007025 HMMPfam hit to PF05973, Gp49, score 1.9e-22 862964007026 Predicted transcriptional regulator [Transcription]; Region: COG3636 862964007027 HMMPfam hit to PF01381, HTH_3, score 1.7e-06 862964007028 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 862964007029 HMMPfam hit to PF05766, NinG, score 1.2e-64 862964007030 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 862964007031 G1 box; other site 862964007032 GTP/Mg2+ binding site [chemical binding]; other site 862964007033 NinB protein; Region: NinB; pfam05772 862964007034 HMMPfam hit to PF05772, NinB, score 3.4e-46 862964007035 Replication protein P; Region: Phage_lambda_P; pfam06992 862964007036 HMMPfam hit to PF06992, Phage_lambda_P, score 5.8e-06 862964007037 Helix-turn-helix domain; Region: HTH_36; pfam13730 862964007038 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 862964007039 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 862964007040 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 862964007041 Helix-turn-helix domain; Region: HTH_36; pfam13730 862964007042 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 862964007043 sequence-specific DNA binding site [nucleotide binding]; other site 862964007044 salt bridge; other site 862964007045 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 862964007046 Catalytic site [active] 862964007047 HMMPfam hit to PF01381, HTH_3, score 1.3e-06 862964007048 HMMPfam hit to PF00717, Peptidase_S24, score 1.1e-05 862964007049 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 862964007050 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 862964007051 HMMPfam hit to PF07411, DUF1508, score 2e-10 862964007052 AntA/AntB antirepressor; Region: AntA; cl01430 862964007053 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 862964007054 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 862964007055 DNA binding site [nucleotide binding] 862964007056 active site 862964007057 Int/Topo IB signature motif; other site 862964007058 HMMPfam hit to PF00589, Phage_integrase, score 2.5e-14 862964007059 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 862964007060 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 862964007061 ligand binding site [chemical binding]; other site 862964007062 flexible hinge region; other site 862964007063 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 862964007064 putative switch regulator; other site 862964007065 non-specific DNA interactions [nucleotide binding]; other site 862964007066 DNA binding site [nucleotide binding] 862964007067 sequence specific DNA binding site [nucleotide binding]; other site 862964007068 putative cAMP binding site [chemical binding]; other site 862964007069 HMMPfam hit to PF00027, cNMP_binding, score 1.7e-18 862964007070 HMMPfam hit to PF00325, Crp, score 2e-16 862964007071 universal stress protein UspE; Provisional; Region: PRK11175 862964007072 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 862964007073 Ligand Binding Site [chemical binding]; other site 862964007074 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 862964007075 Ligand Binding Site [chemical binding]; other site 862964007076 HMMPfam hit to PF00582, Usp, score 4.1e-18 862964007077 HMMPfam hit to PF00582, Usp, score 1.7e-10 862964007078 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 862964007079 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 862964007080 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 862964007081 active site 862964007082 substrate binding site [chemical binding]; other site 862964007083 cosubstrate binding site; other site 862964007084 catalytic site [active] 862964007085 HMMPfam hit to PF00551, Formyl_trans_N, score 1.8e-97 862964007086 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 862964007087 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 862964007088 dimerization interface [polypeptide binding]; other site 862964007089 putative ATP binding site [chemical binding]; other site 862964007090 HMMPfam hit to PF02769, AIRS_C, score 1e-54 862964007091 HMMPfam hit to PF00586, AIRS, score 1.5e-71 862964007092 malonic semialdehyde reductase; Provisional; Region: PRK10538 862964007093 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 862964007094 putative NAD(P) binding site [chemical binding]; other site 862964007095 homotetramer interface [polypeptide binding]; other site 862964007096 homodimer interface [polypeptide binding]; other site 862964007097 active site 862964007098 HMMPfam hit to PF00106, adh_short, score 6.7e-30 862964007099 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 862964007100 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 862964007101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964007102 catalytic residue [active] 862964007103 HMMPfam hit to PF00291, PALP, score 1.6e-130 862964007104 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 862964007105 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 862964007106 substrate binding site [chemical binding]; other site 862964007107 active site 862964007108 catalytic residues [active] 862964007109 heterodimer interface [polypeptide binding]; other site 862964007110 HMMPfam hit to PF00290, Trp_syntA, score 3.6e-145 862964007111 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 862964007112 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 862964007113 putative deacylase active site [active] 862964007114 HMMPfam hit to PF04073, YbaK, score 5e-72 862964007115 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 862964007116 DNA-binding site [nucleotide binding]; DNA binding site 862964007117 RNA-binding motif; other site 862964007118 HMMPfam hit to PF00313, CSD, score 2.1e-35 862964007119 Uncharacterized protein family (UPF0181); Region: UPF0181; pfam03701 862964007120 HMMPfam hit to PF03701, UPF0181, score 3.5e-35 862964007121 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 862964007122 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 862964007123 probable active site [active] 862964007124 HMMPfam hit to PF00849, PseudoU_synth_2, score 6.8e-51 862964007125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 862964007126 HMMPfam hit to PF04287, DUF446, score 3.3e-66 862964007127 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 862964007128 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 862964007129 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 862964007130 Ligand Binding Site [chemical binding]; other site 862964007131 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 862964007132 active site residue [active] 862964007133 HMMPfam hit to PF02568, ThiI, score 4e-88 862964007134 HMMPfam hit to PF02926, THUMP, score 4.8e-19 862964007135 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 862964007136 HMMPfam hit to PF02609, Exonuc_VII_S, score 2.2e-31 862964007137 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 862964007138 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 862964007139 substrate binding pocket [chemical binding]; other site 862964007140 chain length determination region; other site 862964007141 substrate-Mg2+ binding site; other site 862964007142 catalytic residues [active] 862964007143 aspartate-rich region 1; other site 862964007144 active site lid residues [active] 862964007145 aspartate-rich region 2; other site 862964007146 HMMPfam hit to PF00348, polyprenyl_synt, score 1.3e-130 862964007147 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 862964007148 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 862964007149 TPP-binding site; other site 862964007150 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 862964007151 PYR/PP interface [polypeptide binding]; other site 862964007152 dimer interface [polypeptide binding]; other site 862964007153 TPP binding site [chemical binding]; other site 862964007154 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 862964007155 HMMPfam hit to PF02779, Transket_pyr, score 1.5e-64 862964007156 HMMPfam hit to PF02780, Transketolase_C, score 4.7e-34 862964007157 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 862964007158 non-specific DNA binding site [nucleotide binding]; other site 862964007159 salt bridge; other site 862964007160 sequence-specific DNA binding site [nucleotide binding]; other site 862964007161 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 862964007162 HMMPfam hit to PF04386, SspB, score 4e-99 862964007163 stringent starvation protein A; Provisional; Region: sspA; PRK09481 862964007164 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 862964007165 C-terminal domain interface [polypeptide binding]; other site 862964007166 putative GSH binding site (G-site) [chemical binding]; other site 862964007167 dimer interface [polypeptide binding]; other site 862964007168 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 862964007169 dimer interface [polypeptide binding]; other site 862964007170 N-terminal domain interface [polypeptide binding]; other site 862964007171 HMMPfam hit to PF00043, GST_C, score 1.1e-08 862964007172 HMMPfam hit to PF02798, GST_N, score 1.2e-21 862964007173 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 862964007174 HMMPfam hit to PF00380, Ribosomal_S9, score 6.5e-69 862964007175 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 862964007176 23S rRNA interface [nucleotide binding]; other site 862964007177 L3 interface [polypeptide binding]; other site 862964007178 HMMPfam hit to PF00572, Ribosomal_L13, score 4.8e-88 862964007179 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 862964007180 FAD binding site [chemical binding]; other site 862964007181 HMMPfam hit to PF02219, MTHFR, score 1.1e-170 862964007182 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 862964007183 AAA domain; Region: AAA_26; pfam13500 862964007184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 862964007185 HMMPfam hit to PF05166, DUF709, score 2.4e-59 862964007186 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 862964007187 homodecamer interface [polypeptide binding]; other site 862964007188 GTP cyclohydrolase I; Provisional; Region: PLN03044 862964007189 active site 862964007190 putative catalytic site residues [active] 862964007191 zinc binding site [ion binding]; other site 862964007192 GTP-CH-I/GFRP interaction surface; other site 862964007193 HMMPfam hit to PF01227, GTP_cyclohydroI, score 1.4e-57 862964007194 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 862964007195 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 862964007196 dimer interface [polypeptide binding]; other site 862964007197 putative functional site; other site 862964007198 putative MPT binding site; other site 862964007199 HMMPfam hit to PF03453, MoeA_N, score 1e-86 862964007200 HMMPfam hit to PF00994, MoCF_biosynth, score 2.2e-52 862964007201 HMMPfam hit to PF03454, MoeA_C, score 1.7e-18 862964007202 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 862964007203 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 862964007204 ATP binding site [chemical binding]; other site 862964007205 substrate interface [chemical binding]; other site 862964007206 HMMPfam hit to PF00899, ThiF, score 5.1e-62 862964007207 HMMPfam hit to PF05237, MoeZ_MoeB, score 5.8e-22 862964007208 dsDNA-mimic protein; Reviewed; Region: PRK05094 862964007209 HMMPfam hit to PF04269, DUF440, score 6e-87 862964007210 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 862964007211 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 862964007212 catalytic residues [active] 862964007213 HMMPfam hit to PF08534, Redoxin, score 3.5e-11 862964007214 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 862964007215 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 862964007216 HMMPfam hit to PF02683, DsbD, score 2.1e-95 862964007217 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 862964007218 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 862964007219 SelR domain; Region: SelR; pfam01641 862964007220 HMMPfam hit to PF01641, SelR, score 6.5e-91 862964007221 HMMPfam hit to PF01625, PMSR, score 3.6e-100 862964007222 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 862964007223 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 862964007224 HMMPfam hit to PF02462, Opacity, score 5.8e-77 862964007225 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 862964007226 non-specific DNA binding site [nucleotide binding]; other site 862964007227 salt bridge; other site 862964007228 sequence-specific DNA binding site [nucleotide binding]; other site 862964007229 HMMPfam hit to PF01381, HTH_3, score 7.7e-15 862964007230 RNA polymerase sigma factor; Provisional; Region: PRK12530 862964007231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 862964007232 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 862964007233 DNA binding residues [nucleotide binding] 862964007234 HMMPfam hit to PF08281, Sigma70_r4_2, score 1.9e-14 862964007235 HMMPfam hit to PF04542, Sigma70_r2, score 2.8e-15 862964007236 YadA-like C-terminal region; Region: YadA; pfam03895 862964007237 HMMPfam hit to PF03895, YadA, score 9.8e-07 862964007238 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 862964007239 HMMPfam hit to PF02321, OEP, score 7.5e-35 862964007240 HMMPfam hit to PF02321, OEP, score 1.2e-40 862964007241 HMMPfam hit to PF02987, LEA_4, score 7.8e-08 862964007242 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 862964007243 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 862964007244 HMMPfam hit to PF07715, Plug, score 8.8e-16 862964007245 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 862964007246 arginine finger; other site 862964007247 Peptidase family M41; Region: Peptidase_M41; pfam01434 862964007248 HMMPfam hit to PF00004, AAA, score 1.4e-52 862964007249 HMMPfam hit to PF01434, Peptidase_M41, score 1.5e-125 862964007250 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 862964007251 dihydropteroate synthase; Region: DHPS; TIGR01496 862964007252 substrate binding pocket [chemical binding]; other site 862964007253 dimer interface [polypeptide binding]; other site 862964007254 inhibitor binding site; inhibition site 862964007255 HMMPfam hit to PF00809, Pterin_bind, score 9.4e-100 862964007256 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 862964007257 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 862964007258 active site 862964007259 substrate binding site [chemical binding]; other site 862964007260 metal binding site [ion binding]; metal-binding site 862964007261 HMMPfam hit to PF02878, PGM_PMM_I, score 1.3e-60 862964007262 HMMPfam hit to PF02879, PGM_PMM_II, score 3.5e-49 862964007263 HMMPfam hit to PF02880, PGM_PMM_III, score 1.3e-44 862964007264 HMMPfam hit to PF00408, PGM_PMM_IV, score 3.6e-24 862964007265 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 862964007266 catalytic core [active] 862964007267 HMMPfam hit to PF00300, PGAM, score 3.9e-19 862964007268 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 862964007269 HMMPfam hit to PF00593, TonB_dep_Rec, score 1.1e-07 862964007270 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 862964007271 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 862964007272 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 862964007273 HMMPfam hit to PF06472, ABC_membrane_2, score 5.2e-44 862964007274 HMMPfam hit to PF00005, ABC_tran, score 1.3e-20 862964007275 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 862964007276 16S/18S rRNA binding site [nucleotide binding]; other site 862964007277 S13e-L30e interaction site [polypeptide binding]; other site 862964007278 25S rRNA binding site [nucleotide binding]; other site 862964007279 HMMPfam hit to PF00312, Ribosomal_S15, score 6.1e-41 862964007280 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 862964007281 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 862964007282 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 862964007283 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 862964007284 HMMPfam hit to PF00005, ABC_tran, score 4.6e-49 862964007285 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 862964007286 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 862964007287 ABC-ATPase subunit interface; other site 862964007288 dimer interface [polypeptide binding]; other site 862964007289 putative PBP binding regions; other site 862964007290 HMMPfam hit to PF01032, FecCD, score 5.7e-143 862964007291 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 862964007292 putative ligand binding residues [chemical binding]; other site 862964007293 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 862964007294 HMMPfam hit to PF01497, Peripla_BP_2, score 6.4e-51 862964007295 molybdenum transport protein ModD; Provisional; Region: PRK06096 862964007296 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 862964007297 dimerization interface [polypeptide binding]; other site 862964007298 active site 862964007299 HMMPfam hit to PF01729, QRPTase_C, score 6.2e-79 862964007300 HMMPfam hit to PF02749, QRPTase_N, score 1.5e-34 862964007301 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 862964007302 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964007303 Walker A/P-loop; other site 862964007304 ATP binding site [chemical binding]; other site 862964007305 Q-loop/lid; other site 862964007306 ABC transporter signature motif; other site 862964007307 Walker B; other site 862964007308 D-loop; other site 862964007309 H-loop/switch region; other site 862964007310 HMMPfam hit to PF00005, ABC_tran, score 6.7e-58 862964007312 HMMPfam hit to PF00528, BPD_transp_1, score 1.2e-08 862964007313 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 862964007314 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 862964007315 HMMPfam hit to PF01547, SBP_bac_1, score 0.00012 862964007316 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 862964007317 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 862964007318 putative ribose interaction site [chemical binding]; other site 862964007319 putative ADP binding site [chemical binding]; other site 862964007320 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 862964007321 active site 862964007322 nucleotide binding site [chemical binding]; other site 862964007323 HIGH motif; other site 862964007324 KMSKS motif; other site 862964007325 HMMPfam hit to PF01467, CTP_transf_2, score 1.3e-29 862964007326 HMMPfam hit to PF00294, PfkB, score 1.1e-50 862964007327 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 862964007328 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 862964007329 putative acyl-acceptor binding pocket; other site 862964007330 HMMPfam hit to PF03279, Lip_A_acyltrans, score 8.5e-160 862964007331 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 862964007332 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 862964007333 ATP binding site [chemical binding]; other site 862964007334 Mg2+ binding site [ion binding]; other site 862964007335 G-X-G motif; other site 862964007336 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 862964007337 anchoring element; other site 862964007338 dimer interface [polypeptide binding]; other site 862964007339 ATP binding site [chemical binding]; other site 862964007340 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 862964007341 active site 862964007342 putative metal-binding site [ion binding]; other site 862964007343 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 862964007344 HMMPfam hit to PF02518, HATPase_c, score 8.9e-27 862964007345 HMMPfam hit to PF00204, DNA_gyraseB, score 6.1e-58 862964007346 HMMPfam hit to PF00986, DNA_gyraseB_C, score 5.8e-34 862964007347 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 862964007348 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 862964007349 CAP-like domain; other site 862964007350 active site 862964007351 primary dimer interface [polypeptide binding]; other site 862964007352 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 862964007353 HMMPfam hit to PF00521, DNA_topoisoIV, score 5.8e-267 862964007354 HMMPfam hit to PF03989, DNA_gyraseA_C, score 0.00046 862964007355 HMMPfam hit to PF03989, DNA_gyraseA_C, score 4e-05 862964007356 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 862964007357 HMMPfam hit to PF03616, Glt_symporter, score 1.8e-267 862964007358 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 862964007359 RimK-like ATP-grasp domain; Region: RimK; pfam08443 862964007360 HMMPfam hit to PF08443, RimK, score 1.5e-117 862964007361 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 862964007362 GSH binding site [chemical binding]; other site 862964007363 catalytic residues [active] 862964007364 HMMPfam hit to PF00462, Glutaredoxin, score 2e-17 862964007365 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 862964007366 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 862964007367 dimer interface [polypeptide binding]; other site 862964007368 active site 862964007369 HMMPfam hit to PF02801, Ketoacyl-synt_C, score 3.4e-46 862964007370 HMMPfam hit to PF00109, ketoacyl-synt, score 4.6e-63 862964007371 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 862964007372 Uncharacterized conserved protein [Function unknown]; Region: COG4121 862964007373 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 862964007374 HMMPfam hit to PF05430, DUF752, score 9.7e-144 862964007375 HMMPfam hit to PF01266, DAO, score 5.5e-46 862964007377 HMMPfam hit to PF01633, Choline_kinase, score 2.1e-79 862964007378 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 862964007379 EamA-like transporter family; Region: EamA; pfam00892 862964007380 HMMPfam hit to PF00892, DUF6, score 3.6e-09 862964007381 HMMPfam hit to PF00892, DUF6, score 9.3e-10 862964007382 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 862964007383 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 862964007384 active site 862964007385 metal-binding site 862964007386 HMMPfam hit to PF00483, NTP_transferase, score 2.3e-05 862964007387 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 862964007388 HMMPfam hit to PF04991, LicD, score 6.4e-91 862964007389 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 862964007390 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 862964007391 tandem repeat interface [polypeptide binding]; other site 862964007392 oligomer interface [polypeptide binding]; other site 862964007393 active site residues [active] 862964007394 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 862964007395 tandem repeat interface [polypeptide binding]; other site 862964007396 oligomer interface [polypeptide binding]; other site 862964007397 active site residues [active] 862964007398 HMMPfam hit to PF01343, Peptidase_S49, score 6.6e-75 862964007399 HMMPfam hit to PF01343, Peptidase_S49, score 1.4e-63 862964007400 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 862964007401 putative FMN binding site [chemical binding]; other site 862964007402 HMMPfam hit to PF00881, Nitroreductase, score 1.7e-53 862964007403 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 862964007404 HMMPfam hit to PF06192, TorD, score 5.3e-08 862964007405 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 862964007406 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 862964007407 HMMPfam hit to PF02525, Flavodoxin_2, score 5.4e-84 862964007408 serine/threonine transporter SstT; Provisional; Region: PRK13628 862964007409 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 862964007410 HMMPfam hit to PF00375, SDF, score 1e-172 862964007411 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 862964007412 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 862964007413 Catalytic site [active] 862964007414 HMMPfam hit to PF00717, Peptidase_S24, score 1e-06 862964007415 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 862964007416 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 862964007417 HMMPfam hit to PF00793, DAHP_synth_1, score 2.5e-183 862964007418 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 862964007419 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 862964007420 FtsX-like permease family; Region: FtsX; pfam02687 862964007421 HMMPfam hit to PF02687, FtsX, score 1.7e-48 862964007422 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 862964007423 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 862964007424 Walker A/P-loop; other site 862964007425 ATP binding site [chemical binding]; other site 862964007426 Q-loop/lid; other site 862964007427 ABC transporter signature motif; other site 862964007428 Walker B; other site 862964007429 D-loop; other site 862964007430 H-loop/switch region; other site 862964007431 HMMPfam hit to PF00005, ABC_tran, score 1.1e-66 862964007432 AAA domain; Region: AAA_26; pfam13500 862964007433 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 862964007434 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 862964007435 ADP binding site [chemical binding]; other site 862964007436 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 862964007437 Methyltransferase domain; Region: Methyltransf_11; pfam08241 862964007438 HMMPfam hit to PF08241, Methyltransf_11, score 7.4e-15 862964007439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2830 862964007440 HMMPfam hit to PF04301, DUF452, score 1.3e-153 862964007441 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 862964007442 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 862964007443 substrate-cofactor binding pocket; other site 862964007444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964007445 catalytic residue [active] 862964007446 HMMPfam hit to PF00155, Aminotran_1_2, score 3.2e-96 862964007447 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 862964007448 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 862964007449 inhibitor-cofactor binding pocket; inhibition site 862964007450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964007451 catalytic residue [active] 862964007452 HMMPfam hit to PF00202, Aminotran_3, score 1.4e-192 862964007453 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 862964007454 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 862964007455 FtsX-like permease family; Region: FtsX; pfam02687 862964007456 HMMPfam hit to PF02687, FtsX, score 9.7e-47 862964007457 glycerate dehydrogenase; Provisional; Region: PRK06932 862964007458 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 862964007459 putative ligand binding site [chemical binding]; other site 862964007460 putative NAD binding site [chemical binding]; other site 862964007461 catalytic site [active] 862964007462 HMMPfam hit to PF00389, 2-Hacid_dh, score 6.4e-24 862964007463 HMMPfam hit to PF02826, 2-Hacid_dh_C, score 7.9e-69 862964007464 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 862964007465 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 862964007466 HMMPfam hit to PF00793, DAHP_synth_1, score 2.6e-120 862964007467 Uncharacterized conserved protein [Function unknown]; Region: COG2912 862964007468 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 862964007469 HemK family putative methylases; Region: hemK_fam; TIGR00536 862964007470 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 862964007471 HMMPfam hit to PF05175, MTS, score 8.7e-07 862964007472 Predicted membrane protein/domain [Function unknown]; Region: COG1714 862964007473 HMMPfam hit to PF06271, RDD, score 1.8e-32 862964007474 peptide chain release factor 1; Validated; Region: prfA; PRK00591 862964007475 This domain is found in peptide chain release factors; Region: PCRF; smart00937 862964007476 RF-1 domain; Region: RF-1; pfam00472 862964007477 HMMPfam hit to PF00472, RF-1, score 5.4e-78 862964007478 HMMPfam hit to PF03462, PCRF, score 2.9e-69 862964007479 Protein of unknown function, DUF462; Region: DUF462; cl01190 862964007480 HMMPfam hit to PF04315, DUF462, score 3.1e-151 862964007481 potential frameshift: common BLAST hit: gi|319776219|ref|YP_004138707.1| tail fiber protein 862964007482 Phage Tail Collar Domain; Region: Collar; pfam07484 862964007483 HMMPfam hit to PF07484, Collar, score 1.4e-07 862964007484 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 862964007485 HMMPfam hit to PF03406, Phage_fiber_2, score 1e-14 862964007486 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 862964007487 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 862964007488 HMMPfam hit to PF04865, Baseplate_J, score 1.3e-68 862964007489 Phage protein GP46; Region: GP46; cl01814 862964007490 HMMPfam hit to PF07409, GP46, score 3.3e-27 862964007491 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 862964007492 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 862964007493 HMMPfam hit to PF06890, Phage_Mu_Gp45, score 1.5e-80 862964007494 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 862964007495 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 862964007496 HMMPfam hit to PF06893, Phage_Mu_P, score 8.7e-114 862964007497 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 862964007498 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 862964007499 HMMPfam hit to PF07157, DNA_circ_N, score 3e-22 862964007500 Homeodomain-like domain; Region: HTH_23; cl17451 862964007501 Winged helix-turn helix; Region: HTH_29; pfam13551 862964007502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 862964007503 Integrase core domain; Region: rve; pfam00665 862964007504 Integrase core domain; Region: rve_3; pfam13683 862964007505 HMMPfam hit to PF00665, rve, score 4.7e-29 862964007506 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 862964007507 Helix-turn-helix domain; Region: HTH_36; pfam13730 862964007508 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 862964007509 sequence-specific DNA binding site [nucleotide binding]; other site 862964007510 salt bridge; other site 862964007511 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 862964007512 Catalytic site [active] 862964007513 HMMPfam hit to PF01381, HTH_3, score 1.3e-06 862964007514 HMMPfam hit to PF00717, Peptidase_S24, score 1.1e-05 862964007515 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 862964007516 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 862964007517 HMMPfam hit to PF07411, DUF1508, score 2e-10 862964007518 Prophage antirepressor [Transcription]; Region: COG3617 862964007519 BRO family, N-terminal domain; Region: Bro-N; smart01040 862964007520 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 862964007521 HMMPfam hit to PF02498, Bro-N, score 1.2e-26 862964007522 RecT family; Region: RecT; cl04285 862964007523 HMMPfam hit to PF03837, RecT, score 4.9e-47 862964007524 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 862964007525 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 862964007526 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 862964007527 dimer interface [polypeptide binding]; other site 862964007528 ssDNA binding site [nucleotide binding]; other site 862964007529 tetramer (dimer of dimers) interface [polypeptide binding]; other site 862964007530 HMMPfam hit to PF00436, SSB, score 8.4e-23 862964007531 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 862964007532 Catalytic domain of Protein Kinases; Region: PKc; cd00180 862964007533 active site 862964007534 ATP binding site [chemical binding]; other site 862964007535 substrate binding site [chemical binding]; other site 862964007536 activation loop (A-loop); other site 862964007537 HMMPfam hit to PF00069, Pkinase, score 3.5e-31 862964007538 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 862964007539 active site 862964007540 KilA-N domain; Region: KilA-N; pfam04383 862964007541 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 862964007542 HMMPfam hit to PF04383, KilA-N, score 1.8e-09 862964007543 potential frameshift: common BLAST hit: gi|319897245|ref|YP_004135440.1| phage integrase protein 862964007544 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 862964007545 DNA binding site [nucleotide binding] 862964007546 Int/Topo IB signature motif; other site 862964007547 active site 862964007548 HMMPfam hit to PF00589, Phage_integrase, score 9.6e-08 862964007549 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 862964007550 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 862964007551 pyruvate kinase; Provisional; Region: PRK05826 862964007552 active site 862964007553 domain interfaces; other site 862964007554 HMMPfam hit to PF00224, PK, score 2.1e-215 862964007555 HMMPfam hit to PF02887, PK_C, score 7.1e-61 862964007556 replicative DNA helicase; Validated; Region: PRK06904 862964007557 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 862964007558 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 862964007559 Walker A motif; other site 862964007560 ATP binding site [chemical binding]; other site 862964007561 Walker B motif; other site 862964007562 DNA binding loops [nucleotide binding] 862964007563 HMMPfam hit to PF00772, DnaB, score 2.8e-52 862964007564 HMMPfam hit to PF03796, DnaB_C, score 1.8e-136 862964007565 alanine racemase; Reviewed; Region: alr; PRK00053 862964007566 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 862964007567 active site 862964007568 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 862964007569 substrate binding site [chemical binding]; other site 862964007570 catalytic residues [active] 862964007571 dimer interface [polypeptide binding]; other site 862964007572 HMMPfam hit to PF01168, Ala_racemase_N, score 1e-94 862964007573 HMMPfam hit to PF00842, Ala_racemase_C, score 1.8e-66 862964007574 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 862964007575 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 862964007576 active site 862964007577 dimer interface [polypeptide binding]; other site 862964007578 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 862964007579 dimer interface [polypeptide binding]; other site 862964007580 active site 862964007581 HMMPfam hit to PF00342, PGI, score 0 862964007582 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 862964007583 HMMPfam hit to PF05433, Rick_17kDa_Anti, score 1.4e-09 862964007584 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 862964007585 putative metal binding site [ion binding]; other site 862964007586 HMMPfam hit to PF06185, YecM, score 2.8e-127 862964007587 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 862964007588 arginyl-tRNA synthetase; Region: argS; TIGR00456 862964007589 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 862964007590 active site 862964007591 HIGH motif; other site 862964007592 KMSK motif region; other site 862964007593 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 862964007594 tRNA binding surface [nucleotide binding]; other site 862964007595 anticodon binding site; other site 862964007596 HMMPfam hit to PF03485, Arg_tRNA_synt_N, score 7.5e-30 862964007597 HMMPfam hit to PF00750, tRNA-synt_1d, score 3.1e-216 862964007598 HMMPfam hit to PF05746, DALR_1, score 1.7e-54 862964007599 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 862964007600 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 862964007601 putative valine binding site [chemical binding]; other site 862964007602 dimer interface [polypeptide binding]; other site 862964007603 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 862964007604 HMMPfam hit to PF01842, ACT, score 3.5e-11 862964007605 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 862964007606 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 862964007607 PYR/PP interface [polypeptide binding]; other site 862964007608 dimer interface [polypeptide binding]; other site 862964007609 TPP binding site [chemical binding]; other site 862964007610 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 862964007611 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 862964007612 TPP-binding site [chemical binding]; other site 862964007613 dimer interface [polypeptide binding]; other site 862964007614 HMMPfam hit to PF02775, TPP_enzyme_C, score 3e-81 862964007615 HMMPfam hit to PF00205, TPP_enzyme_M, score 3.9e-67 862964007616 HMMPfam hit to PF02776, TPP_enzyme_N, score 4.6e-97 862964007617 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 862964007618 HMMPfam hit to PF03553, Na_H_antiporter, score 2.7e-113 862964007619 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 862964007620 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 862964007621 HMMPfam hit to PF00816, Histone_HNS, score 2e-46 862964007622 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 862964007623 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 862964007624 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 862964007625 putative active site [active] 862964007626 putative substrate binding site [chemical binding]; other site 862964007627 putative cosubstrate binding site; other site 862964007628 catalytic site [active] 862964007629 HMMPfam hit to PF01842, ACT, score 7.5e-05 862964007630 HMMPfam hit to PF00551, Formyl_trans_N, score 3.4e-69 862964007631 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 862964007632 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 862964007633 hinge; other site 862964007634 active site 862964007635 HMMPfam hit to PF00275, EPSP_synthase, score 7.7e-228 862964007636 recombination factor protein RarA; Reviewed; Region: PRK13342 862964007637 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 862964007638 Walker A motif; other site 862964007639 ATP binding site [chemical binding]; other site 862964007640 Walker B motif; other site 862964007641 arginine finger; other site 862964007642 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 862964007643 HMMPfam hit to PF00004, AAA, score 3.7e-24 862964007644 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 862964007645 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 862964007646 HMMPfam hit to PF03548, LolA, score 3.1e-76 862964007647 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 862964007648 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 862964007649 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 862964007650 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 862964007651 HMMPfam hit to PF01580, FtsK_SpoIIIE, score 2e-104 862964007652 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 862964007653 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 862964007654 putative DNA binding site [nucleotide binding]; other site 862964007655 putative Zn2+ binding site [ion binding]; other site 862964007656 AsnC family; Region: AsnC_trans_reg; pfam01037 862964007657 HMMPfam hit to PF01037, AsnC_trans_reg, score 1.1e-29 862964007658 DNA repair protein RadA; Region: sms; TIGR00416 862964007659 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 862964007660 Walker A motif/ATP binding site; other site 862964007661 ATP binding site [chemical binding]; other site 862964007662 Walker B motif; other site 862964007663 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 862964007664 Uncharacterized conserved protein [Function unknown]; Region: COG3025 862964007665 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 862964007666 putative active site [active] 862964007667 putative metal binding residues [ion binding]; other site 862964007668 signature motif; other site 862964007669 putative triphosphate binding site [ion binding]; other site 862964007670 HMMPfam hit to PF01928, CYTH, score 2e-54 862964007671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 862964007672 Protein of unknown function (DUF692); Region: DUF692; pfam05114 862964007673 HMMPfam hit to PF05114, DUF692, score 3.2e-202 862964007674 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 862964007675 Predicted membrane protein [Function unknown]; Region: COG2259 862964007676 HMMPfam hit to PF07681, DoxX, score 2.5e-26 862964007677 TIGR00153 family protein; Region: TIGR00153 862964007678 HMMPfam hit to PF01865, PhoU_div, score 4.2e-116 862964007679 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 862964007680 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 862964007681 HMMPfam hit to PF01384, PHO4, score 1.5e-191 862964007682 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 862964007683 Bacterial SH3 domain homologues; Region: SH3b; smart00287 862964007684 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 862964007685 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 862964007686 active site 862964007687 NTP binding site [chemical binding]; other site 862964007688 metal binding triad [ion binding]; metal-binding site 862964007689 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 862964007690 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 862964007691 Zn2+ binding site [ion binding]; other site 862964007692 Mg2+ binding site [ion binding]; other site 862964007693 HMMPfam hit to PF01743, PolyA_pol, score 3.4e-53 862964007694 HMMPfam hit to PF01966, HD, score 5.9e-11 862964007695 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 862964007696 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 862964007697 HMMPfam hit to PF03550, LolB, score 3.4e-71 862964007698 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 862964007699 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 862964007700 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 862964007701 HMMPfam hit to PF00288, GHMP_kinases_N, score 3.3e-15 862964007702 HMMPfam hit to PF08544, GHMP_kinases_C, score 2e-07 862964007703 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 862964007704 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 862964007705 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 862964007706 active site 862964007707 HMMPfam hit to PF00156, Pribosyltran, score 1.3e-34 862964007708 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 862964007709 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 862964007710 active site 862964007711 HIGH motif; other site 862964007712 dimer interface [polypeptide binding]; other site 862964007713 KMSKS motif; other site 862964007714 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 862964007715 RNA binding surface [nucleotide binding]; other site 862964007716 HMMPfam hit to PF01479, S4, score 4.7e-07 862964007717 HMMPfam hit to PF00579, tRNA-synt_1b, score 3.2e-132 862964007718 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 862964007719 HMMPfam hit to PF03749, SfsA, score 6.1e-131 862964007720 multidrug efflux protein; Reviewed; Region: PRK01766 862964007721 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 862964007722 cation binding site [ion binding]; other site 862964007723 HMMPfam hit to PF01554, MatE, score 6.5e-55 862964007724 HMMPfam hit to PF01554, MatE, score 6e-50 862964007725 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 862964007726 Lumazine binding domain; Region: Lum_binding; pfam00677 862964007727 Lumazine binding domain; Region: Lum_binding; pfam00677 862964007728 HMMPfam hit to PF00677, Lum_binding, score 9.1e-43 862964007729 HMMPfam hit to PF00677, Lum_binding, score 7.8e-47 862964007730 aminopeptidase N; Provisional; Region: pepN; PRK14015 862964007731 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 862964007732 active site 862964007733 Zn binding site [ion binding]; other site 862964007734 HMMPfam hit to PF01433, Peptidase_M1, score 5.4e-101 862964007735 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 862964007736 HMMPfam hit to PF00731, AIRC, score 2.6e-105 862964007737 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 862964007738 ATP-grasp domain; Region: ATP-grasp; pfam02222 862964007739 HMMPfam hit to PF02222, ATP-grasp, score 1.2e-99 862964007740 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 862964007741 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 862964007742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 862964007743 homodimer interface [polypeptide binding]; other site 862964007744 catalytic residue [active] 862964007745 HMMPfam hit to PF00155, Aminotran_1_2, score 2.9e-142 862964007746 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 862964007747 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 862964007748 Walker A/P-loop; other site 862964007749 ATP binding site [chemical binding]; other site 862964007750 Q-loop/lid; other site 862964007751 ABC transporter signature motif; other site 862964007752 Walker B; other site 862964007753 D-loop; other site 862964007754 H-loop/switch region; other site 862964007755 HMMPfam hit to PF00005, ABC_tran, score 1.1e-33 862964007756 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 862964007757 HMMPfam hit to PF02361, CbiQ, score 1.2e-06 862964007758 cobalt transport protein CbiM; Validated; Region: PRK06265 862964007759 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 862964007760 HMMPfam hit to PF01891, CbiM, score 1.2e-63 862964007761 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 862964007762 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 862964007763 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 862964007764 DNA binding residues [nucleotide binding] 862964007765 dimer interface [polypeptide binding]; other site 862964007766 putative metal binding site [ion binding]; other site 862964007767 HMMPfam hit to PF00376, MerR, score 1e-13 862964007768 HMMPfam hit to PF09278, MerR-DNA-bind, score 9.4e-18 862964007769 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 862964007770 Sel1-like repeats; Region: SEL1; smart00671 862964007771 Sel1-like repeats; Region: SEL1; smart00671 862964007772 HMMPfam hit to PF08238, Sel1, score 0.019 862964007773 HMMPfam hit to PF08238, Sel1, score 8.1e-06 862964007774 HMMPfam hit to PF08238, Sel1, score 1.1e-08 862964007775 YwiC-like protein; Region: YwiC; pfam14256 862964007776 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 862964007777 homotrimer interaction site [polypeptide binding]; other site 862964007778 putative active site [active] 862964007779 HMMPfam hit to PF01042, Ribonuc_L-PSP, score 4.9e-40 862964007780 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 862964007781 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 862964007782 HMMPfam hit to PF06295, DUF1043, score 3e-70 862964007783 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 862964007784 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 862964007785 HMMPfam hit to PF09335, SNARE_assoc, score 0.00032 862964007786 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 862964007787 5S rRNA interface [nucleotide binding]; other site 862964007788 CTC domain interface [polypeptide binding]; other site 862964007789 L16 interface [polypeptide binding]; other site 862964007790 HMMPfam hit to PF01386, Ribosomal_L25p, score 1.3e-51 862964007791 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 862964007792 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 862964007793 substrate binding site [chemical binding]; other site 862964007794 nucleotide binding site [chemical binding]; other site 862964007795 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 862964007796 dimer interface [polypeptide binding]; other site 862964007797 HMMPfam hit to PF00696, AA_kinase, score 8.3e-06 862964007798 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 862964007799 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 862964007800 GDP-binding site [chemical binding]; other site 862964007801 ACT binding site; other site 862964007802 IMP binding site; other site 862964007803 HMMPfam hit to PF00709, Adenylsucc_synt, score 1.9e-303 862964007804 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 862964007805 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 862964007806 trimer interface [polypeptide binding]; other site 862964007807 active site 862964007808 substrate binding site [chemical binding]; other site 862964007809 CoA binding site [chemical binding]; other site 862964007810 HMMPfam hit to PF00132, Hexapep, score 0.089 862964007811 HMMPfam hit to PF00132, Hexapep, score 1.2 862964007812 HMMPfam hit to PF00132, Hexapep, score 0.82 862964007813 HMMPfam hit to PF00132, Hexapep, score 8.5 862964007814 HMMPfam hit to PF00132, Hexapep, score 27 862964007815 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 862964007816 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 862964007817 DNA binding site [nucleotide binding] 862964007818 domain linker motif; other site 862964007819 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 862964007820 dimerization interface [polypeptide binding]; other site 862964007821 ligand binding site [chemical binding]; other site 862964007822 HMMPfam hit to PF00356, LacI, score 2.3e-12 862964007823 HMMPfam hit to PF00532, Peripla_BP_1, score 4.5e-28 862964007824 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 862964007825 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 862964007826 HMMPfam hit to PF00311, PEPcase, score 1.1e-216 862964007827 Predicted ATPase [General function prediction only]; Region: COG3106 862964007828 HMMPfam hit to PF04317, DUF463, score 0 862964007829 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 862964007830 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 862964007831 peptide binding site [polypeptide binding]; other site 862964007832 HMMPfam hit to PF00496, SBP_bac_5, score 4.3e-68 862964007833 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 862964007834 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 862964007835 dimer interface [polypeptide binding]; other site 862964007836 conserved gate region; other site 862964007837 putative PBP binding loops; other site 862964007838 ABC-ATPase subunit interface; other site 862964007839 HMMPfam hit to PF00528, BPD_transp_1, score 5.3e-53 862964007840 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 862964007841 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 862964007842 dimer interface [polypeptide binding]; other site 862964007843 conserved gate region; other site 862964007844 putative PBP binding loops; other site 862964007845 ABC-ATPase subunit interface; other site 862964007846 HMMPfam hit to PF00528, BPD_transp_1, score 2e-37 862964007847 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 862964007848 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 862964007849 Walker A/P-loop; other site 862964007850 ATP binding site [chemical binding]; other site 862964007851 Q-loop/lid; other site 862964007852 ABC transporter signature motif; other site 862964007853 Walker B; other site 862964007854 D-loop; other site 862964007855 H-loop/switch region; other site 862964007856 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 862964007857 HMMPfam hit to PF00005, ABC_tran, score 2e-47 862964007858 HMMPfam hit to PF08352, oligo_HPY, score 9.9e-23 862964007859 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 862964007860 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 862964007861 Walker A/P-loop; other site 862964007862 ATP binding site [chemical binding]; other site 862964007863 Q-loop/lid; other site 862964007864 ABC transporter signature motif; other site 862964007865 Walker B; other site 862964007866 D-loop; other site 862964007867 H-loop/switch region; other site 862964007868 HMMPfam hit to PF00005, ABC_tran, score 3.8e-48 862964007869 conserved hypothetical integral membrane protein; Region: TIGR00698 862964007870 HMMPfam hit to PF03601, Cons_hypoth698, score 2.3e-176 862964007871 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 862964007872 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 862964007873 dimerization interface 3.5A [polypeptide binding]; other site 862964007874 active site 862964007875 HMMPfam hit to PF01416, PseudoU_synth_1, score 6.2e-35 862964007876 HMMPfam hit to PF01416, PseudoU_synth_1, score 8.1e-39 862964007877 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 862964007878 AMP binding site [chemical binding]; other site 862964007879 metal binding site [ion binding]; metal-binding site 862964007880 active site 862964007881 HMMPfam hit to PF00316, FBPase, score 4e-213 862964007882 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 862964007883 active site 862964007884 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 862964007885 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 862964007886 active site 862964007887 multimer interface [polypeptide binding]; other site 862964007888 HMMPfam hit to PF01680, SOR_SNZ, score 1.7e-132 862964007889 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 862964007890 predicted active site [active] 862964007891 catalytic triad [active] 862964007892 HMMPfam hit to PF01174, SNO, score 4e-57 862964007893 D-lactate dehydrogenase; Provisional; Region: PRK11183 862964007894 FAD binding domain; Region: FAD_binding_4; pfam01565 862964007895 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 862964007896 HMMPfam hit to PF09330, Lact-deh-memb, score 3.9e-230 862964007897 HMMPfam hit to PF01565, FAD_binding_4, score 2e-09 862964007898 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 862964007899 Integrase core domain; Region: rve; pfam00665 862964007900 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 862964007901 NlpC/P60 family; Region: NLPC_P60; pfam00877 862964007902 HMMPfam hit to PF00877, NLPC_P60, score 1.3e-53 862964007903 protease TldD; Provisional; Region: tldD; PRK10735 862964007904 HMMPfam hit to PF01523, PmbA_TldD, score 2e-118 862964007905 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 862964007906 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 862964007907 putative SAM binding site [chemical binding]; other site 862964007908 putative homodimer interface [polypeptide binding]; other site 862964007909 HMMPfam hit to PF00590, TP_methylase, score 7.7e-57 862964007910 LppC putative lipoprotein; Region: LppC; pfam04348 862964007911 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 862964007912 putative ligand binding site [chemical binding]; other site 862964007913 HMMPfam hit to PF04348, LppC, score 0 862964007914 TIGR00252 family protein; Region: TIGR00252 862964007915 HMMPfam hit to PF02021, UPF0102, score 2.6e-56 862964007916 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 862964007917 dimer interface [polypeptide binding]; other site 862964007918 active site 862964007919 outer membrane lipoprotein; Provisional; Region: PRK11023 862964007920 BON domain; Region: BON; pfam04972 862964007921 BON domain; Region: BON; cl02771 862964007922 HMMPfam hit to PF04972, BON, score 2.2e-14 862964007923 HMMPfam hit to PF04972, BON, score 1.4e-11 862964007924 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 862964007925 ATP cone domain; Region: ATP-cone; pfam03477 862964007926 Class I ribonucleotide reductase; Region: RNR_I; cd01679 862964007927 active site 862964007928 dimer interface [polypeptide binding]; other site 862964007929 catalytic residues [active] 862964007930 effector binding site; other site 862964007931 R2 peptide binding site; other site 862964007932 HMMPfam hit to PF03477, ATP-cone, score 5.6e-23 862964007933 HMMPfam hit to PF00317, Ribonuc_red_lgN, score 6.3e-22 862964007934 HMMPfam hit to PF02867, Ribonuc_red_lgC, score 1e-250 862964007935 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 862964007936 dimer interface [polypeptide binding]; other site 862964007937 putative radical transfer pathway; other site 862964007938 diiron center [ion binding]; other site 862964007939 tyrosyl radical; other site 862964007940 HMMPfam hit to PF00268, Ribonuc_red_sm, score 1.9e-09 862964007941 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 862964007942 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 862964007943 E3 interaction surface; other site 862964007944 lipoyl attachment site [posttranslational modification]; other site 862964007945 e3 binding domain; Region: E3_binding; pfam02817 862964007946 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 862964007947 HMMPfam hit to PF00198, 2-oxoacid_dh, score 3.1e-145 862964007948 HMMPfam hit to PF02817, E3_binding, score 4.3e-14 862964007949 HMMPfam hit to PF00364, Biotin_lipoyl, score 1.3e-22 862964007950 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 862964007951 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 862964007952 TPP-binding site [chemical binding]; other site 862964007953 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 862964007954 PYR/PP interface [polypeptide binding]; other site 862964007955 dimer interface [polypeptide binding]; other site 862964007956 TPP binding site [chemical binding]; other site 862964007957 HMMPfam hit to PF02779, Transket_pyr, score 1.7e-73 862964007958 HMMPfam hit to PF00676, E1_dh, score 1.8e-42 862964007959 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 862964007960 HMMPfam hit to PF00753, Lactamase_B, score 7.3e-41 862964007961 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 862964007962 active site 862964007963 HMMPfam hit to PF01026, TatD_DNase, score 2.3e-59 862964007964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 862964007965 Peptidase M15; Region: Peptidase_M15_3; cl01194 862964007966 HMMPfam hit to PF05951, Peptidase_M15_2, score 4.3e-84 862964007967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 862964007968 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 862964007969 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 862964007970 carboxy-terminal protease; Provisional; Region: PRK11186 862964007971 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 862964007972 protein binding site [polypeptide binding]; other site 862964007973 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 862964007974 Catalytic dyad [active] 862964007975 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 862964007976 HMMPfam hit to PF03572, Peptidase_S41, score 6.1e-62 862964007977 HMMPfam hit to PF00595, PDZ, score 2.2e-18 862964007978 ProP expression regulator; Provisional; Region: PRK04950 862964007979 ProQ/FINO family; Region: ProQ; smart00945 862964007980 KOW motif; Region: KOW; pfam00467 862964007981 HMMPfam hit to PF00467, KOW, score 8.4e-06 862964007982 HMMPfam hit to PF04352, ProQ, score 1.5e-64 862964007983 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 862964007984 Paraquat-inducible protein A; Region: PqiA; pfam04403 862964007985 Paraquat-inducible protein A; Region: PqiA; pfam04403 862964007986 HMMPfam hit to PF04403, PqiA, score 2.1e-99 862964007987 HMMPfam hit to PF04403, PqiA, score 1.3e-110 862964007988 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 862964007989 mce related protein; Region: MCE; pfam02470 862964007990 mce related protein; Region: MCE; pfam02470 862964007991 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 862964007992 mce related protein; Region: MCE; pfam02470 862964007993 mce related protein; Region: MCE; pfam02470 862964007994 HMMPfam hit to PF02470, MCE, score 6.9e-27 862964007995 HMMPfam hit to PF02470, MCE, score 0.00018 862964007996 HMMPfam hit to PF02470, MCE, score 0.0042 862964007997 HMMPfam hit to PF02470, MCE, score 1.6e-05 862964007998 HMMPfam hit to PF02470, MCE, score 1.3e-12 862964007999 HMMPfam hit to PF02470, MCE, score 1.4e-08 862964008000 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 862964008001 MoaE homodimer interface [polypeptide binding]; other site 862964008002 MoaD interaction [polypeptide binding]; other site 862964008003 active site residues [active] 862964008004 HMMPfam hit to PF02391, MoaE, score 4.2e-63 862964008005 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 862964008006 MoaE interaction surface [polypeptide binding]; other site 862964008007 MoeB interaction surface [polypeptide binding]; other site 862964008008 thiocarboxylated glycine; other site 862964008009 HMMPfam hit to PF02597, ThiS, score 1.4e-24 862964008010 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 862964008011 trimer interface [polypeptide binding]; other site 862964008012 dimer interface [polypeptide binding]; other site 862964008013 putative active site [active] 862964008014 HMMPfam hit to PF01967, MoaC, score 1.6e-95 862964008015 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 862964008016 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 862964008017 FeS/SAM binding site; other site 862964008018 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 862964008019 HMMPfam hit to PF06463, Mob_synth_C, score 2.3e-47 862964008020 HMMPfam hit to PF04055, Radical_SAM, score 1.9e-41 862964008021 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 862964008022 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 862964008023 Hemerythrin-like domain; Region: Hr-like; cd12108 862964008024 Fe binding site [ion binding]; other site 862964008025 HMMPfam hit to PF04405, ScdA_N, score 2.3e-43 862964008026 HMMPfam hit to PF01814, Hemerythrin, score 7.4e-06 862964008027 HMMPfam hit to PF01814, Hemerythrin, score 8.1e-06 862964008029 HMMPfam hit to PF01380, SIS, score 1e-39 862964008030 HMMPfam hit to PF00571, CBS, score 1.9e-22 862964008031 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 862964008032 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 862964008033 active site 862964008034 motif I; other site 862964008035 motif II; other site 862964008036 HMMPfam hit to PF00702, Hydrolase, score 3.2e-06 862964008037 TIGR01666 family membrane protein; Region: YCCS 862964008038 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 862964008039 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 862964008040 HMMPfam hit to PF05976, DUF893, score 0 862964008041 hypothetical protein; Provisional; Region: PRK01904 862964008042 hypothetical protein; Provisional; Region: PRK03641 862964008043 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 862964008044 putative inner membrane peptidase; Provisional; Region: PRK11778 862964008045 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 862964008046 tandem repeat interface [polypeptide binding]; other site 862964008047 oligomer interface [polypeptide binding]; other site 862964008048 active site residues [active] 862964008049 HMMPfam hit to PF08496, Peptidase_S49_N, score 2.9e-96 862964008050 HMMPfam hit to PF01343, Peptidase_S49, score 1.1e-72 862964008051 electron transport complex protein RsxA; Provisional; Region: PRK05151 862964008052 HMMPfam hit to PF02508, Rnf-Nqr, score 4.6e-114 862964008053 electron transport complex protein RnfB; Provisional; Region: PRK05113 862964008054 Putative Fe-S cluster; Region: FeS; pfam04060 862964008055 4Fe-4S binding domain; Region: Fer4; pfam00037 862964008056 HMMPfam hit to PF04060, FeS, score 9.1e-15 862964008057 HMMPfam hit to PF00037, Fer4, score 2.9e-07 862964008058 HMMPfam hit to PF00037, Fer4, score 1.3e-05 862964008059 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 862964008060 SLBB domain; Region: SLBB; pfam10531 862964008061 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 862964008062 HMMPfam hit to PF01512, Complex1_51K, score 3e-104 862964008063 HMMPfam hit to PF00037, Fer4, score 0.0056 862964008064 HMMPfam hit to PF00037, Fer4, score 0.0009 862964008065 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 862964008066 HMMPfam hit to PF03116, NQR2_RnfD_RnfE, score 2.8e-210 862964008067 electron transport complex protein RnfG; Validated; Region: PRK01908 862964008068 HMMPfam hit to PF04205, FMN_bind, score 6.3e-26 862964008069 electron transport complex RsxE subunit; Provisional; Region: PRK12405 862964008070 HMMPfam hit to PF02508, Rnf-Nqr, score 3.8e-127 862964008071 endonuclease III; Provisional; Region: PRK10702 862964008072 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 862964008073 minor groove reading motif; other site 862964008074 helix-hairpin-helix signature motif; other site 862964008075 substrate binding pocket [chemical binding]; other site 862964008076 active site 862964008077 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 862964008078 HMMPfam hit to PF00730, HhH-GPD, score 2.3e-19 862964008079 HMMPfam hit to PF00633, HHH, score 1e-06 862964008080 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 862964008081 Na2 binding site [ion binding]; other site 862964008082 putative substrate binding site 1 [chemical binding]; other site 862964008083 Na binding site 1 [ion binding]; other site 862964008084 putative substrate binding site 2 [chemical binding]; other site 862964008085 HMMPfam hit to PF00209, SNF, score 7.4e-15 862964008086 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 862964008087 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 862964008088 Walker A/P-loop; other site 862964008089 ATP binding site [chemical binding]; other site 862964008090 Q-loop/lid; other site 862964008091 ABC transporter signature motif; other site 862964008092 Walker B; other site 862964008093 D-loop; other site 862964008094 H-loop/switch region; other site 862964008095 molybdenum-pterin binding domain; Region: Mop; TIGR00638 862964008096 HMMPfam hit to PF03459, TOBE, score 2.1e-14 862964008097 HMMPfam hit to PF00005, ABC_tran, score 6.6e-65 862964008098 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 862964008099 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 862964008100 dimer interface [polypeptide binding]; other site 862964008101 conserved gate region; other site 862964008102 putative PBP binding loops; other site 862964008103 ABC-ATPase subunit interface; other site 862964008104 HMMPfam hit to PF00528, BPD_transp_1, score 1.5e-22 862964008105 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 862964008106 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 862964008107 HMMPfam hit to PF01547, SBP_bac_1, score 8.5e-17 862964008108 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 862964008109 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 862964008110 molybdenum-pterin binding domain; Region: Mop; TIGR00638 862964008111 HMMPfam hit to PF00126, HTH_1, score 6.7e-17 862964008112 HMMPfam hit to PF03459, TOBE, score 4.7e-11 862964008113 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 862964008114 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 862964008115 HMMPfam hit to PF00535, Glycos_transf_2, score 6.7e-31 862964008116 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 862964008117 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 862964008118 active site 862964008119 HMMPfam hit to PF00535, Glycos_transf_2, score 6e-38 862964008120 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 862964008121 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; cl01298 862964008122 HMMPfam hit to PF01755, Glyco_transf_25, score 2.8e-74 862964008123 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 862964008124 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 862964008125 putative ADP-binding pocket [chemical binding]; other site 862964008126 HMMPfam hit to PF00534, Glycos_transf_1, score 2.2e-58 862964008127 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 862964008128 HMMPfam hit to PF07922, Glyco_transf_52, score 4.6e-179 862964008129 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 862964008130 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 862964008131 HMMPfam hit to PF01943, Polysacc_synt, score 5.6e-06 862964008132 Uncharacterized conserved protein [Function unknown]; Region: COG1434 862964008133 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 862964008134 putative active site [active] 862964008135 HMMPfam hit to PF02698, DUF218, score 2.5e-43 862964008136 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 862964008137 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 862964008138 THF binding site; other site 862964008139 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 862964008140 substrate binding site [chemical binding]; other site 862964008141 THF binding site; other site 862964008142 zinc-binding site [ion binding]; other site 862964008143 HMMPfam hit to PF01717, Meth_synt_2, score 7.3e-231 862964008144 HMMPfam hit to PF08267, Meth_synt_1, score 4.5e-189 862964008145 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 862964008146 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 862964008147 HMMPfam hit to PF03739, YjgP_YjgQ, score 9.5e-112 862964008148 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 862964008149 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 862964008150 HMMPfam hit to PF03739, YjgP_YjgQ, score 1.3e-107 862964008151 multifunctional aminopeptidase A; Provisional; Region: PRK00913 862964008152 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 862964008153 interface (dimer of trimers) [polypeptide binding]; other site 862964008154 Substrate-binding/catalytic site; other site 862964008155 Zn-binding sites [ion binding]; other site 862964008156 HMMPfam hit to PF02789, Peptidase_M17_N, score 4.3e-42 862964008157 HMMPfam hit to PF00883, Peptidase_M17, score 2.6e-202 862964008158 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 862964008159 HMMPfam hit to PF02028, BCCT, score 0 862964008160 sensor protein QseC; Provisional; Region: PRK10337 862964008161 HAMP domain; Region: HAMP; pfam00672 862964008162 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 862964008163 dimer interface [polypeptide binding]; other site 862964008164 phosphorylation site [posttranslational modification] 862964008165 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 862964008166 ATP binding site [chemical binding]; other site 862964008167 Mg2+ binding site [ion binding]; other site 862964008168 G-X-G motif; other site 862964008169 HMMPfam hit to PF02518, HATPase_c, score 1.2e-25 862964008170 HMMPfam hit to PF00512, HisKA, score 2e-11 862964008171 HMMPfam hit to PF00672, HAMP, score 2.9e-08 862964008172 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 862964008173 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 862964008174 active site 862964008175 phosphorylation site [posttranslational modification] 862964008176 intermolecular recognition site; other site 862964008177 dimerization interface [polypeptide binding]; other site 862964008178 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 862964008179 DNA binding site [nucleotide binding] 862964008180 HMMPfam hit to PF00486, Trans_reg_C, score 3.2e-23 862964008181 HMMPfam hit to PF00072, Response_reg, score 1.2e-34 862964008182 TIGR00156 family protein; Region: TIGR00156 862964008183 HMMPfam hit to PF04076, DUF388, score 4.5e-72 862964008184 potential frameshift: common BLAST hit: gi|113460750|ref|YP_718817.1| mannose-6-phosphate isomerase 862964008185 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 862964008186 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 862964008187 HMMPfam hit to PF01238, PMI_typeI, score 3.6e-20 862964008188 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 862964008189 HPr interaction site; other site 862964008190 glycerol kinase (GK) interaction site [polypeptide binding]; other site 862964008191 active site 862964008192 phosphorylation site [posttranslational modification] 862964008193 HMMPfam hit to PF00358, PTS_EIIA_1, score 4.2e-68 862964008194 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 862964008195 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 862964008196 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 862964008197 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 862964008198 HMMPfam hit to PF02896, PEP-utilizers_C, score 2.7e-195 862964008199 HMMPfam hit to PF00391, PEP-utilizers, score 1.4e-35 862964008200 HMMPfam hit to PF05524, PEP-utilisers_N, score 8.5e-57 862964008201 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 862964008202 dimerization domain swap beta strand [polypeptide binding]; other site 862964008203 regulatory protein interface [polypeptide binding]; other site 862964008204 active site 862964008205 regulatory phosphorylation site [posttranslational modification]; other site 862964008206 HMMPfam hit to PF00381, PTS-HPr, score 1.2e-40 862964008207 GTPase RsgA; Reviewed; Region: PRK12288 862964008208 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 862964008209 RNA binding site [nucleotide binding]; other site 862964008210 homodimer interface [polypeptide binding]; other site 862964008211 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 862964008212 GTPase/Zn-binding domain interface [polypeptide binding]; other site 862964008213 GTP/Mg2+ binding site [chemical binding]; other site 862964008214 G4 box; other site 862964008215 G5 box; other site 862964008216 G1 box; other site 862964008217 Switch I region; other site 862964008218 G2 box; other site 862964008219 G3 box; other site 862964008220 Switch II region; other site 862964008221 HMMPfam hit to PF03193, DUF258, score 7.2e-158 862964008222 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 862964008223 catalytic site [active] 862964008224 putative active site [active] 862964008225 putative substrate binding site [chemical binding]; other site 862964008226 dimer interface [polypeptide binding]; other site 862964008227 HMMPfam hit to PF00929, Exonuc_X-T, score 5.6e-42 862964008228 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 862964008229 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 862964008230 Mg++ binding site [ion binding]; other site 862964008231 putative catalytic motif [active] 862964008232 substrate binding site [chemical binding]; other site 862964008233 HMMPfam hit to PF00953, Glycos_transf_4, score 3e-09 862964008234 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 862964008235 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 862964008236 metal binding triad; other site 862964008237 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 862964008238 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 862964008239 Zn2+ binding site [ion binding]; other site 862964008240 Mg2+ binding site [ion binding]; other site 862964008241 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 862964008242 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 862964008243 HMMPfam hit to PF01842, ACT, score 9.5e-06 862964008244 HMMPfam hit to PF01842, ACT, score 4.3e-06 862964008245 HMMPfam hit to PF01966, HD, score 3.2e-20 862964008246 HMMPfam hit to PF08335, GlnD_UR_UTase, score 5.3e-103 862964008247 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 862964008248 active site 862964008249 HMMPfam hit to PF00557, Peptidase_M24, score 2.5e-88 862964008250 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 862964008251 HMMPfam hit to PF01521, Fe-S_biosyn, score 5.6e-42 862964008252 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 862964008253 HMMPfam hit to PF06062, UPF0231, score 9.4e-54 862964008254 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 862964008255 Transglycosylase; Region: Transgly; pfam00912 862964008256 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 862964008257 HMMPfam hit to PF00912, Transgly, score 1.2e-81 862964008258 HMMPfam hit to PF00905, Transpeptidase, score 4.8e-11 862964008259 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 862964008260 ATP binding site [chemical binding]; other site 862964008261 active site 862964008262 substrate binding site [chemical binding]; other site 862964008263 HMMPfam hit to PF01259, SAICAR_synt, score 7.9e-168 862964008264 argininosuccinate synthase; Validated; Region: PRK05370 862964008265 argininosuccinate synthase; Provisional; Region: PRK13820 862964008266 HMMPfam hit to PF00764, Arginosuc_synth, score 2.2e-183 862964008267 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 862964008268 HMMPfam hit to PF05525, Branch_AA_trans, score 0.004 862964008269 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 862964008270 putative active site [active] 862964008271 HMMPfam hit to PF03746, LamB_YcsF, score 5.5e-163 862964008272 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 862964008273 HMMPfam hit to PF02626, AHS2, score 3.9e-191 862964008274 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 862964008275 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 862964008276 HMMPfam hit to PF02682, AHS1, score 1.2e-152 862964008277 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 862964008278 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 862964008279 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 862964008280 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 862964008281 YadA-like C-terminal region; Region: YadA; pfam03895 862964008282 HMMPfam hit to PF03895, YadA, score 3.6e-41 862964008283 HMMPfam hit to PF05662, HIM, score 4.7e-08 862964008284 HMMPfam hit to PF05658, Hep_Hag, score 0.44 862964008285 HMMPfam hit to PF05658, Hep_Hag, score 0.00021 862964008286 HMMPfam hit to PF05658, Hep_Hag, score 3.9e-05 862964008287 HMMPfam hit to PF05662, HIM, score 0.00036 862964008288 HMMPfam hit to PF05662, HIM, score 0.12 862964008289 HMMPfam hit to PF05662, HIM, score 7.2 862964008290 HMMPfam hit to PF05662, HIM, score 2.8e-05 862964008291 exoribonuclease II; Provisional; Region: PRK05054 862964008292 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 862964008293 RNB domain; Region: RNB; pfam00773 862964008294 S1 RNA binding domain; Region: S1; pfam00575 862964008295 RNA binding site [nucleotide binding]; other site 862964008296 HMMPfam hit to PF00575, S1, score 4.5e-15 862964008297 HMMPfam hit to PF00773, RNB, score 2.8e-120 862964008298 HMMPfam hit to PF08206, OB_RNB, score 5.8e-17 862964008299 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 862964008300 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 862964008301 NAD binding site [chemical binding]; other site 862964008302 homotetramer interface [polypeptide binding]; other site 862964008303 homodimer interface [polypeptide binding]; other site 862964008304 substrate binding site [chemical binding]; other site 862964008305 active site 862964008306 HMMPfam hit to PF00106, adh_short, score 0.00098 862964008307 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 862964008308 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 862964008309 G1 box; other site 862964008310 putative GEF interaction site [polypeptide binding]; other site 862964008311 GTP/Mg2+ binding site [chemical binding]; other site 862964008312 Switch I region; other site 862964008313 G2 box; other site 862964008314 G3 box; other site 862964008315 Switch II region; other site 862964008316 G4 box; other site 862964008317 G5 box; other site 862964008318 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 862964008319 HMMPfam hit to PF00009, GTP_EFTU, score 5.9e-64 862964008320 HMMPfam hit to PF03144, GTP_EFTU_D2, score 2.8e-11 862964008321 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 862964008322 HMMPfam hit to PF05437, AzlD, score 2.1e-37 862964008323 4-azaleucine resistance probable transporter AzlC; Region: azlC; TIGR00346 862964008324 HMMPfam hit to PF03591, AzlC, score 6.5e-54 862964008325 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 862964008326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 862964008327 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 862964008328 putative dimerization interface [polypeptide binding]; other site 862964008329 HMMPfam hit to PF03466, LysR_substrate, score 3.7e-39 862964008330 HMMPfam hit to PF00126, HTH_1, score 2.4e-20 862964008331 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 862964008332 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 862964008333 phosphate binding site [ion binding]; other site 862964008334 HMMPfam hit to PF01070, FMN_dh, score 1.8e-234 862964008335 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 862964008336 HMMPfam hit to PF01177, Asp_Glu_race, score 2.5e-90 862964008337 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 862964008338 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 862964008339 generic binding surface II; other site 862964008340 ssDNA binding site; other site 862964008341 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 862964008342 ATP binding site [chemical binding]; other site 862964008343 putative Mg++ binding site [ion binding]; other site 862964008344 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 862964008345 nucleotide binding region [chemical binding]; other site 862964008346 ATP-binding site [chemical binding]; other site 862964008347 HMMPfam hit to PF00271, Helicase_C, score 5.1e-21 862964008348 HMMPfam hit to PF00270, DEAD, score 4.7e-37 862964008349 HMMPfam hit to PF01336, tRNA_anti, score 3.4e-09 862964008350 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 862964008351 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 862964008352 Zn2+ binding site [ion binding]; other site 862964008353 Mg2+ binding site [ion binding]; other site 862964008354 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 862964008355 synthetase active site [active] 862964008356 NTP binding site [chemical binding]; other site 862964008357 metal binding site [ion binding]; metal-binding site 862964008358 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 862964008359 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 862964008360 HMMPfam hit to PF02824, TGS, score 1.6e-24 862964008361 HMMPfam hit to PF04607, RelA_SpoT, score 2.6e-37 862964008362 HMMPfam hit to PF01966, HD, score 1.4e-15 862964008363 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 862964008364 HMMPfam hit to PF01192, RNA_pol_Rpb6, score 3.5e-22 862964008365 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 862964008366 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 862964008367 catalytic site [active] 862964008368 HMMPfam hit to PF00625, Guanylate_kin, score 1.5e-64