-- dump date 20140205_000729 -- class Genbank::misc_feature -- table misc_feature_note -- id note 668336000001 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 668336000002 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 668336000003 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 668336000004 non-specific DNA binding site [nucleotide binding]; other site 668336000005 salt bridge; other site 668336000006 sequence-specific DNA binding site [nucleotide binding]; other site 668336000007 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 668336000008 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 668336000009 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 668336000010 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 668336000011 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 668336000012 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 668336000013 Predicted transcriptional regulator [Transcription]; Region: COG2932 668336000014 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 668336000015 Catalytic site [active] 668336000016 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 668336000017 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 668336000018 substrate-cofactor binding pocket; other site 668336000019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336000020 catalytic residue [active] 668336000021 potential frameshift: common BLAST hit: gi|251793212|ref|YP_003007940.1| adenosylmethionine-8-amino-7-oxononanoate transaminase 668336000022 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 668336000023 inhibitor-cofactor binding pocket; inhibition site 668336000024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336000025 catalytic residue [active] 668336000026 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 668336000027 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 668336000028 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 668336000029 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 668336000030 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 668336000031 potential frameshift: common BLAST hit: gi|251793219|ref|YP_003007947.1| glutamate 5-kinase 668336000032 PUA domain; Region: PUA; pfam01472 668336000033 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 668336000034 homotetrameric interface [polypeptide binding]; other site 668336000035 putative phosphate binding site [ion binding]; other site 668336000036 putative allosteric binding site; other site 668336000037 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 668336000038 Uncharacterized conserved protein [Function unknown]; Region: COG2966 668336000039 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 668336000040 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 668336000041 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 668336000042 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 668336000043 folate binding site [chemical binding]; other site 668336000044 NADP+ binding site [chemical binding]; other site 668336000045 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 668336000046 Domain of unknown function DUF21; Region: DUF21; pfam01595 668336000047 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 668336000048 Transporter associated domain; Region: CorC_HlyC; smart01091 668336000049 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 668336000050 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 668336000051 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 668336000052 active site 668336000053 DNA polymerase III subunit delta'; Validated; Region: PRK06871 668336000054 DNA polymerase III subunit delta'; Validated; Region: PRK08485 668336000055 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 668336000056 thymidylate kinase; Validated; Region: tmk; PRK00698 668336000057 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 668336000058 TMP-binding site; other site 668336000059 ATP-binding site [chemical binding]; other site 668336000060 conserved hypothetical protein, YceG family; Region: TIGR00247 668336000061 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 668336000062 dimerization interface [polypeptide binding]; other site 668336000063 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 668336000064 Nitrogen regulatory protein P-II; Region: P-II; smart00938 668336000065 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 668336000066 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 668336000067 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 668336000068 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 668336000069 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 668336000070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 668336000071 putative aldolase; Validated; Region: PRK08130 668336000072 intersubunit interface [polypeptide binding]; other site 668336000073 active site 668336000074 Zn2+ binding site [ion binding]; other site 668336000075 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 668336000076 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 668336000077 Metal-binding active site; metal-binding site 668336000078 fructuronate transporter; Provisional; Region: PRK10034; cl15264 668336000079 GntP family permease; Region: GntP_permease; pfam02447 668336000080 Predicted peptidase [General function prediction only]; Region: COG4099 668336000081 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 668336000082 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 668336000083 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 668336000084 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 668336000085 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 668336000086 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 668336000087 active site 668336000088 motif I; other site 668336000089 motif II; other site 668336000090 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 668336000091 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 668336000092 MutS domain I; Region: MutS_I; pfam01624 668336000093 MutS domain II; Region: MutS_II; pfam05188 668336000094 MutS domain III; Region: MutS_III; pfam05192 668336000095 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 668336000096 Walker A/P-loop; other site 668336000097 ATP binding site [chemical binding]; other site 668336000098 Q-loop/lid; other site 668336000099 ABC transporter signature motif; other site 668336000100 Walker B; other site 668336000101 D-loop; other site 668336000102 H-loop/switch region; other site 668336000103 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 668336000104 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 668336000105 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 668336000106 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 668336000107 S-adenosylmethionine binding site [chemical binding]; other site 668336000108 hypothetical protein; Provisional; Region: PRK11027 668336000109 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 668336000110 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 668336000111 catalytic residues [active] 668336000112 hinge region; other site 668336000113 alpha helical domain; other site 668336000114 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 668336000115 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 668336000116 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 668336000117 GTP binding site; other site 668336000118 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 668336000119 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 668336000120 active site 668336000121 phosphorylation site [posttranslational modification] 668336000122 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 668336000123 dimerization domain swap beta strand [polypeptide binding]; other site 668336000124 regulatory protein interface [polypeptide binding]; other site 668336000125 active site 668336000126 regulatory phosphorylation site [posttranslational modification]; other site 668336000127 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 668336000128 dimerization domain swap beta strand [polypeptide binding]; other site 668336000129 regulatory protein interface [polypeptide binding]; other site 668336000130 active site 668336000131 regulatory phosphorylation site [posttranslational modification]; other site 668336000132 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 668336000133 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 668336000134 putative substrate binding site [chemical binding]; other site 668336000135 putative ATP binding site [chemical binding]; other site 668336000136 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 668336000137 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 668336000138 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 668336000139 active site 668336000140 P-loop; other site 668336000141 phosphorylation site [posttranslational modification] 668336000142 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 668336000143 potential frameshift: common BLAST hit: gi|238896421|ref|YP_002921159.1| putative LysR-family transcriptional regulator 668336000144 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; cl11398 668336000145 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 668336000146 YCII-related domain; Region: YCII; cl00999 668336000147 Uncharacterized conserved protein [Function unknown]; Region: COG1359 668336000148 Uncharacterized conserved protein [Function unknown]; Region: COG1359 668336000149 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 668336000150 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 668336000151 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 668336000152 putative homodimer interface [polypeptide binding]; other site 668336000153 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 668336000154 heterodimer interface [polypeptide binding]; other site 668336000155 homodimer interface [polypeptide binding]; other site 668336000156 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 668336000157 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 668336000158 23S rRNA interface [nucleotide binding]; other site 668336000159 L7/L12 interface [polypeptide binding]; other site 668336000160 putative thiostrepton binding site; other site 668336000161 L25 interface [polypeptide binding]; other site 668336000162 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 668336000163 mRNA/rRNA interface [nucleotide binding]; other site 668336000164 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 668336000165 23S rRNA interface [nucleotide binding]; other site 668336000166 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 668336000167 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 668336000168 core dimer interface [polypeptide binding]; other site 668336000169 peripheral dimer interface [polypeptide binding]; other site 668336000170 L10 interface [polypeptide binding]; other site 668336000171 L11 interface [polypeptide binding]; other site 668336000172 putative EF-Tu interaction site [polypeptide binding]; other site 668336000173 putative EF-G interaction site [polypeptide binding]; other site 668336000174 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 668336000175 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 668336000176 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 668336000177 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 668336000178 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 668336000179 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 668336000180 RPB1 interaction site [polypeptide binding]; other site 668336000181 RPB11 interaction site [polypeptide binding]; other site 668336000182 RPB10 interaction site [polypeptide binding]; other site 668336000183 RPB3 interaction site [polypeptide binding]; other site 668336000184 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 668336000185 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 668336000186 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 668336000187 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 668336000188 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 668336000189 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 668336000190 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 668336000191 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 668336000192 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 668336000193 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 668336000194 DNA binding site [nucleotide binding] 668336000195 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 668336000196 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 668336000197 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 668336000198 23S rRNA interface [nucleotide binding]; other site 668336000199 putative translocon interaction site; other site 668336000200 signal recognition particle (SRP54) interaction site; other site 668336000201 L23 interface [polypeptide binding]; other site 668336000202 trigger factor interaction site; other site 668336000203 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 668336000204 23S rRNA interface [nucleotide binding]; other site 668336000205 5S rRNA interface [nucleotide binding]; other site 668336000206 putative antibiotic binding site [chemical binding]; other site 668336000207 L25 interface [polypeptide binding]; other site 668336000208 L27 interface [polypeptide binding]; other site 668336000209 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 668336000210 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 668336000211 G-X-X-G motif; other site 668336000212 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 668336000213 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 668336000214 protein-rRNA interface [nucleotide binding]; other site 668336000215 putative translocon binding site; other site 668336000216 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 668336000217 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 668336000218 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 668336000219 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 668336000220 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 668336000221 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 668336000222 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 668336000223 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 668336000224 Transcriptional regulator [Transcription]; Region: LysR; COG0583 668336000225 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 668336000226 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; cl11398 668336000227 dimerization interface [polypeptide binding]; other site 668336000228 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 668336000229 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 668336000230 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 668336000231 putative acyltransferase; Provisional; Region: PRK05790 668336000232 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 668336000233 dimer interface [polypeptide binding]; other site 668336000234 active site 668336000235 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 668336000236 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 668336000237 putative DNA binding site [nucleotide binding]; other site 668336000238 dimerization interface [polypeptide binding]; other site 668336000239 putative Zn2+ binding site [ion binding]; other site 668336000240 AsnC family; Region: AsnC_trans_reg; pfam01037 668336000241 Predicted membrane protein [Function unknown]; Region: COG1288 668336000242 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 668336000243 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 668336000244 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 668336000245 putative substrate binding site [chemical binding]; other site 668336000246 nucleotide binding site [chemical binding]; other site 668336000247 nucleotide binding site [chemical binding]; other site 668336000248 homodimer interface [polypeptide binding]; other site 668336000249 ornithine carbamoyltransferase; Provisional; Region: PRK01713 668336000250 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 668336000251 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 668336000252 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 668336000253 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 668336000254 putative ion selectivity filter; other site 668336000255 putative pore gating glutamate residue; other site 668336000256 putative H+/Cl- coupling transport residue; other site 668336000257 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 668336000258 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 668336000259 FMN binding site [chemical binding]; other site 668336000260 active site 668336000261 catalytic residues [active] 668336000262 substrate binding site [chemical binding]; other site 668336000263 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 668336000264 dimer interface [polypeptide binding]; other site 668336000265 active site 668336000266 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 668336000267 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 668336000268 putative DNA binding site [nucleotide binding]; other site 668336000269 putative Zn2+ binding site [ion binding]; other site 668336000270 AsnC family; Region: AsnC_trans_reg; pfam01037 668336000271 uridine phosphorylase; Provisional; Region: PRK11178 668336000272 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 668336000273 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 668336000274 Domain of unknown function DUF20; Region: UPF0118; pfam01594 668336000275 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 668336000276 ArsC family; Region: ArsC; pfam03960 668336000277 catalytic residues [active] 668336000278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 668336000279 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 668336000280 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 668336000281 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 668336000282 FeS/SAM binding site; other site 668336000283 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 668336000284 Low molecular weight phosphatase family; Region: LMWPc; cd00115 668336000285 active site 668336000286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 668336000287 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 668336000288 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 668336000289 Protein of unknown function (DUF541); Region: SIMPL; cl01077 668336000290 RNase E inhibitor protein; Provisional; Region: PRK11191 668336000291 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 668336000292 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 668336000293 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 668336000294 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 668336000295 TrkA-N domain; Region: TrkA_N; pfam02254 668336000296 TrkA-C domain; Region: TrkA_C; pfam02080 668336000297 TrkA-N domain; Region: TrkA_N; pfam02254 668336000298 TrkA-C domain; Region: TrkA_C; pfam02080 668336000299 16S rRNA methyltransferase B; Provisional; Region: PRK10901 668336000300 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 668336000301 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 668336000302 S-adenosylmethionine binding site [chemical binding]; other site 668336000303 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 668336000304 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 668336000305 putative active site [active] 668336000306 substrate binding site [chemical binding]; other site 668336000307 putative cosubstrate binding site; other site 668336000308 catalytic site [active] 668336000309 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 668336000310 substrate binding site [chemical binding]; other site 668336000311 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 668336000312 active site 668336000313 catalytic residues [active] 668336000314 metal binding site [ion binding]; metal-binding site 668336000315 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 668336000316 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 668336000317 active site 668336000318 motif I; other site 668336000319 motif II; other site 668336000320 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 668336000321 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 668336000322 Walker A/P-loop; other site 668336000323 ATP binding site [chemical binding]; other site 668336000324 Q-loop/lid; other site 668336000325 ABC transporter signature motif; other site 668336000326 Walker B; other site 668336000327 D-loop; other site 668336000328 H-loop/switch region; other site 668336000329 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 668336000330 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 668336000331 dimer interface [polypeptide binding]; other site 668336000332 conserved gate region; other site 668336000333 ABC-ATPase subunit interface; other site 668336000334 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 668336000335 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 668336000336 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 668336000337 substrate binding site [chemical binding]; other site 668336000338 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 668336000339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 668336000340 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 668336000341 G1 box; other site 668336000342 GTP/Mg2+ binding site [chemical binding]; other site 668336000343 Switch I region; other site 668336000344 G2 box; other site 668336000345 G3 box; other site 668336000346 Switch II region; other site 668336000347 G4 box; other site 668336000348 G5 box; other site 668336000349 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 668336000350 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 668336000351 Walker A motif; other site 668336000352 ATP binding site [chemical binding]; other site 668336000353 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 668336000354 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 668336000355 synthetase active site [active] 668336000356 NTP binding site [chemical binding]; other site 668336000357 metal binding site [ion binding]; metal-binding site 668336000358 PhoH-like protein; Region: PhoH; cl17668 668336000359 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 668336000360 Family description; Region: UvrD_C_2; pfam13538 668336000361 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 668336000362 Sel1-like repeats; Region: SEL1; smart00671 668336000363 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 668336000364 Sel1-like repeats; Region: SEL1; smart00671 668336000365 Sel1-like repeats; Region: SEL1; smart00671 668336000366 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 668336000367 non-specific DNA binding site [nucleotide binding]; other site 668336000368 salt bridge; other site 668336000369 sequence-specific DNA binding site [nucleotide binding]; other site 668336000370 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 668336000371 ATP binding site [chemical binding]; other site 668336000372 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 668336000373 putative Mg++ binding site [ion binding]; other site 668336000374 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 668336000375 DNA methylase; Region: N6_N4_Mtase; pfam01555 668336000376 DNA methylase; Region: N6_N4_Mtase; pfam01555 668336000377 TniQ; Region: TniQ; pfam06527 668336000378 Bacterial TniB protein; Region: TniB; pfam05621 668336000379 AAA domain; Region: AAA_22; pfam13401 668336000380 Helix-turn-helix domain; Region: HTH_28; pfam13518 668336000381 Winged helix-turn helix; Region: HTH_29; pfam13551 668336000382 Homeodomain-like domain; Region: HTH_32; pfam13565 668336000383 Integrase core domain; Region: rve; pfam00665 668336000384 Integrase core domain; Region: rve_3; cl15866 668336000385 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 668336000386 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 668336000387 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 668336000388 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 668336000389 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 668336000390 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 668336000391 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 668336000392 NodB motif; other site 668336000393 putative active site [active] 668336000394 putative catalytic site [active] 668336000395 Zn binding site [ion binding]; other site 668336000396 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 668336000397 Peptidase family M23; Region: Peptidase_M23; pfam01551 668336000398 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 668336000399 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 668336000400 active site 668336000401 substrate binding site [chemical binding]; other site 668336000402 metal binding site [ion binding]; metal-binding site 668336000403 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 668336000404 catalytic core [active] 668336000405 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 668336000406 hypothetical protein; Validated; Region: PRK05445 668336000407 VacJ like lipoprotein; Region: VacJ; pfam04333 668336000408 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 668336000409 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 668336000410 substrate binding site [chemical binding]; other site 668336000411 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 668336000412 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 668336000413 Walker A motif; other site 668336000414 ATP binding site [chemical binding]; other site 668336000415 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 668336000416 Walker B motif; other site 668336000417 arginine finger; other site 668336000418 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 668336000419 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 668336000420 active site 668336000421 HslU subunit interaction site [polypeptide binding]; other site 668336000422 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 668336000423 active site 668336000424 motif I; other site 668336000425 motif II; other site 668336000426 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 668336000427 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 668336000428 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 668336000429 aromatic amino acid transport protein; Region: araaP; TIGR00837 668336000430 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 668336000431 dimer interface [polypeptide binding]; other site 668336000432 substrate binding site [chemical binding]; other site 668336000433 metal binding sites [ion binding]; metal-binding site 668336000434 Peptidase family M48; Region: Peptidase_M48; pfam01435 668336000435 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK01792 668336000436 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 668336000437 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 668336000438 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 668336000439 active site 668336000440 HIGH motif; other site 668336000441 dimer interface [polypeptide binding]; other site 668336000442 KMSKS motif; other site 668336000443 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 668336000444 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 668336000445 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 668336000446 P loop; other site 668336000447 GTP binding site [chemical binding]; other site 668336000448 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 668336000449 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 668336000450 S-adenosylmethionine binding site [chemical binding]; other site 668336000451 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 668336000452 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 668336000453 active pocket/dimerization site; other site 668336000454 active site 668336000455 phosphorylation site [posttranslational modification] 668336000456 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 668336000457 active site 668336000458 phosphorylation site [posttranslational modification] 668336000459 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 668336000460 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 668336000461 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 668336000462 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 668336000463 active site 668336000464 motif I; other site 668336000465 motif II; other site 668336000466 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 668336000467 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 668336000468 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 668336000469 Nucleoside recognition; Region: Gate; pfam07670 668336000470 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 668336000471 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 668336000472 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 668336000473 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 668336000474 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 668336000475 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 668336000476 putative active site [active] 668336000477 putative metal binding site [ion binding]; other site 668336000478 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 668336000479 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 668336000480 DXD motif; other site 668336000481 PgaD-like protein; Region: PgaD; cl14676 668336000482 regulatory protein UhpC; Provisional; Region: PRK11663 668336000483 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 668336000484 putative substrate translocation pore; other site 668336000485 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 668336000486 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 668336000487 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 668336000488 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 668336000489 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 668336000490 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 668336000491 AAA domain; Region: AAA_14; pfam13173 668336000492 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 668336000493 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 668336000494 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 668336000495 ATP binding site [chemical binding]; other site 668336000496 Mg++ binding site [ion binding]; other site 668336000497 motif III; other site 668336000498 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 668336000499 nucleotide binding region [chemical binding]; other site 668336000500 ATP-binding site [chemical binding]; other site 668336000501 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 668336000502 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 668336000503 S-adenosylmethionine binding site [chemical binding]; other site 668336000504 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 668336000505 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 668336000506 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 668336000507 active site 668336000508 S-ribosylhomocysteinase; Provisional; Region: PRK02260 668336000509 Predicted membrane protein [Function unknown]; Region: COG1238 668336000510 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 668336000511 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 668336000512 active site 668336000513 substrate binding site [chemical binding]; other site 668336000514 trimer interface [polypeptide binding]; other site 668336000515 CoA binding site [chemical binding]; other site 668336000516 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 668336000517 motif II; other site 668336000518 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 668336000519 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 668336000520 Part of AAA domain; Region: AAA_19; pfam13245 668336000521 Family description; Region: UvrD_C_2; pfam13538 668336000522 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 668336000523 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 668336000524 DNA polymerase I; Provisional; Region: PRK05755 668336000525 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 668336000526 active site 668336000527 metal binding site 1 [ion binding]; metal-binding site 668336000528 putative 5' ssDNA interaction site; other site 668336000529 metal binding site 3; metal-binding site 668336000530 metal binding site 2 [ion binding]; metal-binding site 668336000531 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 668336000532 putative DNA binding site [nucleotide binding]; other site 668336000533 putative metal binding site [ion binding]; other site 668336000534 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 668336000535 active site 668336000536 catalytic site [active] 668336000537 substrate binding site [chemical binding]; other site 668336000538 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 668336000539 active site 668336000540 DNA binding site [nucleotide binding] 668336000541 catalytic site [active] 668336000542 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 668336000543 Helix-turn-helix domain; Region: HTH_28; pfam13518 668336000544 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 668336000545 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 668336000546 active site 668336000547 metal binding site [ion binding]; metal-binding site 668336000548 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 668336000549 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 668336000550 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 668336000551 NADP binding site [chemical binding]; other site 668336000552 homopentamer interface [polypeptide binding]; other site 668336000553 substrate binding site [chemical binding]; other site 668336000554 active site 668336000555 Fic family protein [Function unknown]; Region: COG3177 668336000556 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 668336000557 Fic/DOC family; Region: Fic; pfam02661 668336000558 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 668336000559 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 668336000560 putative active site [active] 668336000561 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 668336000562 CHAP domain; Region: CHAP; pfam05257 668336000563 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 668336000564 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 668336000565 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 668336000566 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 668336000567 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 668336000568 4Fe-4S binding domain; Region: Fer4_5; pfam12801 668336000569 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 668336000570 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 668336000571 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 668336000572 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 668336000573 [4Fe-4S] binding site [ion binding]; other site 668336000574 molybdopterin cofactor binding site; other site 668336000575 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 668336000576 molybdopterin cofactor binding site; other site 668336000577 NapD protein; Region: NapD; cl01163 668336000578 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 668336000579 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 668336000580 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 668336000581 dimerization interface [polypeptide binding]; other site 668336000582 Histidine kinase; Region: HisKA_3; pfam07730 668336000583 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 668336000584 ATP binding site [chemical binding]; other site 668336000585 Mg2+ binding site [ion binding]; other site 668336000586 G-X-G motif; other site 668336000587 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 668336000588 FAD binding domain; Region: FAD_binding_4; pfam01565 668336000589 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 668336000590 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 668336000591 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 668336000592 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 668336000593 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 668336000594 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 668336000595 DNA binding residues [nucleotide binding] 668336000596 TfoX N-terminal domain; Region: TfoX_N; pfam04993 668336000597 TfoX C-terminal domain; Region: TfoX_C; pfam04994 668336000598 potential frameshift: common BLAST hit: gi|52426242|ref|YP_089379.1| elongation factor Tu 668336000599 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 668336000600 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 668336000601 Antibiotic Binding Site [chemical binding]; other site 668336000602 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 668336000603 G1 box; other site 668336000604 GEF interaction site [polypeptide binding]; other site 668336000605 GTP/Mg2+ binding site [chemical binding]; other site 668336000606 Switch I region; other site 668336000607 G2 box; other site 668336000608 G3 box; other site 668336000609 Switch II region; other site 668336000610 G4 box; other site 668336000611 elongation factor G; Reviewed; Region: PRK00007 668336000612 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 668336000613 G1 box; other site 668336000614 putative GEF interaction site [polypeptide binding]; other site 668336000615 GTP/Mg2+ binding site [chemical binding]; other site 668336000616 Switch I region; other site 668336000617 G2 box; other site 668336000618 G3 box; other site 668336000619 Switch II region; other site 668336000620 G4 box; other site 668336000621 G5 box; other site 668336000622 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 668336000623 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 668336000624 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 668336000625 30S ribosomal protein S7; Validated; Region: PRK05302 668336000626 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 668336000627 S17 interaction site [polypeptide binding]; other site 668336000628 S8 interaction site; other site 668336000629 16S rRNA interaction site [nucleotide binding]; other site 668336000630 streptomycin interaction site [chemical binding]; other site 668336000631 23S rRNA interaction site [nucleotide binding]; other site 668336000632 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 668336000633 ketol-acid reductoisomerase; Validated; Region: PRK05225 668336000634 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; cl11398 668336000635 Predicted permeases [General function prediction only]; Region: RarD; COG2962 668336000636 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 668336000637 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 668336000638 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 668336000639 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 668336000640 shikimate binding site; other site 668336000641 NAD(P) binding site [chemical binding]; other site 668336000642 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 668336000643 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 668336000644 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 668336000645 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 668336000646 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 668336000647 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 668336000648 RmuC family; Region: RmuC; pfam02646 668336000649 hypothetical protein; Provisional; Region: PRK05208 668336000650 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 668336000651 active site residue [active] 668336000652 intramembrane serine protease GlpG; Provisional; Region: PRK10907 668336000653 Rhomboid family; Region: Rhomboid; pfam01694 668336000654 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 668336000655 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 668336000656 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 668336000657 potential frameshift: common BLAST hit: gi|121635171|ref|YP_975416.1| putative outer membrane substrate binding protein 668336000658 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 668336000659 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 668336000660 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 668336000661 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 668336000662 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 668336000663 putative transporter; Validated; Region: PRK03818 668336000664 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 668336000665 TrkA-C domain; Region: TrkA_C; pfam02080 668336000666 TrkA-C domain; Region: TrkA_C; pfam02080 668336000667 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 668336000668 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 668336000669 putative nucleotide binding site [chemical binding]; other site 668336000670 uridine monophosphate binding site [chemical binding]; other site 668336000671 homohexameric interface [polypeptide binding]; other site 668336000672 ribosome recycling factor; Reviewed; Region: frr; PRK00083 668336000673 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 668336000674 hinge region; other site 668336000675 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 668336000676 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 668336000677 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 668336000678 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 668336000679 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 668336000680 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 668336000681 catalytic residue [active] 668336000682 putative FPP diphosphate binding site; other site 668336000683 putative FPP binding hydrophobic cleft; other site 668336000684 dimer interface [polypeptide binding]; other site 668336000685 putative IPP diphosphate binding site; other site 668336000686 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 668336000687 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 668336000688 zinc metallopeptidase RseP; Provisional; Region: PRK10779 668336000689 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 668336000690 active site 668336000691 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 668336000692 protein binding site [polypeptide binding]; other site 668336000693 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 668336000694 protein binding site [polypeptide binding]; other site 668336000695 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 668336000696 putative substrate binding region [chemical binding]; other site 668336000697 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 668336000698 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 668336000699 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 668336000700 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 668336000701 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 668336000702 Surface antigen; Region: Bac_surface_Ag; pfam01103 668336000703 periplasmic chaperone; Provisional; Region: PRK10780 668336000704 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 668336000705 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 668336000706 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 668336000707 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 668336000708 trimer interface [polypeptide binding]; other site 668336000709 active site 668336000710 UDP-GlcNAc binding site [chemical binding]; other site 668336000711 lipid binding site [chemical binding]; lipid-binding site 668336000712 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 668336000713 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 668336000714 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 668336000715 active site 668336000716 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 668336000717 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 668336000718 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 668336000719 RNA/DNA hybrid binding site [nucleotide binding]; other site 668336000720 active site 668336000721 potential frameshift: common BLAST hit: gi|251793242|ref|YP_003007970.1| CitT protein 668336000722 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 668336000723 transmembrane helices; other site 668336000724 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 668336000725 TrkA-C domain; Region: TrkA_C; pfam02080 668336000726 TrkA-C domain; Region: TrkA_C; pfam02080 668336000727 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 668336000728 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 668336000729 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 668336000730 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 668336000731 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 668336000732 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 668336000733 putative acyl-acceptor binding pocket; other site 668336000734 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 668336000735 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 668336000736 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 668336000737 MPT binding site; other site 668336000738 trimer interface [polypeptide binding]; other site 668336000739 transaldolase-like protein; Provisional; Region: PTZ00411 668336000740 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 668336000741 active site 668336000742 dimer interface [polypeptide binding]; other site 668336000743 catalytic residue [active] 668336000744 transketolase; Reviewed; Region: PRK12753 668336000745 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 668336000746 TPP-binding site [chemical binding]; other site 668336000747 dimer interface [polypeptide binding]; other site 668336000748 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 668336000749 PYR/PP interface [polypeptide binding]; other site 668336000750 dimer interface [polypeptide binding]; other site 668336000751 TPP binding site [chemical binding]; other site 668336000752 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 668336000753 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 668336000754 homotrimer interaction site [polypeptide binding]; other site 668336000755 putative active site [active] 668336000756 recombination regulator RecX; Reviewed; Region: recX; PRK00117 668336000757 recombinase A; Provisional; Region: recA; PRK09354 668336000758 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 668336000759 hexamer interface [polypeptide binding]; other site 668336000760 Walker A motif; other site 668336000761 ATP binding site [chemical binding]; other site 668336000762 Walker B motif; other site 668336000763 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 668336000764 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336000765 Walker A/P-loop; other site 668336000766 ATP binding site [chemical binding]; other site 668336000767 Q-loop/lid; other site 668336000768 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 668336000769 ABC transporter signature motif; other site 668336000770 Walker B; other site 668336000771 D-loop; other site 668336000772 ABC transporter; Region: ABC_tran_2; pfam12848 668336000773 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 668336000774 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 668336000775 hypothetical protein; Provisional; Region: PRK10695 668336000776 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 668336000777 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 668336000778 Homeodomain-like domain; Region: HTH_23; cl17451 668336000779 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 668336000780 intersubunit interface [polypeptide binding]; other site 668336000781 active site 668336000782 catalytic residue [active] 668336000783 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 668336000784 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 668336000785 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 668336000786 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 668336000787 TPR motif; other site 668336000788 binding surface 668336000789 Uncharacterized conserved protein [Function unknown]; Region: COG1434 668336000790 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 668336000791 putative active site [active] 668336000792 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 668336000793 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 668336000794 Substrate binding site; other site 668336000795 Mg++ binding site; other site 668336000796 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 668336000797 active site 668336000798 substrate binding site [chemical binding]; other site 668336000799 CoA binding site [chemical binding]; other site 668336000800 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 668336000801 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 668336000802 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 668336000803 putative active site [active] 668336000804 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 668336000805 Patatin-like phospholipase; Region: Patatin; pfam01734 668336000806 active site 668336000807 nucleophile elbow; other site 668336000808 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 668336000809 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 668336000810 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 668336000811 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 668336000812 substrate binding pocket [chemical binding]; other site 668336000813 membrane-bound complex binding site; other site 668336000814 hinge residues; other site 668336000815 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 668336000816 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 668336000817 dimer interface [polypeptide binding]; other site 668336000818 conserved gate region; other site 668336000819 putative PBP binding loops; other site 668336000820 ABC-ATPase subunit interface; other site 668336000821 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 668336000822 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 668336000823 Walker A/P-loop; other site 668336000824 ATP binding site [chemical binding]; other site 668336000825 Q-loop/lid; other site 668336000826 ABC transporter signature motif; other site 668336000827 Walker B; other site 668336000828 D-loop; other site 668336000829 H-loop/switch region; other site 668336000830 DsrH like protein; Region: DsrH; cl17347 668336000831 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 668336000832 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 668336000833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 668336000834 YheO-like PAS domain; Region: PAS_6; pfam08348 668336000835 HTH domain; Region: HTH_22; pfam13309 668336000836 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 668336000837 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 668336000838 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 668336000839 hypothetical protein; Provisional; Region: PRK02119 668336000840 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 668336000841 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 668336000842 catalytic triad [active] 668336000843 dimer interface [polypeptide binding]; other site 668336000844 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 668336000845 GSH binding site [chemical binding]; other site 668336000846 catalytic residues [active] 668336000847 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 668336000848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 668336000849 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 668336000850 dimerization interface [polypeptide binding]; other site 668336000851 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 668336000852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 668336000853 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 668336000854 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 668336000855 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336000856 Walker A/P-loop; other site 668336000857 ATP binding site [chemical binding]; other site 668336000858 Q-loop/lid; other site 668336000859 ABC transporter signature motif; other site 668336000860 Walker B; other site 668336000861 D-loop; other site 668336000862 H-loop/switch region; other site 668336000863 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 668336000864 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 668336000865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336000866 Walker A/P-loop; other site 668336000867 ATP binding site [chemical binding]; other site 668336000868 Q-loop/lid; other site 668336000869 ABC transporter signature motif; other site 668336000870 Walker B; other site 668336000871 D-loop; other site 668336000872 H-loop/switch region; other site 668336000873 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 668336000874 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 668336000875 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 668336000876 active site residue [active] 668336000877 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 668336000878 SecA binding site; other site 668336000879 Preprotein binding site; other site 668336000880 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 668336000881 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 668336000882 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 668336000883 serine acetyltransferase; Provisional; Region: cysE; PRK11132 668336000884 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 668336000885 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 668336000886 trimer interface [polypeptide binding]; other site 668336000887 active site 668336000888 substrate binding site [chemical binding]; other site 668336000889 CoA binding site [chemical binding]; other site 668336000890 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 668336000891 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 668336000892 putative active site [active] 668336000893 Protein of unknown function (DUF904); Region: DUF904; pfam06005 668336000894 FMN-binding protein MioC; Provisional; Region: PRK09004 668336000895 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 668336000896 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 668336000897 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 668336000898 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 668336000899 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 668336000900 NADP binding site [chemical binding]; other site 668336000901 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 668336000902 Predicted transcriptional regulators [Transcription]; Region: COG1733 668336000903 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 668336000904 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 668336000905 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 668336000906 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 668336000907 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 668336000908 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 668336000909 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 668336000910 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 668336000911 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 668336000912 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 668336000913 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 668336000914 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 668336000915 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 668336000916 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 668336000917 beta subunit interaction interface [polypeptide binding]; other site 668336000918 Walker A motif; other site 668336000919 ATP binding site [chemical binding]; other site 668336000920 Walker B motif; other site 668336000921 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 668336000922 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 668336000923 core domain interface [polypeptide binding]; other site 668336000924 delta subunit interface [polypeptide binding]; other site 668336000925 epsilon subunit interface [polypeptide binding]; other site 668336000926 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 668336000927 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 668336000928 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 668336000929 alpha subunit interaction interface [polypeptide binding]; other site 668336000930 Walker A motif; other site 668336000931 ATP binding site [chemical binding]; other site 668336000932 Walker B motif; other site 668336000933 inhibitor binding site; inhibition site 668336000934 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 668336000935 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 668336000936 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 668336000937 gamma subunit interface [polypeptide binding]; other site 668336000938 epsilon subunit interface [polypeptide binding]; other site 668336000939 LBP interface [polypeptide binding]; other site 668336000940 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 668336000941 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 668336000942 potential frameshift: common BLAST hit: gi|161870103|ref|YP_001599273.1| putative type I restriction enzyme 668336000943 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 668336000944 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 668336000945 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 668336000946 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 668336000947 ATP binding site [chemical binding]; other site 668336000948 putative Mg++ binding site [ion binding]; other site 668336000949 Virulence protein [General function prediction only]; Region: COG3943 668336000950 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 668336000951 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 668336000952 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 668336000953 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 668336000954 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 668336000955 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 668336000956 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 668336000957 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 668336000958 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 668336000959 active pocket/dimerization site; other site 668336000960 active site 668336000961 phosphorylation site [posttranslational modification] 668336000962 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 668336000963 active site 668336000964 phosphorylation site [posttranslational modification] 668336000965 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 668336000966 putative transporter; Provisional; Region: PRK10504 668336000967 putative substrate translocation pore; other site 668336000968 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 668336000969 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 668336000970 putative dimerization interface [polypeptide binding]; other site 668336000971 Transcriptional regulators [Transcription]; Region: PurR; COG1609 668336000972 putative ligand binding site [chemical binding]; other site 668336000973 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 668336000974 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 668336000975 potential frameshift: common BLAST hit: gi|113460936|ref|YP_719003.1| Na(+)/H(+) antiporter 668336000976 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 668336000977 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 668336000978 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 668336000979 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 668336000980 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 668336000981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336000982 homodimer interface [polypeptide binding]; other site 668336000983 catalytic residue [active] 668336000984 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 668336000985 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 668336000986 TM-ABC transporter signature motif; other site 668336000987 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 668336000988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336000989 Walker A/P-loop; other site 668336000990 ATP binding site [chemical binding]; other site 668336000991 Q-loop/lid; other site 668336000992 ABC transporter signature motif; other site 668336000993 Walker B; other site 668336000994 D-loop; other site 668336000995 H-loop/switch region; other site 668336000996 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 668336000997 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 668336000998 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 668336000999 putative ligand binding site [chemical binding]; other site 668336001000 xylose isomerase; Provisional; Region: PRK05474 668336001001 xylose isomerase; Region: xylose_isom_A; TIGR02630 668336001002 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 668336001003 N- and C-terminal domain interface [polypeptide binding]; other site 668336001004 D-xylulose kinase; Region: XylB; TIGR01312 668336001005 active site 668336001006 MgATP binding site [chemical binding]; other site 668336001007 catalytic site [active] 668336001008 metal binding site [ion binding]; metal-binding site 668336001009 xylulose binding site [chemical binding]; other site 668336001010 putative homodimer interface [polypeptide binding]; other site 668336001011 putative transposase OrfB; Reviewed; Region: PHA02517 668336001012 HTH-like domain; Region: HTH_21; pfam13276 668336001013 Integrase core domain; Region: rve; pfam00665 668336001014 Integrase core domain; Region: rve_2; pfam13333 668336001015 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 668336001016 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 668336001017 domain interface [polypeptide binding]; other site 668336001018 putative active site [active] 668336001019 catalytic site [active] 668336001020 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 668336001021 domain interface [polypeptide binding]; other site 668336001022 putative active site [active] 668336001023 catalytic site [active] 668336001024 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 668336001025 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 668336001026 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 668336001027 ferredoxin; Validated; Region: PRK07118 668336001028 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 668336001029 B1 nucleotide binding pocket [chemical binding]; other site 668336001030 B2 nucleotide binding pocket [chemical binding]; other site 668336001031 CAS motifs; other site 668336001032 active site 668336001033 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 668336001034 Phosphoglycerate kinase; Region: PGK; pfam00162 668336001035 substrate binding site [chemical binding]; other site 668336001036 hinge regions; other site 668336001037 ADP binding site [chemical binding]; other site 668336001038 catalytic site [active] 668336001039 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 668336001040 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 668336001041 active site 668336001042 intersubunit interface [polypeptide binding]; other site 668336001043 zinc binding site [ion binding]; other site 668336001044 Na+ binding site [ion binding]; other site 668336001045 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 668336001046 O-Antigen ligase; Region: Wzy_C; pfam04932 668336001047 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 668336001048 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 668336001049 Serine hydrolase; Region: Ser_hydrolase; cl17834 668336001050 putative hydrolase; Provisional; Region: PRK10976 668336001051 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 668336001052 active site 668336001053 motif I; other site 668336001054 motif II; other site 668336001055 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 668336001056 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 668336001057 TPP binding site [chemical binding]; other site 668336001058 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 668336001059 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 668336001060 catalytic residue [active] 668336001061 potential frameshift: common BLAST hit: gi|148826617|ref|YP_001291370.1| threonine dehydratase 668336001062 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 668336001063 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 668336001064 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 668336001065 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 668336001066 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 668336001067 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 668336001068 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 668336001069 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336001070 Walker A/P-loop; other site 668336001071 ATP binding site [chemical binding]; other site 668336001072 Q-loop/lid; other site 668336001073 ABC transporter signature motif; other site 668336001074 Walker B; other site 668336001075 D-loop; other site 668336001076 H-loop/switch region; other site 668336001077 phosphoglycolate phosphatase; Provisional; Region: PRK13222 668336001078 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 668336001079 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 668336001080 motif II; other site 668336001081 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 668336001082 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 668336001083 substrate binding site [chemical binding]; other site 668336001084 hexamer interface [polypeptide binding]; other site 668336001085 metal binding site [ion binding]; metal-binding site 668336001086 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 668336001087 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 668336001088 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 668336001089 substrate binding site; other site 668336001090 dimer interface; other site 668336001091 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 668336001092 homotrimer interaction site [polypeptide binding]; other site 668336001093 zinc binding site [ion binding]; other site 668336001094 CDP-binding sites; other site 668336001095 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 668336001096 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 668336001097 Permutation of conserved domain; other site 668336001098 active site 668336001099 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 668336001100 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 668336001101 Predicted membrane protein [Function unknown]; Region: COG1238 668336001102 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 668336001103 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 668336001104 Peptidase family M23; Region: Peptidase_M23; pfam01551 668336001105 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 668336001106 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 668336001107 putative metal binding site; other site 668336001108 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 668336001109 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 668336001110 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 668336001111 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 668336001112 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 668336001113 active site 668336001114 (T/H)XGH motif; other site 668336001115 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 668336001116 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 668336001117 active site 668336001118 ATP binding site [chemical binding]; other site 668336001119 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 668336001120 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 668336001121 putative active site [active] 668336001122 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 668336001123 Cupin; Region: Cupin_6; pfam12852 668336001124 Helix-turn-helix domain; Region: HTH_18; pfam12833 668336001125 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 668336001126 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 668336001127 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 668336001128 Walker A/P-loop; other site 668336001129 ATP binding site [chemical binding]; other site 668336001130 Q-loop/lid; other site 668336001131 ABC transporter signature motif; other site 668336001132 Walker B; other site 668336001133 D-loop; other site 668336001134 H-loop/switch region; other site 668336001135 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 668336001136 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 668336001137 putative acyl-acceptor binding pocket; other site 668336001138 LexA repressor; Validated; Region: PRK00215 668336001139 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 668336001140 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 668336001141 Catalytic site [active] 668336001142 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 668336001143 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 668336001144 dimer interface [polypeptide binding]; other site 668336001145 ssDNA binding site [nucleotide binding]; other site 668336001146 tetramer (dimer of dimers) interface [polypeptide binding]; other site 668336001147 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 668336001148 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 668336001149 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 668336001150 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 668336001151 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 668336001152 DNA protecting protein DprA; Region: dprA; TIGR00732 668336001153 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 668336001154 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 668336001155 active site 668336001156 catalytic site [active] 668336001157 metal binding site [ion binding]; metal-binding site 668336001158 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 668336001159 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 668336001160 putative substrate translocation pore; other site 668336001161 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 668336001162 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 668336001163 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 668336001164 ribonuclease R; Region: RNase_R; TIGR02063 668336001165 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 668336001166 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 668336001167 RNB domain; Region: RNB; pfam00773 668336001168 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 668336001169 RNA binding site [nucleotide binding]; other site 668336001170 rod shape-determining protein MreB; Provisional; Region: PRK13927 668336001171 MreB and similar proteins; Region: MreB_like; cd10225 668336001172 nucleotide binding site [chemical binding]; other site 668336001173 Mg binding site [ion binding]; other site 668336001174 putative protofilament interaction site [polypeptide binding]; other site 668336001175 RodZ interaction site [polypeptide binding]; other site 668336001176 rod shape-determining protein MreC; Region: mreC; TIGR00219 668336001177 rod shape-determining protein MreC; Region: MreC; pfam04085 668336001178 rod shape-determining protein MreD; Region: MreD; cl01087 668336001179 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 668336001180 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 668336001181 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 668336001182 RimM N-terminal domain; Region: RimM; pfam01782 668336001183 PRC-barrel domain; Region: PRC; pfam05239 668336001184 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 668336001185 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 668336001186 proline aminopeptidase P II; Provisional; Region: PRK10879 668336001187 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 668336001188 active site 668336001189 hypothetical protein; Reviewed; Region: PRK01736 668336001190 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 668336001191 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 668336001192 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 668336001193 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 668336001194 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 668336001195 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 668336001196 RNA binding surface [nucleotide binding]; other site 668336001197 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 668336001198 active site 668336001199 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 668336001200 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 668336001201 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 668336001202 Sulfatase; Region: Sulfatase; pfam00884 668336001203 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 668336001204 dimer interface [polypeptide binding]; other site 668336001205 FMN binding site [chemical binding]; other site 668336001206 hypothetical protein; Validated; Region: PRK05090 668336001207 YGGT family; Region: YGGT; pfam02325 668336001208 Predicted integral membrane protein [Function unknown]; Region: COG0762 668336001209 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 668336001210 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 668336001211 Cl binding site [ion binding]; other site 668336001212 oligomer interface [polypeptide binding]; other site 668336001213 Methyltransferase domain; Region: Methyltransf_31; pfam13847 668336001214 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 668336001215 S-adenosylmethionine binding site [chemical binding]; other site 668336001216 multidrug efflux protein; Reviewed; Region: PRK09579 668336001217 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 668336001218 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 668336001219 HlyD family secretion protein; Region: HlyD_3; pfam13437 668336001220 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 668336001221 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 668336001222 Sporulation related domain; Region: SPOR; pfam05036 668336001223 primosome assembly protein PriA; Validated; Region: PRK05580 668336001224 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 668336001225 ATP binding site [chemical binding]; other site 668336001226 putative Mg++ binding site [ion binding]; other site 668336001227 helicase superfamily c-terminal domain; Region: HELICc; smart00490 668336001228 nucleotide binding region [chemical binding]; other site 668336001229 ATP-binding site [chemical binding]; other site 668336001230 hypothetical protein; Provisional; Region: PRK11346 668336001231 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 668336001232 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 668336001233 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 668336001234 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 668336001235 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 668336001236 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 668336001237 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 668336001238 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 668336001239 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 668336001240 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 668336001241 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 668336001242 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 668336001243 DNA binding site [nucleotide binding] 668336001244 catalytic residue [active] 668336001245 H2TH interface [polypeptide binding]; other site 668336001246 putative catalytic residues [active] 668336001247 turnover-facilitating residue; other site 668336001248 intercalation triad [nucleotide binding]; other site 668336001249 8OG recognition residue [nucleotide binding]; other site 668336001250 putative reading head residues; other site 668336001251 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 668336001252 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 668336001253 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 668336001254 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 668336001255 hypothetical protein; Reviewed; Region: PRK00024 668336001256 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 668336001257 MPN+ (JAMM) motif; other site 668336001258 Zinc-binding site [ion binding]; other site 668336001259 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 668336001260 Flavoprotein; Region: Flavoprotein; pfam02441 668336001261 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 668336001262 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 668336001263 trimer interface [polypeptide binding]; other site 668336001264 active site 668336001265 division inhibitor protein; Provisional; Region: slmA; PRK09480 668336001266 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 668336001267 hypothetical protein; Provisional; Region: PRK04966 668336001268 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 668336001269 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 668336001270 ligand binding site [chemical binding]; other site 668336001271 flexible hinge region; other site 668336001272 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 668336001273 putative switch regulator; other site 668336001274 non-specific DNA interactions [nucleotide binding]; other site 668336001275 DNA binding site [nucleotide binding] 668336001276 sequence specific DNA binding site [nucleotide binding]; other site 668336001277 putative cAMP binding site [chemical binding]; other site 668336001278 glutathione reductase; Validated; Region: PRK06116 668336001279 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 668336001280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 668336001281 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 668336001282 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 668336001283 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 668336001284 Transglycosylase; Region: Transgly; pfam00912 668336001285 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 668336001286 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 668336001287 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 668336001288 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 668336001289 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 668336001290 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 668336001291 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 668336001292 shikimate kinase; Reviewed; Region: aroK; PRK00131 668336001293 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 668336001294 ADP binding site [chemical binding]; other site 668336001295 magnesium binding site [ion binding]; other site 668336001296 putative shikimate binding site; other site 668336001297 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 668336001298 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 668336001299 active site 668336001300 dimer interface [polypeptide binding]; other site 668336001301 metal binding site [ion binding]; metal-binding site 668336001302 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 668336001303 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 668336001304 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 668336001305 dimer interface [polypeptide binding]; other site 668336001306 ssDNA binding site [nucleotide binding]; other site 668336001307 tetramer (dimer of dimers) interface [polypeptide binding]; other site 668336001308 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 668336001309 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 668336001310 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 668336001311 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 668336001312 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 668336001313 DNA binding residues [nucleotide binding] 668336001314 Protein of unknown function (DUF721); Region: DUF721; cl02324 668336001315 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 668336001316 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 668336001317 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 668336001318 SEC-C motif; Region: SEC-C; pfam02810 668336001319 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 668336001320 active site 668336001321 8-oxo-dGMP binding site [chemical binding]; other site 668336001322 nudix motif; other site 668336001323 metal binding site [ion binding]; metal-binding site 668336001324 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 668336001325 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 668336001326 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 668336001327 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 668336001328 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 668336001329 HIGH motif; other site 668336001330 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 668336001331 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 668336001332 active site 668336001333 KMSKS motif; other site 668336001334 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 668336001335 tRNA binding surface [nucleotide binding]; other site 668336001336 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 668336001337 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 668336001338 active site 668336001339 NTP binding site [chemical binding]; other site 668336001340 metal binding triad [ion binding]; metal-binding site 668336001341 antibiotic binding site [chemical binding]; other site 668336001342 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 668336001343 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 668336001344 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 668336001345 active site 668336001346 metal binding site [ion binding]; metal-binding site 668336001347 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 668336001348 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 668336001349 SurA N-terminal domain; Region: SurA_N; pfam09312 668336001350 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 668336001351 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 668336001352 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 668336001353 active site 668336001354 Protein of unknown function (DUF461); Region: DUF461; cl01071 668336001355 putative lysogenization regulator; Reviewed; Region: PRK00218 668336001356 adenylosuccinate lyase; Provisional; Region: PRK09285 668336001357 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 668336001358 tetramer interface [polypeptide binding]; other site 668336001359 active site 668336001360 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 668336001361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 668336001362 NAD(P) binding site [chemical binding]; other site 668336001363 active site 668336001364 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 668336001365 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 668336001366 DNA binding residues [nucleotide binding] 668336001367 putative dimer interface [polypeptide binding]; other site 668336001368 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 668336001369 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 668336001370 substrate binding site [chemical binding]; other site 668336001371 catalytic Zn binding site [ion binding]; other site 668336001372 NAD binding site [chemical binding]; other site 668336001373 structural Zn binding site [ion binding]; other site 668336001374 dimer interface [polypeptide binding]; other site 668336001375 S-formylglutathione hydrolase; Region: PLN02442 668336001376 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 668336001377 signal recognition particle protein; Provisional; Region: PRK10867 668336001378 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 668336001379 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 668336001380 P loop; other site 668336001381 GTP binding site [chemical binding]; other site 668336001382 Signal peptide binding domain; Region: SRP_SPB; pfam02978 668336001383 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 668336001384 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 668336001385 Domain of unknown function DUF21; Region: DUF21; pfam01595 668336001386 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 668336001387 Transporter associated domain; Region: CorC_HlyC; smart01091 668336001388 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 668336001389 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 668336001390 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 668336001391 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 668336001392 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 668336001393 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 668336001394 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 668336001395 putative [Fe4-S4] binding site [ion binding]; other site 668336001396 putative molybdopterin cofactor binding site [chemical binding]; other site 668336001397 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 668336001398 putative molybdopterin cofactor binding site; other site 668336001399 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 668336001400 4Fe-4S binding domain; Region: Fer4; cl02805 668336001401 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 668336001402 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 668336001403 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 668336001404 dimer interface [polypeptide binding]; other site 668336001405 motif 1; other site 668336001406 active site 668336001407 motif 2; other site 668336001408 motif 3; other site 668336001409 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 668336001410 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 668336001411 metal binding triad [ion binding]; metal-binding site 668336001412 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 668336001413 DALR anticodon binding domain; Region: DALR_1; pfam05746 668336001414 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 668336001415 dimer interface [polypeptide binding]; other site 668336001416 allosteric magnesium binding site [ion binding]; other site 668336001417 active site 668336001418 aspartate-rich active site metal binding site; other site 668336001419 Schiff base residues; other site 668336001420 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 668336001421 sec-independent translocase; Provisional; Region: PRK01770 668336001422 twin arginine translocase protein A; Provisional; Region: tatA; PRK01833 668336001423 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 668336001424 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 668336001425 dimerization interface [polypeptide binding]; other site 668336001426 domain crossover interface; other site 668336001427 redox-dependent activation switch; other site 668336001428 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 668336001429 RNA binding surface [nucleotide binding]; other site 668336001430 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; cl17915 668336001431 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 668336001432 motif II; other site 668336001433 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 668336001434 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 668336001435 ADP-ribose binding site [chemical binding]; other site 668336001436 dimer interface [polypeptide binding]; other site 668336001437 active site 668336001438 nudix motif; other site 668336001439 metal binding site [ion binding]; metal-binding site 668336001440 Cupin; Region: Cupin_6; pfam12852 668336001441 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 668336001442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 668336001443 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 668336001444 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 668336001445 Predicted membrane protein [Function unknown]; Region: COG3059 668336001446 Predicted membrane protein [Function unknown]; Region: COG1297 668336001447 putative oligopeptide transporter, OPT family; Region: TIGR00733 668336001448 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 668336001449 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 668336001450 active site 668336001451 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 668336001452 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 668336001453 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 668336001454 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 668336001455 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 668336001456 putative active site [active] 668336001457 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 668336001458 aspartate racemase; Region: asp_race; TIGR00035 668336001459 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 668336001460 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 668336001461 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 668336001462 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 668336001463 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 668336001464 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 668336001465 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 668336001466 dimer interface [polypeptide binding]; other site 668336001467 active site 668336001468 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 668336001469 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 668336001470 NAD(P) binding site [chemical binding]; other site 668336001471 homotetramer interface [polypeptide binding]; other site 668336001472 homodimer interface [polypeptide binding]; other site 668336001473 active site 668336001474 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 668336001475 putative active site 1 [active] 668336001476 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 668336001477 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 668336001478 dimer interface [polypeptide binding]; other site 668336001479 active site 668336001480 Predicted exporter [General function prediction only]; Region: COG4258 668336001481 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 668336001482 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 668336001483 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 668336001484 active site 668336001485 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 668336001486 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 668336001487 putative acyl-acceptor binding pocket; other site 668336001488 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 668336001489 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 668336001490 Ligand binding site; other site 668336001491 Putative Catalytic site; other site 668336001492 DXD motif; other site 668336001493 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 668336001494 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 668336001495 active site 668336001496 AMP binding site [chemical binding]; other site 668336001497 acyl-activating enzyme (AAE) consensus motif; other site 668336001498 CoA binding site [chemical binding]; other site 668336001499 Predicted membrane protein [Function unknown]; Region: COG4648 668336001500 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 668336001501 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 668336001502 AMP binding site [chemical binding]; other site 668336001503 active site 668336001504 acyl-activating enzyme (AAE) consensus motif; other site 668336001505 CoA binding site [chemical binding]; other site 668336001506 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 668336001507 active site 2 [active] 668336001508 active site 1 [active] 668336001509 acyl carrier protein; Provisional; Region: PRK05350 668336001510 Phosphopantetheine attachment site; Region: PP-binding; cl09936 668336001511 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 668336001512 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 668336001513 putative acyl-acceptor binding pocket; other site 668336001514 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 668336001515 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 668336001516 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 668336001517 motif II; other site 668336001518 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 668336001519 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 668336001520 active site 668336001521 Int/Topo IB signature motif; other site 668336001522 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 668336001523 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 668336001524 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 668336001525 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 668336001526 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 668336001527 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 668336001528 dimerization interface [polypeptide binding]; other site 668336001529 putative ATP binding site [chemical binding]; other site 668336001530 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 668336001531 Clp amino terminal domain; Region: Clp_N; pfam02861 668336001532 Clp amino terminal domain; Region: Clp_N; pfam02861 668336001533 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 668336001534 Walker A motif; other site 668336001535 ATP binding site [chemical binding]; other site 668336001536 Walker B motif; other site 668336001537 arginine finger; other site 668336001538 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 668336001539 Walker A motif; other site 668336001540 ATP binding site [chemical binding]; other site 668336001541 Walker B motif; other site 668336001542 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 668336001543 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 668336001544 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 668336001545 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 668336001546 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 668336001547 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 668336001548 active site 668336001549 motif I; other site 668336001550 motif II; other site 668336001551 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 668336001552 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 668336001553 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 668336001554 active site 668336001555 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 668336001556 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 668336001557 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 668336001558 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 668336001559 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 668336001560 CTP synthetase; Validated; Region: pyrG; PRK05380 668336001561 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 668336001562 Catalytic site [active] 668336001563 active site 668336001564 UTP binding site [chemical binding]; other site 668336001565 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 668336001566 active site 668336001567 putative oxyanion hole; other site 668336001568 catalytic triad [active] 668336001569 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 668336001570 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 668336001571 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 668336001572 RNA binding site [nucleotide binding]; other site 668336001573 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 668336001574 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 668336001575 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 668336001576 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 668336001577 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 668336001578 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 668336001579 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 668336001580 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 668336001581 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 668336001582 5S rRNA interface [nucleotide binding]; other site 668336001583 L27 interface [polypeptide binding]; other site 668336001584 23S rRNA interface [nucleotide binding]; other site 668336001585 L5 interface [polypeptide binding]; other site 668336001586 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 668336001587 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 668336001588 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 668336001589 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 668336001590 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 668336001591 SecY translocase; Region: SecY; pfam00344 668336001592 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 668336001593 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 668336001594 30S ribosomal protein S13; Region: bact_S13; TIGR03631 668336001595 30S ribosomal protein S11; Validated; Region: PRK05309 668336001596 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 668336001597 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 668336001598 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 668336001599 RNA binding surface [nucleotide binding]; other site 668336001600 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 668336001601 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 668336001602 alphaNTD homodimer interface [polypeptide binding]; other site 668336001603 alphaNTD - beta interaction site [polypeptide binding]; other site 668336001604 alphaNTD - beta' interaction site [polypeptide binding]; other site 668336001605 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 668336001606 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 668336001607 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 668336001608 aromatic amino acid transport protein; Region: araaP; TIGR00837 668336001609 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 668336001610 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 668336001611 active site 668336001612 metal binding site [ion binding]; metal-binding site 668336001613 Diadenosine tetraphosphatase and related serine/threonine protein phosphatases [Signal transduction mechanisms]; Region: ApaH; COG0639 668336001614 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 668336001615 non-specific DNA binding site [nucleotide binding]; other site 668336001616 salt bridge; other site 668336001617 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 668336001618 sequence-specific DNA binding site [nucleotide binding]; other site 668336001619 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 668336001620 active site 668336001621 (T/H)XGH motif; other site 668336001622 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 668336001623 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 668336001624 CPxP motif; other site 668336001625 hypothetical protein; Provisional; Region: PRK11568 668336001626 hypothetical protein; Provisional; Region: PRK11568 668336001627 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 668336001628 Cation transport protein; Region: TrkH; cl17365 668336001629 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 668336001630 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 668336001631 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 668336001632 Integrase core domain; Region: rve; pfam00665 668336001633 Integrase core domain; Region: rve_2; pfam13333 668336001634 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 668336001635 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 668336001636 motif II; other site 668336001637 Predicted membrane protein [Function unknown]; Region: COG2364 668336001638 Predicted membrane protein [Function unknown]; Region: COG2364 668336001639 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 668336001640 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 668336001641 putative active site [active] 668336001642 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 668336001643 Aspartase; Region: Aspartase; cd01357 668336001644 active sites [active] 668336001645 tetramer interface [polypeptide binding]; other site 668336001646 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 668336001647 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 668336001648 oligomerisation interface [polypeptide binding]; other site 668336001649 mobile loop; other site 668336001650 roof hairpin; other site 668336001651 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 668336001652 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 668336001653 ring oligomerisation interface [polypeptide binding]; other site 668336001654 ATP/Mg binding site [chemical binding]; other site 668336001655 stacking interactions; other site 668336001656 hinge regions; other site 668336001657 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 668336001658 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 668336001659 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 668336001660 homodimer interface [polypeptide binding]; other site 668336001661 NADP binding site [chemical binding]; other site 668336001662 substrate binding site [chemical binding]; other site 668336001663 putative transposase OrfB; Reviewed; Region: PHA02517 668336001664 HTH-like domain; Region: HTH_21; pfam13276 668336001665 Integrase core domain; Region: rve; pfam00665 668336001666 Integrase core domain; Region: rve_2; pfam13333 668336001667 Transposase; Region: HTH_Tnp_1; cl17663 668336001668 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 668336001669 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 668336001670 HD domain; Region: HD_4; pfam13328 668336001671 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 668336001672 synthetase active site [active] 668336001673 NTP binding site [chemical binding]; other site 668336001674 metal binding site [ion binding]; metal-binding site 668336001675 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 668336001676 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 668336001677 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 668336001678 TRAM domain; Region: TRAM; pfam01938 668336001679 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 668336001680 S-adenosylmethionine binding site [chemical binding]; other site 668336001681 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 668336001682 Recombination protein O N terminal; Region: RecO_N; pfam11967 668336001683 Recombination protein O C terminal; Region: RecO_C; pfam02565 668336001684 elongation factor Ts; Provisional; Region: tsf; PRK09377 668336001685 UBA/TS-N domain; Region: UBA; pfam00627 668336001686 Elongation factor TS; Region: EF_TS; pfam00889 668336001687 Elongation factor TS; Region: EF_TS; pfam00889 668336001688 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 668336001689 rRNA interaction site [nucleotide binding]; other site 668336001690 S8 interaction site; other site 668336001691 putative laminin-1 binding site; other site 668336001692 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 668336001693 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 668336001694 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 668336001695 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 668336001696 hypothetical protein; Provisional; Region: PRK11820 668336001697 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 668336001698 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 668336001699 ribonuclease PH; Reviewed; Region: rph; PRK00173 668336001700 Ribonuclease PH; Region: RNase_PH_bact; cd11362 668336001701 hexamer interface [polypeptide binding]; other site 668336001702 active site 668336001703 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 668336001704 active site 668336001705 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 668336001706 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 668336001707 putative metal binding site [ion binding]; other site 668336001708 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 668336001709 HSP70 interaction site [polypeptide binding]; other site 668336001710 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 668336001711 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 668336001712 FMN binding site [chemical binding]; other site 668336001713 active site 668336001714 catalytic residues [active] 668336001715 substrate binding site [chemical binding]; other site 668336001716 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 668336001717 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 668336001718 Walker A/P-loop; other site 668336001719 ATP binding site [chemical binding]; other site 668336001720 Q-loop/lid; other site 668336001721 ABC transporter signature motif; other site 668336001722 Walker B; other site 668336001723 D-loop; other site 668336001724 H-loop/switch region; other site 668336001725 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 668336001726 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 668336001727 dimer interface [polypeptide binding]; other site 668336001728 conserved gate region; other site 668336001729 putative PBP binding loops; other site 668336001730 ABC-ATPase subunit interface; other site 668336001731 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 668336001732 dimer interface [polypeptide binding]; other site 668336001733 conserved gate region; other site 668336001734 putative PBP binding loops; other site 668336001735 ABC-ATPase subunit interface; other site 668336001736 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 668336001737 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 668336001738 hypothetical protein; Provisional; Region: PRK11702 668336001739 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 668336001740 adenine DNA glycosylase; Provisional; Region: PRK10880 668336001741 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 668336001742 minor groove reading motif; other site 668336001743 helix-hairpin-helix signature motif; other site 668336001744 substrate binding pocket [chemical binding]; other site 668336001745 active site 668336001746 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 668336001747 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 668336001748 DNA binding and oxoG recognition site [nucleotide binding] 668336001749 oxidative damage protection protein; Provisional; Region: PRK05408 668336001750 murein transglycosylase C; Provisional; Region: mltC; PRK11671 668336001751 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 668336001752 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 668336001753 N-acetyl-D-glucosamine binding site [chemical binding]; other site 668336001754 catalytic residue [active] 668336001755 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 668336001756 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 668336001757 BolA-like protein; Region: BolA; cl00386 668336001758 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 668336001759 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 668336001760 E3 interaction surface; other site 668336001761 lipoyl attachment site [posttranslational modification]; other site 668336001762 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 668336001763 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 668336001764 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 668336001765 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 668336001766 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 668336001767 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 668336001768 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 668336001769 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 668336001770 FAD binding pocket [chemical binding]; other site 668336001771 FAD binding motif [chemical binding]; other site 668336001772 phosphate binding motif [ion binding]; other site 668336001773 beta-alpha-beta structure motif; other site 668336001774 NAD binding pocket [chemical binding]; other site 668336001775 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 668336001776 ApbE family; Region: ApbE; pfam02424 668336001777 Protein of unknown function (DUF539); Region: DUF539; cl01129 668336001778 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 668336001779 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 668336001780 Ligand Binding Site [chemical binding]; other site 668336001781 enolase; Provisional; Region: eno; PRK00077 668336001782 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 668336001783 dimer interface [polypeptide binding]; other site 668336001784 metal binding site [ion binding]; metal-binding site 668336001785 substrate binding pocket [chemical binding]; other site 668336001786 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 668336001787 hypothetical protein; Validated; Region: PRK00228 668336001788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 668336001789 RNA methyltransferase, RsmE family; Region: TIGR00046 668336001790 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 668336001791 dimerization interface [polypeptide binding]; other site 668336001792 DNA binding site [nucleotide binding] 668336001793 corepressor binding sites; other site 668336001794 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 668336001795 active site 668336001796 tetramer interface; other site 668336001797 phosphomannomutase CpsG; Provisional; Region: PRK15414 668336001798 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 668336001799 active site 668336001800 substrate binding site [chemical binding]; other site 668336001801 metal binding site [ion binding]; metal-binding site 668336001802 carbon storage regulator; Provisional; Region: PRK01712 668336001803 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 668336001804 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 668336001805 motif 1; other site 668336001806 active site 668336001807 motif 2; other site 668336001808 motif 3; other site 668336001809 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 668336001810 DHHA1 domain; Region: DHHA1; pfam02272 668336001811 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 668336001812 Ligand Binding Site [chemical binding]; other site 668336001813 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 668336001814 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 668336001815 homodimer interface [polypeptide binding]; other site 668336001816 metal binding site [ion binding]; metal-binding site 668336001817 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 668336001818 homodimer interface [polypeptide binding]; other site 668336001819 active site 668336001820 putative chemical substrate binding site [chemical binding]; other site 668336001821 metal binding site [ion binding]; metal-binding site 668336001822 hypothetical protein; Validated; Region: PRK06886 668336001823 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 668336001824 active site 668336001825 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 668336001826 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 668336001827 Sulfatase; Region: Sulfatase; cl17466 668336001828 hypothetical protein; Provisional; Region: PRK13689 668336001829 Nucleoid-associated protein [General function prediction only]; Region: COG3081 668336001830 nucleoid-associated protein NdpA; Validated; Region: PRK00378 668336001831 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 668336001832 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 668336001833 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 668336001834 active site 668336001835 phosphorylation site [posttranslational modification] 668336001836 intermolecular recognition site; other site 668336001837 dimerization interface [polypeptide binding]; other site 668336001838 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 668336001839 DNA binding site [nucleotide binding] 668336001840 two-component sensor protein; Provisional; Region: cpxA; PRK09470 668336001841 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 668336001842 dimerization interface [polypeptide binding]; other site 668336001843 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 668336001844 ATP binding site [chemical binding]; other site 668336001845 Mg2+ binding site [ion binding]; other site 668336001846 G-X-G motif; other site 668336001847 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 668336001848 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 668336001849 putative active site [active] 668336001850 dimerization interface [polypeptide binding]; other site 668336001851 putative tRNAtyr binding site [nucleotide binding]; other site 668336001852 hypothetical protein; Reviewed; Region: PRK01637 668336001853 hypothetical protein; Provisional; Region: PRK01752 668336001854 SEC-C motif; Region: SEC-C; pfam02810 668336001855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 668336001856 MOSC domain; Region: MOSC; pfam03473 668336001857 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 668336001858 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 668336001859 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 668336001860 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 668336001861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 668336001862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 668336001863 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 668336001864 putative effector binding pocket; other site 668336001865 putative dimerization interface [polypeptide binding]; other site 668336001866 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 668336001867 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 668336001868 active site 668336001869 catalytic tetrad [active] 668336001870 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 668336001871 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 668336001872 active site 668336001873 catalytic tetrad [active] 668336001874 potential frameshift: common BLAST hit: gi|152979745|ref|YP_001345374.1| carboxylesterase type B 668336001875 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 668336001876 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 668336001877 substrate binding pocket [chemical binding]; other site 668336001878 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 668336001879 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 668336001880 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 668336001881 catalytic site [active] 668336001882 Transcriptional regulator [Transcription]; Region: LysR; COG0583 668336001883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 668336001884 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 668336001885 putative effector binding pocket; other site 668336001886 putative dimerization interface [polypeptide binding]; other site 668336001887 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 668336001888 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 668336001889 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 668336001890 glutaminase active site [active] 668336001891 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 668336001892 dimer interface [polypeptide binding]; other site 668336001893 active site 668336001894 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 668336001895 dimer interface [polypeptide binding]; other site 668336001896 active site 668336001897 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 668336001898 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 668336001899 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 668336001900 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 668336001901 IHF dimer interface [polypeptide binding]; other site 668336001902 IHF - DNA interface [nucleotide binding]; other site 668336001903 Protein of unknown function (DUF416); Region: DUF416; cl01166 668336001904 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 668336001905 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 668336001906 substrate binding site [chemical binding]; other site 668336001907 active site 668336001908 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 668336001909 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 668336001910 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 668336001911 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 668336001912 putative NADH binding site [chemical binding]; other site 668336001913 putative active site [active] 668336001914 nudix motif; other site 668336001915 putative metal binding site [ion binding]; other site 668336001916 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 668336001917 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 668336001918 active site 668336001919 substrate-binding site [chemical binding]; other site 668336001920 metal-binding site [ion binding] 668336001921 ATP binding site [chemical binding]; other site 668336001922 exopolyphosphatase; Provisional; Region: PRK10854 668336001923 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 668336001924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 668336001925 Family of unknown function (DUF490); Region: DUF490; pfam04357 668336001926 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 668336001927 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 668336001928 Surface antigen; Region: Bac_surface_Ag; pfam01103 668336001929 transcriptional regulator NarP; Provisional; Region: PRK10403 668336001930 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 668336001931 active site 668336001932 phosphorylation site [posttranslational modification] 668336001933 intermolecular recognition site; other site 668336001934 dimerization interface [polypeptide binding]; other site 668336001935 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 668336001936 DNA binding residues [nucleotide binding] 668336001937 dimerization interface [polypeptide binding]; other site 668336001938 adenylate cyclase; Provisional; Region: cyaA; PRK09450 668336001939 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 668336001940 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 668336001941 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 668336001942 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 668336001943 domain interfaces; other site 668336001944 active site 668336001945 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 668336001946 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 668336001947 active site 668336001948 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 668336001949 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 668336001950 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 668336001951 HemY protein N-terminus; Region: HemY_N; pfam07219 668336001952 hypothetical protein; Provisional; Region: PRK11212 668336001953 RNA polymerase sigma factor; Provisional; Region: PRK12530 668336001954 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 668336001955 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 668336001956 DNA binding residues [nucleotide binding] 668336001957 Putative zinc-finger; Region: zf-HC2; pfam13490 668336001958 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 668336001959 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 668336001960 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 668336001961 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 668336001962 RNA binding site [nucleotide binding]; other site 668336001963 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 668336001964 catalytic core [active] 668336001965 potential frameshift: common BLAST hit: gi|113461799|ref|YP_719868.1| permease 668336001966 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 668336001967 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 668336001968 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 668336001969 Transcriptional regulator [Transcription]; Region: LysR; COG0583 668336001970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 668336001971 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 668336001972 putative dimerization interface [polypeptide binding]; other site 668336001973 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 668336001974 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 668336001975 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 668336001976 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 668336001977 RNA binding site [nucleotide binding]; other site 668336001978 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 668336001979 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 668336001980 putative N- and C-terminal domain interface [polypeptide binding]; other site 668336001981 putative active site [active] 668336001982 MgATP binding site [chemical binding]; other site 668336001983 catalytic site [active] 668336001984 metal binding site [ion binding]; metal-binding site 668336001985 putative xylulose binding site [chemical binding]; other site 668336001986 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 668336001987 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 668336001988 TM-ABC transporter signature motif; other site 668336001989 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 668336001990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336001991 Walker A/P-loop; other site 668336001992 ATP binding site [chemical binding]; other site 668336001993 Q-loop/lid; other site 668336001994 ABC transporter signature motif; other site 668336001995 Walker B; other site 668336001996 D-loop; other site 668336001997 H-loop/switch region; other site 668336001998 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 668336001999 potential frameshift: common BLAST hit: gi|152977768|ref|YP_001343397.1| monosaccharide-transporting ATPase 668336002000 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 668336002001 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 668336002002 ligand binding site [chemical binding]; other site 668336002003 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 668336002004 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 668336002005 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 668336002006 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 668336002007 Antibiotic Binding Site [chemical binding]; other site 668336002008 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 668336002009 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 668336002010 G1 box; other site 668336002011 GEF interaction site [polypeptide binding]; other site 668336002012 GTP/Mg2+ binding site [chemical binding]; other site 668336002013 Switch I region; other site 668336002014 G2 box; other site 668336002015 G3 box; other site 668336002016 Switch II region; other site 668336002017 G4 box; other site 668336002018 G5 box; other site 668336002019 pantothenate kinase; Provisional; Region: PRK05439 668336002020 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 668336002021 ATP-binding site [chemical binding]; other site 668336002022 CoA-binding site [chemical binding]; other site 668336002023 Mg2+-binding site [ion binding]; other site 668336002024 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 668336002025 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 668336002026 ATP binding site [chemical binding]; other site 668336002027 Mg2+ binding site [ion binding]; other site 668336002028 G-X-G motif; other site 668336002029 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 668336002030 anchoring element; other site 668336002031 dimer interface [polypeptide binding]; other site 668336002032 ATP binding site [chemical binding]; other site 668336002033 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 668336002034 active site 668336002035 putative metal-binding site [ion binding]; other site 668336002036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 668336002037 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 668336002038 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 668336002039 ATP binding site [chemical binding]; other site 668336002040 putative Mg++ binding site [ion binding]; other site 668336002041 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 668336002042 nucleotide binding region [chemical binding]; other site 668336002043 ATP-binding site [chemical binding]; other site 668336002044 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 668336002045 HRDC domain; Region: HRDC; pfam00570 668336002046 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 668336002047 putative iron binding site [ion binding]; other site 668336002048 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 668336002049 diaminopimelate decarboxylase; Region: lysA; TIGR01048 668336002050 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 668336002051 active site 668336002052 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 668336002053 substrate binding site [chemical binding]; other site 668336002054 catalytic residues [active] 668336002055 dimer interface [polypeptide binding]; other site 668336002056 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 668336002057 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 668336002058 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 668336002059 OstA-like protein; Region: OstA; pfam03968 668336002060 Organic solvent tolerance protein; Region: OstA_C; pfam04453 668336002061 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 668336002062 active site 668336002063 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 668336002064 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 668336002065 metal binding site [ion binding]; metal-binding site 668336002066 dimer interface [polypeptide binding]; other site 668336002067 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 668336002068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 668336002069 NAD(P) binding site [chemical binding]; other site 668336002070 active site 668336002071 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 668336002072 Walker A motif; other site 668336002073 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 668336002074 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 668336002075 anti-sigma E factor; Provisional; Region: rseB; PRK09455 668336002076 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 668336002077 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 668336002078 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 668336002079 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 668336002080 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 668336002081 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 668336002082 DNA binding residues [nucleotide binding] 668336002083 Uncharacterized conserved protein [Function unknown]; Region: COG2938 668336002084 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 668336002085 prolyl-tRNA synthetase; Provisional; Region: PRK09194 668336002086 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 668336002087 dimer interface [polypeptide binding]; other site 668336002088 motif 1; other site 668336002089 active site 668336002090 motif 2; other site 668336002091 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 668336002092 putative deacylase active site [active] 668336002093 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 668336002094 active site 668336002095 motif 3; other site 668336002096 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 668336002097 anticodon binding site; other site 668336002098 selenocysteine synthase; Provisional; Region: PRK04311 668336002099 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 668336002100 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 668336002101 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 668336002102 catalytic residue [active] 668336002103 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 668336002104 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 668336002105 G1 box; other site 668336002106 putative GEF interaction site [polypeptide binding]; other site 668336002107 GTP/Mg2+ binding site [chemical binding]; other site 668336002108 Switch I region; other site 668336002109 G2 box; other site 668336002110 G3 box; other site 668336002111 Switch II region; other site 668336002112 G4 box; other site 668336002113 G5 box; other site 668336002114 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 668336002115 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 668336002116 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 668336002117 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 668336002118 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 668336002119 Protein of unknown function (DUF972); Region: DUF972; pfam06156 668336002120 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 668336002121 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 668336002122 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 668336002123 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 668336002124 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 668336002125 Na2 binding site [ion binding]; other site 668336002126 putative substrate binding site 1 [chemical binding]; other site 668336002127 Na binding site 1 [ion binding]; other site 668336002128 putative substrate binding site 2 [chemical binding]; other site 668336002129 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 668336002130 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 668336002131 TPR motif; other site 668336002132 binding surface 668336002133 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 668336002134 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 668336002135 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 668336002136 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 668336002137 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 668336002138 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 668336002139 ATP binding site [chemical binding]; other site 668336002140 Walker A motif; other site 668336002141 hexamer interface [polypeptide binding]; other site 668336002142 Walker B motif; other site 668336002143 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 668336002144 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 668336002145 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 668336002146 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 668336002147 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 668336002148 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 668336002149 Flp/Fap pilin component; Region: Flp_Fap; cl01585 668336002150 metal-binding heat shock protein; Provisional; Region: PRK00016 668336002151 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 668336002152 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 668336002153 Helicase; Region: Helicase_RecD; pfam05127 668336002154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 668336002155 Coenzyme A binding pocket [chemical binding]; other site 668336002156 transcription-repair coupling factor; Provisional; Region: PRK10689 668336002157 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 668336002158 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 668336002159 ATP binding site [chemical binding]; other site 668336002160 putative Mg++ binding site [ion binding]; other site 668336002161 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 668336002162 nucleotide binding region [chemical binding]; other site 668336002163 ATP-binding site [chemical binding]; other site 668336002164 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 668336002165 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 668336002166 dimer interface [polypeptide binding]; other site 668336002167 active site 668336002168 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 668336002169 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336002170 Walker A/P-loop; other site 668336002171 ATP binding site [chemical binding]; other site 668336002172 Q-loop/lid; other site 668336002173 ABC transporter signature motif; other site 668336002174 Walker B; other site 668336002175 D-loop; other site 668336002176 H-loop/switch region; other site 668336002177 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 668336002178 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 668336002179 substrate binding pocket [chemical binding]; other site 668336002180 membrane-bound complex binding site; other site 668336002181 hinge residues; other site 668336002182 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 668336002183 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 668336002184 dimer interface [polypeptide binding]; other site 668336002185 conserved gate region; other site 668336002186 putative PBP binding loops; other site 668336002187 ABC-ATPase subunit interface; other site 668336002188 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 668336002189 dimer interface [polypeptide binding]; other site 668336002190 conserved gate region; other site 668336002191 putative PBP binding loops; other site 668336002192 ABC-ATPase subunit interface; other site 668336002193 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 668336002194 Carbon starvation protein CstA; Region: CstA; pfam02554 668336002195 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 668336002196 cell division protein MraZ; Reviewed; Region: PRK00326 668336002197 MraZ protein; Region: MraZ; pfam02381 668336002198 MraZ protein; Region: MraZ; pfam02381 668336002199 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 668336002200 MraW methylase family; Region: Methyltransf_5; pfam01795 668336002201 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 668336002202 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 668336002203 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 668336002204 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 668336002205 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 668336002206 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 668336002207 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 668336002208 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 668336002209 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 668336002210 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 668336002211 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 668336002212 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 668336002213 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 668336002214 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 668336002215 Mg++ binding site [ion binding]; other site 668336002216 putative catalytic motif [active] 668336002217 putative substrate binding site [chemical binding]; other site 668336002218 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 668336002219 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 668336002220 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 668336002221 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 668336002222 cell division protein FtsW; Region: ftsW; TIGR02614 668336002223 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 668336002224 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 668336002225 active site 668336002226 homodimer interface [polypeptide binding]; other site 668336002227 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 668336002228 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 668336002229 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 668336002230 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 668336002231 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 668336002232 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 668336002233 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 668336002234 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 668336002235 Cell division protein FtsQ; Region: FtsQ; pfam03799 668336002236 cell division protein FtsA; Region: ftsA; TIGR01174 668336002237 Cell division protein FtsA; Region: FtsA; smart00842 668336002238 Cell division protein FtsA; Region: FtsA; pfam14450 668336002239 cell division protein FtsZ; Validated; Region: PRK09330 668336002240 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 668336002241 nucleotide binding site [chemical binding]; other site 668336002242 SulA interaction site; other site 668336002243 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 668336002244 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 668336002245 potential frameshift: common BLAST hit: gi|251792032|ref|YP_003006752.1| P-protein 668336002246 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 668336002247 Prephenate dehydratase; Region: PDT; pfam00800 668336002248 Prephenate dehydratase; Region: PDT; pfam00800 668336002249 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 668336002250 putative L-Phe binding site [chemical binding]; other site 668336002251 heat shock protein 90; Provisional; Region: PRK05218 668336002252 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 668336002253 ATP binding site [chemical binding]; other site 668336002254 Mg2+ binding site [ion binding]; other site 668336002255 G-X-G motif; other site 668336002256 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 668336002257 ArsC family; Region: ArsC; pfam03960 668336002258 putative catalytic residues [active] 668336002259 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 668336002260 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 668336002261 metal binding site [ion binding]; metal-binding site 668336002262 dimer interface [polypeptide binding]; other site 668336002263 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 668336002264 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 668336002265 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 668336002266 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 668336002267 dimer interface [polypeptide binding]; other site 668336002268 ADP-ribose binding site [chemical binding]; other site 668336002269 active site 668336002270 nudix motif; other site 668336002271 metal binding site [ion binding]; metal-binding site 668336002272 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 668336002273 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 668336002274 active site 668336002275 metal binding site [ion binding]; metal-binding site 668336002276 hexamer interface [polypeptide binding]; other site 668336002277 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 668336002278 oxidoreductase; Region: PLN02991 668336002279 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 668336002280 Ligand Binding Site [chemical binding]; other site 668336002281 AAA domain; Region: AAA_14; pfam13173 668336002282 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 668336002283 hypothetical protein; Provisional; Region: PHA02961 668336002284 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 668336002285 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 668336002286 putative NAD(P) binding site [chemical binding]; other site 668336002287 putative substrate binding site [chemical binding]; other site 668336002288 catalytic Zn binding site [ion binding]; other site 668336002289 structural Zn binding site [ion binding]; other site 668336002290 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 668336002291 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 668336002292 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 668336002293 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 668336002294 putative RNA binding site [nucleotide binding]; other site 668336002295 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 668336002296 S-adenosylmethionine binding site [chemical binding]; other site 668336002297 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 668336002298 Iron-sulfur protein interface; other site 668336002299 proximal quinone binding site [chemical binding]; other site 668336002300 C-subunit interface; other site 668336002301 distal quinone binding site; other site 668336002302 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 668336002303 D-subunit interface [polypeptide binding]; other site 668336002304 Iron-sulfur protein interface; other site 668336002305 proximal quinone binding site [chemical binding]; other site 668336002306 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 668336002307 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 668336002308 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 668336002309 L-aspartate oxidase; Provisional; Region: PRK06175 668336002310 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 668336002311 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 668336002312 poxB regulator PoxA; Provisional; Region: PRK09350 668336002313 motif 1; other site 668336002314 dimer interface [polypeptide binding]; other site 668336002315 active site 668336002316 motif 2; other site 668336002317 motif 3; other site 668336002318 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 668336002319 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 668336002320 Walker A/P-loop; other site 668336002321 ATP binding site [chemical binding]; other site 668336002322 Q-loop/lid; other site 668336002323 ABC transporter signature motif; other site 668336002324 Walker B; other site 668336002325 D-loop; other site 668336002326 H-loop/switch region; other site 668336002327 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 668336002328 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 668336002329 ABC-ATPase subunit interface; other site 668336002330 dimer interface [polypeptide binding]; other site 668336002331 putative PBP binding regions; other site 668336002332 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 668336002333 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 668336002334 ABC-ATPase subunit interface; other site 668336002335 dimer interface [polypeptide binding]; other site 668336002336 putative PBP binding regions; other site 668336002337 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 668336002338 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 668336002339 siderophore binding site; other site 668336002340 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 668336002341 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 668336002342 putative active site [active] 668336002343 putative metal binding site [ion binding]; other site 668336002344 hypothetical protein; Validated; Region: PRK00153 668336002345 recombination protein RecR; Reviewed; Region: recR; PRK00076 668336002346 RecR protein; Region: RecR; pfam02132 668336002347 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 668336002348 putative active site [active] 668336002349 putative metal-binding site [ion binding]; other site 668336002350 tetramer interface [polypeptide binding]; other site 668336002351 DNA topoisomerase III; Provisional; Region: PRK07726 668336002352 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 668336002353 active site 668336002354 putative interdomain interaction site [polypeptide binding]; other site 668336002355 putative metal-binding site [ion binding]; other site 668336002356 putative nucleotide binding site [chemical binding]; other site 668336002357 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 668336002358 domain I; other site 668336002359 phosphate binding site [ion binding]; other site 668336002360 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 668336002361 domain II; other site 668336002362 domain III; other site 668336002363 nucleotide binding site [chemical binding]; other site 668336002364 DNA binding groove [nucleotide binding] 668336002365 catalytic site [active] 668336002366 domain IV; other site 668336002367 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 668336002368 Helix-turn-helix domain; Region: HTH_39; pfam14090 668336002369 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 668336002370 Transglycosylase; Region: Transgly; cl17702 668336002371 Trp operon repressor; Provisional; Region: PRK01381 668336002372 lytic murein transglycosylase; Provisional; Region: PRK11619 668336002373 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 668336002374 N-acetyl-D-glucosamine binding site [chemical binding]; other site 668336002375 catalytic residue [active] 668336002376 YciI-like protein; Reviewed; Region: PRK11370 668336002377 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 668336002378 intracellular septation protein A; Reviewed; Region: PRK00259 668336002379 potential frameshift: common BLAST hit: gi|190150413|ref|YP_001968938.1| outer membrane protein W precursor 668336002380 OmpW family; Region: OmpW; cl17427 668336002381 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 668336002382 recombination and repair protein; Provisional; Region: PRK10869 668336002383 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 668336002384 Walker A/P-loop; other site 668336002385 ATP binding site [chemical binding]; other site 668336002386 Q-loop/lid; other site 668336002387 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 668336002388 ABC transporter signature motif; other site 668336002389 Walker B; other site 668336002390 D-loop; other site 668336002391 H-loop/switch region; other site 668336002392 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 668336002393 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 668336002394 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 668336002395 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 668336002396 dimer interface [polypeptide binding]; other site 668336002397 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 668336002398 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 668336002399 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 668336002400 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 668336002401 Uncharacterized conserved protein [Function unknown]; Region: COG4121 668336002402 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 668336002403 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 668336002404 dimer interface [polypeptide binding]; other site 668336002405 active site 668336002406 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 668336002407 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 668336002408 dimer interface [polypeptide binding]; other site 668336002409 phosphorylation site [posttranslational modification] 668336002410 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 668336002411 ATP binding site [chemical binding]; other site 668336002412 Mg2+ binding site [ion binding]; other site 668336002413 G-X-G motif; other site 668336002414 Response regulator receiver domain; Region: Response_reg; pfam00072 668336002415 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 668336002416 active site 668336002417 phosphorylation site [posttranslational modification] 668336002418 intermolecular recognition site; other site 668336002419 dimerization interface [polypeptide binding]; other site 668336002420 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 668336002421 putative binding surface; other site 668336002422 active site 668336002423 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 668336002424 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 668336002425 TM-ABC transporter signature motif; other site 668336002426 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 668336002427 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 668336002428 Walker A/P-loop; other site 668336002429 ATP binding site [chemical binding]; other site 668336002430 Q-loop/lid; other site 668336002431 ABC transporter signature motif; other site 668336002432 Walker B; other site 668336002433 D-loop; other site 668336002434 H-loop/switch region; other site 668336002435 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 668336002436 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 668336002437 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 668336002438 ligand binding site [chemical binding]; other site 668336002439 calcium binding site [ion binding]; other site 668336002440 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 668336002441 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 668336002442 DNA binding site [nucleotide binding] 668336002443 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 668336002444 ligand binding site [chemical binding]; other site 668336002445 dimerization interface (closed form) [polypeptide binding]; other site 668336002446 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 668336002447 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 668336002448 dimer interface [polypeptide binding]; other site 668336002449 active site 668336002450 galactokinase; Provisional; Region: PRK05101 668336002451 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 668336002452 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 668336002453 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 668336002454 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 668336002455 active site 668336002456 catalytic residues [active] 668336002457 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 668336002458 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 668336002459 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 668336002460 transmembrane helices; other site 668336002461 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 668336002462 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 668336002463 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 668336002464 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 668336002465 citrate lyase subunit gamma; Provisional; Region: PRK13253 668336002466 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 668336002467 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 668336002468 putative active site [active] 668336002469 (T/H)XGH motif; other site 668336002470 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 668336002471 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 668336002472 Transporter associated domain; Region: CorC_HlyC; smart01091 668336002473 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 668336002474 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 668336002475 putative active site [active] 668336002476 catalytic triad [active] 668336002477 putative dimer interface [polypeptide binding]; other site 668336002478 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 668336002479 rRNA binding site [nucleotide binding]; other site 668336002480 predicted 30S ribosome binding site; other site 668336002481 aminopeptidase B; Provisional; Region: PRK05015 668336002482 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 668336002483 interface (dimer of trimers) [polypeptide binding]; other site 668336002484 Substrate-binding/catalytic site; other site 668336002485 Zn-binding sites [ion binding]; other site 668336002486 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 668336002487 active site 668336002488 multimer interface [polypeptide binding]; other site 668336002489 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cd02742 668336002490 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 668336002491 active site 668336002492 antiporter inner membrane protein; Provisional; Region: PRK11670 668336002493 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 668336002494 Walker A motif; other site 668336002495 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 668336002496 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 668336002497 active site 668336002498 HIGH motif; other site 668336002499 KMSKS motif; other site 668336002500 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 668336002501 tRNA binding surface [nucleotide binding]; other site 668336002502 anticodon binding site; other site 668336002503 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 668336002504 dimer interface [polypeptide binding]; other site 668336002505 putative tRNA-binding site [nucleotide binding]; other site 668336002506 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 668336002507 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 668336002508 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 668336002509 catalytic loop [active] 668336002510 iron binding site [ion binding]; other site 668336002511 chaperone protein HscA; Provisional; Region: hscA; PRK05183 668336002512 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 668336002513 nucleotide binding site [chemical binding]; other site 668336002514 putative NEF/HSP70 interaction site [polypeptide binding]; other site 668336002515 SBD interface [polypeptide binding]; other site 668336002516 co-chaperone HscB; Provisional; Region: hscB; PRK01773 668336002517 DnaJ domain; Region: DnaJ; pfam00226 668336002518 HSP70 interaction site [polypeptide binding]; other site 668336002519 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 668336002520 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 668336002521 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 668336002522 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 668336002523 trimerization site [polypeptide binding]; other site 668336002524 active site 668336002525 cysteine desulfurase; Provisional; Region: PRK14012 668336002526 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 668336002527 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 668336002528 catalytic residue [active] 668336002529 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 668336002530 Rrf2 family protein; Region: rrf2_super; TIGR00738 668336002531 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 668336002532 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 668336002533 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 668336002534 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 668336002535 active site 668336002536 dimerization interface [polypeptide binding]; other site 668336002537 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 668336002538 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 668336002539 Walker A/P-loop; other site 668336002540 ATP binding site [chemical binding]; other site 668336002541 Q-loop/lid; other site 668336002542 ABC transporter signature motif; other site 668336002543 Walker B; other site 668336002544 D-loop; other site 668336002545 H-loop/switch region; other site 668336002546 TOBE domain; Region: TOBE_2; pfam08402 668336002547 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 668336002548 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 668336002549 dimer interface [polypeptide binding]; other site 668336002550 conserved gate region; other site 668336002551 putative PBP binding loops; other site 668336002552 ABC-ATPase subunit interface; other site 668336002553 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 668336002554 dimer interface [polypeptide binding]; other site 668336002555 conserved gate region; other site 668336002556 putative PBP binding loops; other site 668336002557 ABC-ATPase subunit interface; other site 668336002558 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 668336002559 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 668336002560 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 668336002561 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 668336002562 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 668336002563 Sugar specificity; other site 668336002564 Pyrimidine base specificity; other site 668336002565 ATP-binding site [chemical binding]; other site 668336002566 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 668336002567 trimer interface [polypeptide binding]; other site 668336002568 active site 668336002569 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 668336002570 putative arabinose transporter; Provisional; Region: PRK03545 668336002571 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 668336002572 putative substrate translocation pore; other site 668336002573 GTP-binding protein Der; Reviewed; Region: PRK00093 668336002574 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 668336002575 G1 box; other site 668336002576 GTP/Mg2+ binding site [chemical binding]; other site 668336002577 Switch I region; other site 668336002578 G2 box; other site 668336002579 Switch II region; other site 668336002580 G3 box; other site 668336002581 G4 box; other site 668336002582 G5 box; other site 668336002583 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 668336002584 G1 box; other site 668336002585 GTP/Mg2+ binding site [chemical binding]; other site 668336002586 Switch I region; other site 668336002587 G2 box; other site 668336002588 G3 box; other site 668336002589 Switch II region; other site 668336002590 G4 box; other site 668336002591 G5 box; other site 668336002592 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 668336002593 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 668336002594 HSP70 interaction site [polypeptide binding]; other site 668336002595 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 668336002596 substrate binding site [polypeptide binding]; other site 668336002597 dimer interface [polypeptide binding]; other site 668336002598 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 668336002599 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 668336002600 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 668336002601 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 668336002602 GDP-binding site [chemical binding]; other site 668336002603 ACT binding site; other site 668336002604 IMP binding site; other site 668336002605 Methyltransferase domain; Region: Methyltransf_23; pfam13489 668336002606 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 668336002607 S-adenosylmethionine binding site [chemical binding]; other site 668336002608 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 668336002609 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 668336002610 Na binding site [ion binding]; other site 668336002611 ribonuclease G; Provisional; Region: PRK11712 668336002612 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 668336002613 homodimer interface [polypeptide binding]; other site 668336002614 oligonucleotide binding site [chemical binding]; other site 668336002615 glutaredoxin 2; Provisional; Region: PRK10387 668336002616 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 668336002617 C-terminal domain interface [polypeptide binding]; other site 668336002618 GSH binding site (G-site) [chemical binding]; other site 668336002619 catalytic residues [active] 668336002620 putative dimer interface [polypeptide binding]; other site 668336002621 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 668336002622 N-terminal domain interface [polypeptide binding]; other site 668336002623 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 668336002624 NAD-dependent deacetylase; Provisional; Region: PRK00481 668336002625 NAD+ binding site [chemical binding]; other site 668336002626 substrate binding site [chemical binding]; other site 668336002627 Zn binding site [ion binding]; other site 668336002628 Helix-turn-helix domain; Region: HTH_28; pfam13518 668336002629 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 668336002630 PemK-like protein; Region: PemK; cl00995 668336002631 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 668336002632 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 668336002633 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 668336002634 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 668336002635 putative catalytic site [active] 668336002636 CdtC interface [polypeptide binding]; other site 668336002637 heterotrimer interface [polypeptide binding]; other site 668336002638 CdtA interface [polypeptide binding]; other site 668336002639 putative metal binding site [ion binding]; other site 668336002640 putative phosphate binding site [ion binding]; other site 668336002641 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 668336002642 ParB-like nuclease domain; Region: ParBc; pfam02195 668336002643 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 668336002644 cystathionine beta-lyase; Provisional; Region: PRK08114 668336002645 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 668336002646 homodimer interface [polypeptide binding]; other site 668336002647 substrate-cofactor binding pocket; other site 668336002648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336002649 catalytic residue [active] 668336002650 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 668336002651 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 668336002652 trimer interface [polypeptide binding]; other site 668336002653 eyelet of channel; other site 668336002654 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 668336002655 PemK-like protein; Region: PemK; cl00995 668336002656 chaperone protein DnaJ; Provisional; Region: PRK10767 668336002657 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 668336002658 HSP70 interaction site [polypeptide binding]; other site 668336002659 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 668336002660 substrate binding site [polypeptide binding]; other site 668336002661 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 668336002662 Zn binding sites [ion binding]; other site 668336002663 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 668336002664 dimer interface [polypeptide binding]; other site 668336002665 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 668336002666 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 668336002667 nucleotide binding site [chemical binding]; other site 668336002668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 668336002669 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 668336002670 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 668336002671 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 668336002672 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 668336002673 active site 668336002674 HIGH motif; other site 668336002675 KMSK motif region; other site 668336002676 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 668336002677 tRNA binding surface [nucleotide binding]; other site 668336002678 anticodon binding site; other site 668336002679 hypothetical protein; Provisional; Region: PRK11700 668336002680 active site 668336002681 metal binding site [ion binding]; metal-binding site 668336002682 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 668336002683 peptide chain release factor 1; Validated; Region: prfA; PRK00591 668336002684 This domain is found in peptide chain release factors; Region: PCRF; smart00937 668336002685 RF-1 domain; Region: RF-1; pfam00472 668336002686 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 668336002687 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 668336002688 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 668336002689 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 668336002690 NlpC/P60 family; Region: NLPC_P60; pfam00877 668336002691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 668336002692 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 668336002693 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 668336002694 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 668336002695 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 668336002696 catalytic core [active] 668336002697 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 668336002698 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 668336002699 active site 668336002700 substrate binding site [chemical binding]; other site 668336002701 metal binding site [ion binding]; metal-binding site 668336002702 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 668336002703 dihydropteroate synthase; Region: DHPS; TIGR01496 668336002704 substrate binding pocket [chemical binding]; other site 668336002705 dimer interface [polypeptide binding]; other site 668336002706 inhibitor binding site; inhibition site 668336002707 DNA polymerase IV; Validated; Region: PRK02406 668336002708 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 668336002709 active site 668336002710 DNA binding site [nucleotide binding] 668336002711 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 668336002712 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 668336002713 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 668336002714 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 668336002715 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 668336002716 active site 668336002717 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 668336002718 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 668336002719 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 668336002720 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 668336002721 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 668336002722 Walker A/P-loop; other site 668336002723 ATP binding site [chemical binding]; other site 668336002724 Q-loop/lid; other site 668336002725 ABC transporter signature motif; other site 668336002726 Walker B; other site 668336002727 D-loop; other site 668336002728 H-loop/switch region; other site 668336002729 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 668336002730 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 668336002731 Walker A/P-loop; other site 668336002732 ATP binding site [chemical binding]; other site 668336002733 Q-loop/lid; other site 668336002734 ABC transporter signature motif; other site 668336002735 Walker B; other site 668336002736 D-loop; other site 668336002737 H-loop/switch region; other site 668336002738 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 668336002739 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 668336002740 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 668336002741 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 668336002742 dimer interface [polypeptide binding]; other site 668336002743 conserved gate region; other site 668336002744 putative PBP binding loops; other site 668336002745 ABC-ATPase subunit interface; other site 668336002746 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 668336002747 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 668336002748 dimer interface [polypeptide binding]; other site 668336002749 conserved gate region; other site 668336002750 putative PBP binding loops; other site 668336002751 ABC-ATPase subunit interface; other site 668336002752 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 668336002753 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 668336002754 peptide binding site [polypeptide binding]; other site 668336002755 YcjX-like family, DUF463; Region: DUF463; cl01193 668336002756 hypothetical protein; Provisional; Region: PRK05415 668336002757 Domain of unknown function (DUF697); Region: DUF697; cl12064 668336002758 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 668336002759 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 668336002760 Walker A motif; other site 668336002761 ATP binding site [chemical binding]; other site 668336002762 Walker B motif; other site 668336002763 arginine finger; other site 668336002764 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 668336002765 bacterial Hfq-like; Region: Hfq; cd01716 668336002766 hexamer interface [polypeptide binding]; other site 668336002767 Sm1 motif; other site 668336002768 RNA binding site [nucleotide binding]; other site 668336002769 Sm2 motif; other site 668336002770 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 668336002771 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 668336002772 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 668336002773 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 668336002774 ATP binding site [chemical binding]; other site 668336002775 Mg2+ binding site [ion binding]; other site 668336002776 G-X-G motif; other site 668336002777 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 668336002778 ATP binding site [chemical binding]; other site 668336002779 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 668336002780 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 668336002781 active site 668336002782 metal binding site [ion binding]; metal-binding site 668336002783 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 668336002784 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 668336002785 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 668336002786 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 668336002787 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 668336002788 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 668336002789 Ligand binding site; other site 668336002790 Putative Catalytic site; other site 668336002791 DXD motif; other site 668336002792 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 668336002793 S-adenosylmethionine binding site [chemical binding]; other site 668336002794 spermidine synthase; Provisional; Region: PRK03612 668336002795 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 668336002796 Sulfatase; Region: Sulfatase; pfam00884 668336002797 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 668336002798 catalytic site [active] 668336002799 putative active site [active] 668336002800 putative substrate binding site [chemical binding]; other site 668336002801 dimer interface [polypeptide binding]; other site 668336002802 GTPase RsgA; Reviewed; Region: PRK12288 668336002803 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 668336002804 RNA binding site [nucleotide binding]; other site 668336002805 homodimer interface [polypeptide binding]; other site 668336002806 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 668336002807 GTPase/Zn-binding domain interface [polypeptide binding]; other site 668336002808 GTP/Mg2+ binding site [chemical binding]; other site 668336002809 G4 box; other site 668336002810 G5 box; other site 668336002811 G1 box; other site 668336002812 Switch I region; other site 668336002813 G2 box; other site 668336002814 G3 box; other site 668336002815 Switch II region; other site 668336002816 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 668336002817 dimerization domain swap beta strand [polypeptide binding]; other site 668336002818 regulatory protein interface [polypeptide binding]; other site 668336002819 active site 668336002820 regulatory phosphorylation site [posttranslational modification]; other site 668336002821 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 668336002822 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 668336002823 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 668336002824 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 668336002825 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 668336002826 HPr interaction site; other site 668336002827 glycerol kinase (GK) interaction site [polypeptide binding]; other site 668336002828 active site 668336002829 phosphorylation site [posttranslational modification] 668336002830 oligopeptidase A; Provisional; Region: PRK10911 668336002831 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 668336002832 active site 668336002833 Zn binding site [ion binding]; other site 668336002834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 668336002835 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 668336002836 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 668336002837 peptide binding site [polypeptide binding]; other site 668336002838 hypothetical protein; Provisional; Region: PRK07101 668336002839 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 668336002840 substrate-cofactor binding pocket; other site 668336002841 para-aminobenzoate synthase component I; Validated; Region: PRK07093 668336002842 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 668336002843 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 668336002844 Glutamine amidotransferase class-I; Region: GATase; pfam00117 668336002845 glutamine binding [chemical binding]; other site 668336002846 catalytic triad [active] 668336002847 glycerate dehydrogenase; Provisional; Region: PRK06932 668336002848 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 668336002849 putative ligand binding site [chemical binding]; other site 668336002850 putative NAD binding site [chemical binding]; other site 668336002851 catalytic site [active] 668336002852 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 668336002853 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 668336002854 FtsX-like permease family; Region: FtsX; pfam02687 668336002855 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 668336002856 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 668336002857 Walker A/P-loop; other site 668336002858 ATP binding site [chemical binding]; other site 668336002859 Q-loop/lid; other site 668336002860 ABC transporter signature motif; other site 668336002861 Walker B; other site 668336002862 D-loop; other site 668336002863 H-loop/switch region; other site 668336002864 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 668336002865 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 668336002866 FtsX-like permease family; Region: FtsX; pfam02687 668336002867 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 668336002868 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 668336002869 replicative DNA helicase; Validated; Region: PRK06904 668336002870 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 668336002871 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 668336002872 Walker A motif; other site 668336002873 ATP binding site [chemical binding]; other site 668336002874 Walker B motif; other site 668336002875 DNA binding loops [nucleotide binding] 668336002876 alanine racemase; Reviewed; Region: alr; PRK00053 668336002877 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 668336002878 active site 668336002879 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 668336002880 substrate binding site [chemical binding]; other site 668336002881 catalytic residues [active] 668336002882 dimer interface [polypeptide binding]; other site 668336002883 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 668336002884 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 668336002885 active site 668336002886 dimer interface [polypeptide binding]; other site 668336002887 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 668336002888 dimer interface [polypeptide binding]; other site 668336002889 active site 668336002890 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 668336002891 homopentamer interface [polypeptide binding]; other site 668336002892 active site 668336002893 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 668336002894 putative RNA binding site [nucleotide binding]; other site 668336002895 thiamine monophosphate kinase; Provisional; Region: PRK05731 668336002896 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 668336002897 ATP binding site [chemical binding]; other site 668336002898 dimerization interface [polypeptide binding]; other site 668336002899 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 668336002900 tetramer interfaces [polypeptide binding]; other site 668336002901 binuclear metal-binding site [ion binding]; other site 668336002902 LysE type translocator; Region: LysE; cl00565 668336002903 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 668336002904 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 668336002905 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 668336002906 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 668336002907 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 668336002908 catalytic loop [active] 668336002909 iron binding site [ion binding]; other site 668336002910 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 668336002911 dimer interface [polypeptide binding]; other site 668336002912 putative radical transfer pathway; other site 668336002913 diiron center [ion binding]; other site 668336002914 tyrosyl radical; other site 668336002915 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 668336002916 ATP cone domain; Region: ATP-cone; pfam03477 668336002917 Class I ribonucleotide reductase; Region: RNR_I; cd01679 668336002918 active site 668336002919 dimer interface [polypeptide binding]; other site 668336002920 catalytic residues [active] 668336002921 effector binding site; other site 668336002922 R2 peptide binding site; other site 668336002923 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 668336002924 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 668336002925 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 668336002926 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 668336002927 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 668336002928 dimer interface [polypeptide binding]; other site 668336002929 conserved gate region; other site 668336002930 putative PBP binding loops; other site 668336002931 ABC-ATPase subunit interface; other site 668336002932 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 668336002933 dimer interface [polypeptide binding]; other site 668336002934 conserved gate region; other site 668336002935 putative PBP binding loops; other site 668336002936 ABC-ATPase subunit interface; other site 668336002937 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 668336002938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336002939 Walker A/P-loop; other site 668336002940 ATP binding site [chemical binding]; other site 668336002941 Q-loop/lid; other site 668336002942 ABC transporter signature motif; other site 668336002943 Walker B; other site 668336002944 D-loop; other site 668336002945 H-loop/switch region; other site 668336002946 TOBE domain; Region: TOBE_2; pfam08402 668336002947 alpha-amylase; Reviewed; Region: malS; PRK09505 668336002948 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 668336002949 active site 668336002950 catalytic site [active] 668336002951 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 668336002952 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 668336002953 dimer interface [polypeptide binding]; other site 668336002954 conserved gate region; other site 668336002955 putative PBP binding loops; other site 668336002956 ABC-ATPase subunit interface; other site 668336002957 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 668336002958 dimer interface [polypeptide binding]; other site 668336002959 conserved gate region; other site 668336002960 putative PBP binding loops; other site 668336002961 ABC-ATPase subunit interface; other site 668336002962 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 668336002963 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 668336002964 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 668336002965 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 668336002966 Walker A/P-loop; other site 668336002967 ATP binding site [chemical binding]; other site 668336002968 Q-loop/lid; other site 668336002969 ABC transporter signature motif; other site 668336002970 Walker B; other site 668336002971 D-loop; other site 668336002972 H-loop/switch region; other site 668336002973 TOBE domain; Region: TOBE_2; pfam08402 668336002974 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 668336002975 trimer interface; other site 668336002976 sugar binding site [chemical binding]; other site 668336002977 maltose regulon periplasmic protein; Provisional; Region: PRK10564 668336002978 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 668336002979 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 668336002980 ATP binding site [chemical binding]; other site 668336002981 substrate interface [chemical binding]; other site 668336002982 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 668336002983 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 668336002984 dimer interface [polypeptide binding]; other site 668336002985 putative functional site; other site 668336002986 putative MPT binding site; other site 668336002987 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 668336002988 homodecamer interface [polypeptide binding]; other site 668336002989 GTP cyclohydrolase I; Provisional; Region: PLN03044 668336002990 active site 668336002991 putative catalytic site residues [active] 668336002992 zinc binding site [ion binding]; other site 668336002993 GTP-CH-I/GFRP interaction surface; other site 668336002994 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 668336002995 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 668336002996 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 668336002997 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 668336002998 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 668336002999 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 668336003000 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 668336003001 Predicted transcriptional regulator [Transcription]; Region: COG3636 668336003002 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 668336003003 Lumazine binding domain; Region: Lum_binding; pfam00677 668336003004 Lumazine binding domain; Region: Lum_binding; pfam00677 668336003005 multidrug efflux protein; Reviewed; Region: PRK01766 668336003006 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 668336003007 cation binding site [ion binding]; other site 668336003008 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 668336003009 putative deacylase active site [active] 668336003010 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 668336003011 Domain of unknown function (DUF1919); Region: DUF1919; cl01628 668336003012 potential frameshift: common BLAST hit: gi|51209462|ref|YP_063425.1| cmgb3/4 668336003013 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 668336003014 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 668336003015 AAA-like domain; Region: AAA_10; pfam12846 668336003016 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 668336003017 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; cl17220 668336003018 putative Zn2+ binding site [ion binding]; other site 668336003019 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 668336003020 non-specific DNA binding site [nucleotide binding]; other site 668336003021 salt bridge; other site 668336003022 sequence-specific DNA binding site [nucleotide binding]; other site 668336003023 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; cl00427 668336003024 potential frameshift: common BLAST hit: gi|251792078|ref|YP_003006798.1| sulfate/thiosulfate import ATP-binding protein CysA 668336003025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336003026 Walker A/P-loop; other site 668336003027 ATP binding site [chemical binding]; other site 668336003028 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336003029 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 668336003030 ABC transporter signature motif; other site 668336003031 Walker B; other site 668336003032 D-loop; other site 668336003033 H-loop/switch region; other site 668336003034 molybdenum transport protein ModD; Provisional; Region: PRK06096 668336003035 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 668336003036 dimerization interface [polypeptide binding]; other site 668336003037 active site 668336003038 protease TldD; Provisional; Region: tldD; PRK10735 668336003039 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 668336003040 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 668336003041 MG2 domain; Region: A2M_N; pfam01835 668336003042 Alpha-2-macroglobulin family; Region: A2M; pfam00207 668336003043 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 668336003044 surface patch; other site 668336003045 thioester region; other site 668336003046 specificity defining residues; other site 668336003047 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 668336003048 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 668336003049 Transglycosylase; Region: Transgly; pfam00912 668336003050 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 668336003051 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 668336003052 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 668336003053 active site 668336003054 dimer interface [polypeptide binding]; other site 668336003055 magnesium binding site [ion binding]; other site 668336003056 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 668336003057 active site 668336003058 phosphorylation site [posttranslational modification] 668336003059 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 668336003060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 668336003061 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 668336003062 active site 668336003063 P-loop; other site 668336003064 phosphorylation site [posttranslational modification] 668336003065 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 668336003066 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 668336003067 transcriptional repressor UlaR; Provisional; Region: PRK13509 668336003068 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 668336003069 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 668336003070 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 668336003071 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; cd00019 668336003072 AP (apurinic/apyrimidinic) site pocket; other site 668336003073 DNA interaction; other site 668336003074 Metal-binding active site; metal-binding site 668336003075 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 668336003076 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 668336003077 intersubunit interface [polypeptide binding]; other site 668336003078 active site 668336003079 Zn2+ binding site [ion binding]; other site 668336003080 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 668336003081 aromatic amino acid transport protein; Region: araaP; TIGR00837 668336003082 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 668336003083 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 668336003084 GSH binding site [chemical binding]; other site 668336003085 catalytic residues [active] 668336003086 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 668336003087 dimer interface [polypeptide binding]; other site 668336003088 FMN binding site [chemical binding]; other site 668336003089 NADPH bind site [chemical binding]; other site 668336003090 ATP-grasp domain; Region: ATP-grasp_4; cl17255 668336003091 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 668336003092 fumarate hydratase; Reviewed; Region: fumC; PRK00485 668336003093 Class II fumarases; Region: Fumarase_classII; cd01362 668336003094 active site 668336003095 tetramer interface [polypeptide binding]; other site 668336003096 DNA polymerase III subunit chi; Validated; Region: PRK05728 668336003097 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 668336003098 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 668336003099 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 668336003100 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 668336003101 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 668336003102 HIGH motif; other site 668336003103 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 668336003104 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 668336003105 active site 668336003106 KMSKS motif; other site 668336003107 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 668336003108 tRNA binding surface [nucleotide binding]; other site 668336003109 anticodon binding site; other site 668336003110 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 668336003111 potential frameshift: common BLAST hit: gi|251792949|ref|YP_003007675.1| protein HipA 668336003112 HipA N-terminal domain; Region: Couple_hipA; cl11853 668336003113 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 668336003114 non-specific DNA binding site [nucleotide binding]; other site 668336003115 salt bridge; other site 668336003116 sequence-specific DNA binding site [nucleotide binding]; other site 668336003117 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 668336003118 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 668336003119 putative substrate translocation pore; other site 668336003120 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 668336003121 potential frameshift: common BLAST hit: gi|251792945|ref|YP_003007671.1| multidrug resistance protein A 668336003122 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 668336003123 HlyD family secretion protein; Region: HlyD_3; pfam13437 668336003124 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 668336003125 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 668336003126 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 668336003127 dimerization interface [polypeptide binding]; other site 668336003128 DPS ferroxidase diiron center [ion binding]; other site 668336003129 ion pore; other site 668336003130 exoribonuclease II; Provisional; Region: PRK05054 668336003131 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 668336003132 RNB domain; Region: RNB; pfam00773 668336003133 S1 RNA binding domain; Region: S1; pfam00575 668336003134 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 668336003135 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 668336003136 NAD binding site [chemical binding]; other site 668336003137 homotetramer interface [polypeptide binding]; other site 668336003138 homodimer interface [polypeptide binding]; other site 668336003139 substrate binding site [chemical binding]; other site 668336003140 active site 668336003141 Uncharacterized conserved protein [Function unknown]; Region: COG0327 668336003142 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 668336003143 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 668336003144 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 668336003145 FeS/SAM binding site; other site 668336003146 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 668336003147 active site 668336003148 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 668336003149 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 668336003150 dimer interface [polypeptide binding]; other site 668336003151 putative anticodon binding site; other site 668336003152 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 668336003153 motif 1; other site 668336003154 active site 668336003155 motif 2; other site 668336003156 motif 3; other site 668336003157 peptide chain release factor 2; Provisional; Region: PRK08787 668336003158 This domain is found in peptide chain release factors; Region: PCRF; smart00937 668336003159 RF-1 domain; Region: RF-1; pfam00472 668336003160 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 668336003161 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 668336003162 dimerization domain [polypeptide binding]; other site 668336003163 dimer interface [polypeptide binding]; other site 668336003164 catalytic residues [active] 668336003165 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 668336003166 DHH family; Region: DHH; pfam01368 668336003167 DHHA1 domain; Region: DHHA1; pfam02272 668336003168 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 668336003169 catalytic residues [active] 668336003170 hinge region; other site 668336003171 alpha helical domain; other site 668336003172 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 668336003173 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 668336003174 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 668336003175 cobalt transport protein CbiM; Validated; Region: PRK06265 668336003176 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 668336003177 Cobalt transport protein; Region: CbiQ; cl00463 668336003178 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 668336003179 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 668336003180 Walker A/P-loop; other site 668336003181 ATP binding site [chemical binding]; other site 668336003182 Q-loop/lid; other site 668336003183 ABC transporter signature motif; other site 668336003184 Walker B; other site 668336003185 D-loop; other site 668336003186 H-loop/switch region; other site 668336003187 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 668336003188 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 668336003189 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 668336003190 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 668336003191 dimerization interface [polypeptide binding]; other site 668336003192 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 668336003193 ATP binding site [chemical binding]; other site 668336003194 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 668336003195 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 668336003196 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 668336003197 shikimate binding site; other site 668336003198 NAD(P) binding site [chemical binding]; other site 668336003199 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 668336003200 FAD binding site [chemical binding]; other site 668336003201 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 668336003202 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 668336003203 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 668336003204 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 668336003205 multifunctional aminopeptidase A; Provisional; Region: PRK00913 668336003206 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 668336003207 interface (dimer of trimers) [polypeptide binding]; other site 668336003208 Substrate-binding/catalytic site; other site 668336003209 Zn-binding sites [ion binding]; other site 668336003210 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 668336003211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336003212 Walker A/P-loop; other site 668336003213 ATP binding site [chemical binding]; other site 668336003214 Q-loop/lid; other site 668336003215 ABC transporter signature motif; other site 668336003216 Walker B; other site 668336003217 D-loop; other site 668336003218 H-loop/switch region; other site 668336003219 TOBE domain; Region: TOBE; cl01440 668336003220 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 668336003221 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 668336003222 dimer interface [polypeptide binding]; other site 668336003223 conserved gate region; other site 668336003224 putative PBP binding loops; other site 668336003225 ABC-ATPase subunit interface; other site 668336003226 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 668336003227 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 668336003228 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 668336003229 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 668336003230 molybdenum-pterin binding domain; Region: Mop; TIGR00638 668336003231 TOBE domain; Region: TOBE; pfam03459 668336003232 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 668336003233 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 668336003234 transmembrane helices; other site 668336003235 5'-nucleotidase; Provisional; Region: PRK03826 668336003236 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 668336003237 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 668336003238 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 668336003239 protein binding site [polypeptide binding]; other site 668336003240 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 668336003241 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 668336003242 catalytic motif [active] 668336003243 Zn binding site [ion binding]; other site 668336003244 RibD C-terminal domain; Region: RibD_C; cl17279 668336003245 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 668336003246 ATP cone domain; Region: ATP-cone; pfam03477 668336003247 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 668336003248 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 668336003249 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 668336003250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 668336003251 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 668336003252 dimerization interface [polypeptide binding]; other site 668336003253 substrate binding pocket [chemical binding]; other site 668336003254 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 668336003255 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 668336003256 homodimer interface [polypeptide binding]; other site 668336003257 substrate-cofactor binding pocket; other site 668336003258 catalytic residue [active] 668336003259 malate dehydrogenase; Provisional; Region: PRK05086 668336003260 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 668336003261 NAD binding site [chemical binding]; other site 668336003262 dimerization interface [polypeptide binding]; other site 668336003263 Substrate binding site [chemical binding]; other site 668336003264 arginine repressor; Provisional; Region: PRK05066 668336003265 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 668336003266 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 668336003267 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 668336003268 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 668336003269 putative NAD(P) binding site [chemical binding]; other site 668336003270 putative active site [active] 668336003271 electron transport complex protein RsxA; Provisional; Region: PRK05151 668336003272 electron transport complex protein RnfB; Provisional; Region: PRK05113 668336003273 Putative Fe-S cluster; Region: FeS; pfam04060 668336003274 4Fe-4S binding domain; Region: Fer4; pfam00037 668336003275 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 668336003276 SLBB domain; Region: SLBB; pfam10531 668336003277 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 668336003278 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 668336003279 electron transport complex protein RnfG; Validated; Region: PRK01908 668336003280 electron transport complex RsxE subunit; Provisional; Region: PRK12405 668336003281 endonuclease III; Provisional; Region: PRK10702 668336003282 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 668336003283 minor groove reading motif; other site 668336003284 helix-hairpin-helix signature motif; other site 668336003285 substrate binding pocket [chemical binding]; other site 668336003286 active site 668336003287 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 668336003288 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 668336003289 Na2 binding site [ion binding]; other site 668336003290 putative substrate binding site 1 [chemical binding]; other site 668336003291 Na binding site 1 [ion binding]; other site 668336003292 putative substrate binding site 2 [chemical binding]; other site 668336003293 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 668336003294 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 668336003295 ABC-ATPase subunit interface; other site 668336003296 dimer interface [polypeptide binding]; other site 668336003297 putative PBP binding regions; other site 668336003298 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 668336003299 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 668336003300 putative peptidase; Provisional; Region: PRK11649 668336003301 Peptidase family M23; Region: Peptidase_M23; pfam01551 668336003302 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 668336003303 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 668336003304 Walker A/P-loop; other site 668336003305 ATP binding site [chemical binding]; other site 668336003306 Q-loop/lid; other site 668336003307 ABC transporter signature motif; other site 668336003308 Walker B; other site 668336003309 D-loop; other site 668336003310 H-loop/switch region; other site 668336003311 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 668336003312 ABC-ATPase subunit interface; other site 668336003313 dimer interface [polypeptide binding]; other site 668336003314 putative PBP binding regions; other site 668336003315 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 668336003316 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 668336003317 ABC-ATPase subunit interface; other site 668336003318 dimer interface [polypeptide binding]; other site 668336003319 putative PBP binding regions; other site 668336003320 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 668336003321 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 668336003322 putative ligand binding residues [chemical binding]; other site 668336003323 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 668336003324 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 668336003325 active site 668336003326 metal binding site [ion binding]; metal-binding site 668336003327 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 668336003328 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 668336003329 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 668336003330 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 668336003331 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 668336003332 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 668336003333 active site 668336003334 phosphorylation site [posttranslational modification] 668336003335 intermolecular recognition site; other site 668336003336 dimerization interface [polypeptide binding]; other site 668336003337 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 668336003338 DNA binding site [nucleotide binding] 668336003339 sensor protein QseC; Provisional; Region: PRK10337 668336003340 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 668336003341 dimer interface [polypeptide binding]; other site 668336003342 phosphorylation site [posttranslational modification] 668336003343 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 668336003344 ATP binding site [chemical binding]; other site 668336003345 Mg2+ binding site [ion binding]; other site 668336003346 G-X-G motif; other site 668336003347 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 668336003348 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 668336003349 argininosuccinate synthase; Validated; Region: PRK05370 668336003350 argininosuccinate synthase; Provisional; Region: PRK13820 668336003351 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 668336003352 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 668336003353 putative NAD(P) binding site [chemical binding]; other site 668336003354 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 668336003355 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 668336003356 G1 box; other site 668336003357 putative GEF interaction site [polypeptide binding]; other site 668336003358 GTP/Mg2+ binding site [chemical binding]; other site 668336003359 Switch I region; other site 668336003360 G2 box; other site 668336003361 G3 box; other site 668336003362 Switch II region; other site 668336003363 G4 box; other site 668336003364 G5 box; other site 668336003365 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 668336003366 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 668336003367 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 668336003368 non-specific DNA binding site [nucleotide binding]; other site 668336003369 salt bridge; other site 668336003370 sequence-specific DNA binding site [nucleotide binding]; other site 668336003371 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 668336003372 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 668336003373 metal binding triad; other site 668336003374 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 668336003375 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 668336003376 metal binding triad; other site 668336003377 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 668336003378 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 668336003379 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 668336003380 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 668336003381 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 668336003382 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 668336003383 AAA domain; Region: AAA_21; pfam13304 668336003384 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 668336003385 putative active site [active] 668336003386 putative metal-binding site [ion binding]; other site 668336003387 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 668336003388 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 668336003389 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 668336003390 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 668336003391 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 668336003392 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 668336003393 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 668336003394 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 668336003395 dimer interface [polypeptide binding]; other site 668336003396 conserved gate region; other site 668336003397 putative PBP binding loops; other site 668336003398 ABC-ATPase subunit interface; other site 668336003399 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 668336003400 dimer interface [polypeptide binding]; other site 668336003401 conserved gate region; other site 668336003402 putative PBP binding loops; other site 668336003403 ABC-ATPase subunit interface; other site 668336003404 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 668336003405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336003406 Walker A/P-loop; other site 668336003407 ATP binding site [chemical binding]; other site 668336003408 Q-loop/lid; other site 668336003409 ABC transporter signature motif; other site 668336003410 Walker B; other site 668336003411 D-loop; other site 668336003412 H-loop/switch region; other site 668336003413 biotin synthase; Region: bioB; TIGR00433 668336003414 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 668336003415 FeS/SAM binding site; other site 668336003416 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 668336003417 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 668336003418 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 668336003419 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 668336003420 protein binding site [polypeptide binding]; other site 668336003421 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 668336003422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 668336003423 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 668336003424 uncharacterized domain; Region: TIGR00702 668336003425 YcaO-like family; Region: YcaO; pfam02624 668336003426 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 668336003427 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 668336003428 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 668336003429 Uncharacterized conserved protein [Function unknown]; Region: COG3422 668336003430 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 668336003431 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 668336003432 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 668336003433 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 668336003434 active site turn [active] 668336003435 phosphorylation site [posttranslational modification] 668336003436 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 668336003437 Methyltransferase domain; Region: Methyltransf_23; pfam13489 668336003438 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 668336003439 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 668336003440 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 668336003441 tRNA; other site 668336003442 putative tRNA binding site [nucleotide binding]; other site 668336003443 putative NADP binding site [chemical binding]; other site 668336003444 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 668336003445 MarR family; Region: MarR_2; cl17246 668336003446 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 668336003447 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 668336003448 nucleotide binding site [chemical binding]; other site 668336003449 adenylate kinase; Reviewed; Region: adk; PRK00279 668336003450 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 668336003451 AMP-binding site [chemical binding]; other site 668336003452 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 668336003453 muropeptide transporter; Reviewed; Region: ampG; PRK11902 668336003454 AmpG-like permease; Region: 2A0125; TIGR00901 668336003455 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 668336003456 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 668336003457 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 668336003458 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 668336003459 NAD binding site [chemical binding]; other site 668336003460 homodimer interface [polypeptide binding]; other site 668336003461 active site 668336003462 substrate binding site [chemical binding]; other site 668336003463 Protein of unknown function (DUF805); Region: DUF805; pfam05656 668336003464 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 668336003465 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 668336003466 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 668336003467 Ligand Binding Site [chemical binding]; other site 668336003468 TilS substrate binding domain; Region: TilS; pfam09179 668336003469 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 668336003470 pyridoxamine kinase; Validated; Region: PRK05756 668336003471 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 668336003472 dimer interface [polypeptide binding]; other site 668336003473 pyridoxal binding site [chemical binding]; other site 668336003474 ATP binding site [chemical binding]; other site 668336003475 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 668336003476 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 668336003477 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 668336003478 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 668336003479 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 668336003480 Uncharacterized conserved protein [Function unknown]; Region: COG4748 668336003481 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 668336003482 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 668336003483 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 668336003484 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 668336003485 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 668336003486 GMP synthase; Reviewed; Region: guaA; PRK00074 668336003487 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 668336003488 AMP/PPi binding site [chemical binding]; other site 668336003489 candidate oxyanion hole; other site 668336003490 catalytic triad [active] 668336003491 potential glutamine specificity residues [chemical binding]; other site 668336003492 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 668336003493 ATP Binding subdomain [chemical binding]; other site 668336003494 Ligand Binding sites [chemical binding]; other site 668336003495 Dimerization subdomain; other site 668336003496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 668336003497 RelB antitoxin; Region: RelB; cl01171 668336003498 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 668336003499 ribosome maturation protein RimP; Reviewed; Region: PRK00092 668336003500 hypothetical protein; Provisional; Region: PRK14641 668336003501 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 668336003502 putative oligomer interface [polypeptide binding]; other site 668336003503 putative RNA binding site [nucleotide binding]; other site 668336003504 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 668336003505 NusA N-terminal domain; Region: NusA_N; pfam08529 668336003506 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 668336003507 RNA binding site [nucleotide binding]; other site 668336003508 homodimer interface [polypeptide binding]; other site 668336003509 NusA-like KH domain; Region: KH_5; pfam13184 668336003510 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 668336003511 G-X-X-G motif; other site 668336003512 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 668336003513 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 668336003514 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 668336003515 translation initiation factor IF-2; Region: IF-2; TIGR00487 668336003516 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 668336003517 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 668336003518 G1 box; other site 668336003519 putative GEF interaction site [polypeptide binding]; other site 668336003520 GTP/Mg2+ binding site [chemical binding]; other site 668336003521 Switch I region; other site 668336003522 G2 box; other site 668336003523 G3 box; other site 668336003524 Switch II region; other site 668336003525 G4 box; other site 668336003526 G5 box; other site 668336003527 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 668336003528 Translation-initiation factor 2; Region: IF-2; pfam11987 668336003529 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 668336003530 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 668336003531 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 668336003532 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 668336003533 RNA binding site [nucleotide binding]; other site 668336003534 active site 668336003535 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 668336003536 Phosphoglycerate mutase family; Region: PGAM; smart00855 668336003537 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 668336003538 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 668336003539 active site 668336003540 HIGH motif; other site 668336003541 dimer interface [polypeptide binding]; other site 668336003542 KMSKS motif; other site 668336003543 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 668336003544 RNA binding surface [nucleotide binding]; other site 668336003545 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 668336003546 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 668336003547 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 668336003548 ligand binding site [chemical binding]; other site 668336003549 homodimer interface [polypeptide binding]; other site 668336003550 NAD(P) binding site [chemical binding]; other site 668336003551 trimer interface B [polypeptide binding]; other site 668336003552 trimer interface A [polypeptide binding]; other site 668336003553 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 668336003554 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 668336003555 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 668336003556 BRO family, N-terminal domain; Region: Bro-N; cl10591 668336003557 Fic family protein [Function unknown]; Region: COG3177 668336003558 Fic/DOC family; Region: Fic; pfam02661 668336003559 Betaherpesvirus immediate-early glycoprotein UL37; Region: Herpes_UL37_2; cl17390 668336003560 selenophosphate synthetase; Provisional; Region: PRK00943 668336003561 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 668336003562 dimerization interface [polypeptide binding]; other site 668336003563 putative ATP binding site [chemical binding]; other site 668336003564 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 668336003565 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336003566 Walker A/P-loop; other site 668336003567 ATP binding site [chemical binding]; other site 668336003568 Q-loop/lid; other site 668336003569 ABC transporter signature motif; other site 668336003570 Walker B; other site 668336003571 D-loop; other site 668336003572 H-loop/switch region; other site 668336003573 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 668336003574 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 668336003575 dimer interface [polypeptide binding]; other site 668336003576 conserved gate region; other site 668336003577 putative PBP binding loops; other site 668336003578 ABC-ATPase subunit interface; other site 668336003579 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 668336003580 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 668336003581 dimer interface [polypeptide binding]; other site 668336003582 conserved gate region; other site 668336003583 putative PBP binding loops; other site 668336003584 ABC-ATPase subunit interface; other site 668336003585 hypothetical protein; Provisional; Region: PRK11622 668336003586 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 668336003587 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 668336003588 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 668336003589 GIY-YIG motif/motif A; other site 668336003590 active site 668336003591 catalytic site [active] 668336003592 putative DNA binding site [nucleotide binding]; other site 668336003593 metal binding site [ion binding]; metal-binding site 668336003594 UvrB/uvrC motif; Region: UVR; pfam02151 668336003595 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 668336003596 Helix-hairpin-helix motif; Region: HHH; pfam00633 668336003597 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 668336003598 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 668336003599 Ligand binding site; other site 668336003600 oligomer interface; other site 668336003601 Uncharacterized conserved protein [Function unknown]; Region: COG2835 668336003602 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 668336003603 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 668336003604 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 668336003605 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 668336003606 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 668336003607 Walker A/P-loop; other site 668336003608 ATP binding site [chemical binding]; other site 668336003609 Q-loop/lid; other site 668336003610 ABC transporter signature motif; other site 668336003611 Walker B; other site 668336003612 D-loop; other site 668336003613 H-loop/switch region; other site 668336003614 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 668336003615 Competence protein; Region: Competence; pfam03772 668336003616 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 668336003617 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 668336003618 poly(A) polymerase; Region: pcnB; TIGR01942 668336003619 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 668336003620 active site 668336003621 NTP binding site [chemical binding]; other site 668336003622 metal binding triad [ion binding]; metal-binding site 668336003623 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 668336003624 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 668336003625 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 668336003626 catalytic center binding site [active] 668336003627 ATP binding site [chemical binding]; other site 668336003628 Cupin domain; Region: Cupin_2; cl17218 668336003629 phosphate acetyltransferase; Reviewed; Region: PRK05632 668336003630 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 668336003631 DRTGG domain; Region: DRTGG; pfam07085 668336003632 phosphate acetyltransferase; Region: pta; TIGR00651 668336003633 propionate/acetate kinase; Provisional; Region: PRK12379 668336003634 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 668336003635 hypothetical protein; Provisional; Region: PRK01816 668336003636 Colicin V production protein; Region: Colicin_V; cl00567 668336003637 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 668336003638 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 668336003639 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 668336003640 maltodextrin phosphorylase; Provisional; Region: PRK14985 668336003641 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 668336003642 active site pocket [active] 668336003643 transcriptional regulator MalT; Provisional; Region: PRK04841 668336003644 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 668336003645 DNA binding residues [nucleotide binding] 668336003646 dimerization interface [polypeptide binding]; other site 668336003647 tellurite resistance protein TehB; Provisional; Region: PRK12335 668336003648 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 668336003649 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 668336003650 S-adenosylmethionine binding site [chemical binding]; other site 668336003651 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 668336003652 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 668336003653 dimer interface [polypeptide binding]; other site 668336003654 TPP-binding site [chemical binding]; other site 668336003655 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 668336003656 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 668336003657 E3 interaction surface; other site 668336003658 lipoyl attachment site [posttranslational modification]; other site 668336003659 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 668336003660 E3 interaction surface; other site 668336003661 lipoyl attachment site [posttranslational modification]; other site 668336003662 e3 binding domain; Region: E3_binding; pfam02817 668336003663 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 668336003664 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 668336003665 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 668336003666 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 668336003667 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 668336003668 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 668336003669 putative FMN binding site [chemical binding]; other site 668336003670 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 668336003671 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 668336003672 tandem repeat interface [polypeptide binding]; other site 668336003673 oligomer interface [polypeptide binding]; other site 668336003674 active site residues [active] 668336003675 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 668336003676 tandem repeat interface [polypeptide binding]; other site 668336003677 oligomer interface [polypeptide binding]; other site 668336003678 active site residues [active] 668336003679 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 668336003680 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 668336003681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 668336003682 prephenate dehydrogenase; Validated; Region: PRK08507 668336003683 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 668336003684 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 668336003685 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 668336003686 RNA binding surface [nucleotide binding]; other site 668336003687 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 668336003688 probable active site [active] 668336003689 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 668336003690 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 668336003691 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 668336003692 substrate binding site [chemical binding]; other site 668336003693 dimerization interface [polypeptide binding]; other site 668336003694 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 668336003695 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 668336003696 trimer interface [polypeptide binding]; other site 668336003697 active site 668336003698 substrate binding site [chemical binding]; other site 668336003699 CoA binding site [chemical binding]; other site 668336003700 dsDNA-mimic protein; Reviewed; Region: PRK05094 668336003701 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 668336003702 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 668336003703 DNA binding site [nucleotide binding] 668336003704 domain linker motif; other site 668336003705 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 668336003706 dimerization interface [polypeptide binding]; other site 668336003707 ligand binding site [chemical binding]; other site 668336003708 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 668336003709 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 668336003710 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 668336003711 putative active site [active] 668336003712 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 668336003713 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 668336003714 DNA binding site [nucleotide binding] 668336003715 domain linker motif; other site 668336003716 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 668336003717 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 668336003718 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 668336003719 catalytic residues [active] 668336003720 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 668336003721 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 668336003722 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 668336003723 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 668336003724 SelR domain; Region: SelR; pfam01641 668336003725 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 668336003726 active site clefts [active] 668336003727 zinc binding site [ion binding]; other site 668336003728 dimer interface [polypeptide binding]; other site 668336003729 outer membrane lipoprotein; Provisional; Region: PRK11023 668336003730 BON domain; Region: BON; pfam04972 668336003731 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 668336003732 dimer interface [polypeptide binding]; other site 668336003733 active site 668336003734 hypothetical protein; Reviewed; Region: PRK12497 668336003735 LppC putative lipoprotein; Region: LppC; pfam04348 668336003736 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 668336003737 putative ligand binding site [chemical binding]; other site 668336003738 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 668336003739 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 668336003740 putative SAM binding site [chemical binding]; other site 668336003741 putative homodimer interface [polypeptide binding]; other site 668336003742 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 668336003743 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 668336003744 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 668336003745 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 668336003746 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 668336003747 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 668336003748 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 668336003749 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 668336003750 tandem repeat interface [polypeptide binding]; other site 668336003751 oligomer interface [polypeptide binding]; other site 668336003752 active site residues [active] 668336003753 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 668336003754 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 668336003755 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 668336003756 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 668336003757 ligand binding site [chemical binding]; other site 668336003758 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 668336003759 Phosphotransferase enzyme family; Region: APH; pfam01636 668336003760 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 668336003761 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 668336003762 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 668336003763 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 668336003764 active site 668336003765 dimer interface [polypeptide binding]; other site 668336003766 motif 1; other site 668336003767 motif 2; other site 668336003768 motif 3; other site 668336003769 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 668336003770 anticodon binding site; other site 668336003771 DNA methylase; Region: N6_N4_Mtase; cl17433 668336003772 potential frameshift: common BLAST hit: gi|218768285|ref|YP_002342797.1| putative type III restriction-modification system endonuclease 668336003773 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 668336003774 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 668336003775 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 668336003776 ferredoxin-NADP reductase; Provisional; Region: PRK10926 668336003777 FAD binding pocket [chemical binding]; other site 668336003778 FAD binding motif [chemical binding]; other site 668336003779 phosphate binding motif [ion binding]; other site 668336003780 beta-alpha-beta structure motif; other site 668336003781 NAD binding pocket [chemical binding]; other site 668336003782 translation initiation factor IF-3; Region: infC; TIGR00168 668336003783 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 668336003784 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 668336003785 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 668336003786 23S rRNA binding site [nucleotide binding]; other site 668336003787 L21 binding site [polypeptide binding]; other site 668336003788 L13 binding site [polypeptide binding]; other site 668336003789 potential frameshift: common BLAST hit: gi|170717243|ref|YP_001784360.1| tagatose 1,6-diphosphate aldolase 668336003790 Class I aldolases; Region: Aldolase_Class_I; cl17187 668336003791 Class I aldolases; Region: Aldolase_Class_I; cl17187 668336003792 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 668336003793 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 668336003794 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 668336003795 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 668336003796 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 668336003797 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 668336003798 TPP-binding site; other site 668336003799 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 668336003800 PYR/PP interface [polypeptide binding]; other site 668336003801 dimer interface [polypeptide binding]; other site 668336003802 TPP binding site [chemical binding]; other site 668336003803 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 668336003804 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 668336003805 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 668336003806 substrate binding pocket [chemical binding]; other site 668336003807 chain length determination region; other site 668336003808 substrate-Mg2+ binding site; other site 668336003809 catalytic residues [active] 668336003810 aspartate-rich region 1; other site 668336003811 active site lid residues [active] 668336003812 aspartate-rich region 2; other site 668336003813 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 668336003814 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 668336003815 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 668336003816 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 668336003817 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 668336003818 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 668336003819 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 668336003820 catalytic core [active] 668336003821 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 668336003822 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 668336003823 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 668336003824 putative active site [active] 668336003825 catalytic site [active] 668336003826 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 668336003827 putative active site [active] 668336003828 catalytic site [active] 668336003829 Predicted membrane protein [Function unknown]; Region: COG2431 668336003830 potential frameshift: common BLAST hit: gi|251792493|ref|YP_003007219.1| pseudouridine synthase Rlu family protein 668336003831 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 668336003832 active site 668336003833 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 668336003834 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 668336003835 EamA-like transporter family; Region: EamA; pfam00892 668336003836 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 668336003837 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 668336003838 PhnA protein; Region: PhnA; pfam03831 668336003839 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 668336003840 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 668336003841 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 668336003842 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 668336003843 Walker A/P-loop; other site 668336003844 ATP binding site [chemical binding]; other site 668336003845 Q-loop/lid; other site 668336003846 ABC transporter signature motif; other site 668336003847 Walker B; other site 668336003848 D-loop; other site 668336003849 H-loop/switch region; other site 668336003850 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 668336003851 FtsX-like permease family; Region: FtsX; pfam02687 668336003852 macrolide transporter subunit MacA; Provisional; Region: PRK11578 668336003853 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 668336003854 HlyD family secretion protein; Region: HlyD_3; pfam13437 668336003855 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 668336003856 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 668336003857 active site 668336003858 HIGH motif; other site 668336003859 nucleotide binding site [chemical binding]; other site 668336003860 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 668336003861 KMSKS motif; other site 668336003862 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 668336003863 hypothetical protein; Provisional; Region: PRK05170 668336003864 glycogen branching enzyme; Provisional; Region: PRK05402 668336003865 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 668336003866 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 668336003867 active site 668336003868 catalytic site [active] 668336003869 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 668336003870 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 668336003871 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 668336003872 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 668336003873 active site 668336003874 catalytic site [active] 668336003875 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 668336003876 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 668336003877 ligand binding site; other site 668336003878 oligomer interface; other site 668336003879 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 668336003880 N-terminal domain interface [polypeptide binding]; other site 668336003881 sulfate 1 binding site; other site 668336003882 glycogen synthase; Provisional; Region: glgA; PRK00654 668336003883 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 668336003884 ADP-binding pocket [chemical binding]; other site 668336003885 homodimer interface [polypeptide binding]; other site 668336003886 glycogen phosphorylase; Provisional; Region: PRK14986 668336003887 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 668336003888 homodimer interface [polypeptide binding]; other site 668336003889 active site pocket [active] 668336003890 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 668336003891 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 668336003892 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 668336003893 5S rRNA interface [nucleotide binding]; other site 668336003894 CTC domain interface [polypeptide binding]; other site 668336003895 L16 interface [polypeptide binding]; other site 668336003896 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 668336003897 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 668336003898 condesin subunit F; Provisional; Region: PRK05260 668336003899 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 668336003900 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 668336003901 putative substrate translocation pore; other site 668336003902 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 668336003903 putative acyl-acceptor binding pocket; other site 668336003904 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 668336003905 acyl-activating enzyme (AAE) consensus motif; other site 668336003906 active site 668336003907 AMP binding site [chemical binding]; other site 668336003908 CoA binding site [chemical binding]; other site 668336003909 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 668336003910 condesin subunit E; Provisional; Region: PRK05256 668336003911 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 668336003912 P-loop containing region of AAA domain; Region: AAA_29; cl17516 668336003913 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 668336003914 exonuclease I; Provisional; Region: sbcB; PRK11779 668336003915 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 668336003916 active site 668336003917 catalytic site [active] 668336003918 substrate binding site [chemical binding]; other site 668336003919 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 668336003920 Integrase core domain; Region: rve; pfam00665 668336003921 Integrase core domain; Region: rve_2; pfam13333 668336003922 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 668336003923 Ferritin-like domain; Region: Ferritin; pfam00210 668336003924 ferroxidase diiron center [ion binding]; other site 668336003925 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 668336003926 Ferritin-like domain; Region: Ferritin; pfam00210 668336003927 ferroxidase diiron center [ion binding]; other site 668336003928 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 668336003929 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 668336003930 ligand binding site [chemical binding]; other site 668336003931 flexible hinge region; other site 668336003932 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 668336003933 putative switch regulator; other site 668336003934 non-specific DNA interactions [nucleotide binding]; other site 668336003935 DNA binding site [nucleotide binding] 668336003936 sequence specific DNA binding site [nucleotide binding]; other site 668336003937 putative cAMP binding site [chemical binding]; other site 668336003938 universal stress protein UspE; Provisional; Region: PRK11175 668336003939 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 668336003940 Ligand Binding Site [chemical binding]; other site 668336003941 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 668336003942 Ligand Binding Site [chemical binding]; other site 668336003943 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 668336003944 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 668336003945 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 668336003946 active site 668336003947 interdomain interaction site; other site 668336003948 putative metal-binding site [ion binding]; other site 668336003949 nucleotide binding site [chemical binding]; other site 668336003950 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 668336003951 domain I; other site 668336003952 DNA binding groove [nucleotide binding] 668336003953 phosphate binding site [ion binding]; other site 668336003954 domain II; other site 668336003955 domain III; other site 668336003956 nucleotide binding site [chemical binding]; other site 668336003957 catalytic site [active] 668336003958 domain IV; other site 668336003959 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 668336003960 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 668336003961 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 668336003962 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 668336003963 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 668336003964 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 668336003965 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 668336003966 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 668336003967 quinone interaction residues [chemical binding]; other site 668336003968 active site 668336003969 catalytic residues [active] 668336003970 FMN binding site [chemical binding]; other site 668336003971 substrate binding site [chemical binding]; other site 668336003972 aminopeptidase N; Provisional; Region: pepN; PRK14015 668336003973 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 668336003974 active site 668336003975 Zn binding site [ion binding]; other site 668336003976 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 668336003977 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 668336003978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336003979 homodimer interface [polypeptide binding]; other site 668336003980 catalytic residue [active] 668336003981 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 668336003982 HlyD family secretion protein; Region: HlyD_3; pfam13437 668336003983 potential frameshift: common BLAST hit: gi|52425357|ref|YP_088494.1| CcmA protein 668336003984 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 668336003985 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 668336003986 Walker A/P-loop; other site 668336003987 ATP binding site [chemical binding]; other site 668336003988 Q-loop/lid; other site 668336003989 ABC transporter signature motif; other site 668336003990 Walker B; other site 668336003991 D-loop; other site 668336003992 H-loop/switch region; other site 668336003993 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 668336003994 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 668336003995 Walker A/P-loop; other site 668336003996 ATP binding site [chemical binding]; other site 668336003997 Q-loop/lid; other site 668336003998 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336003999 Walker B; other site 668336004000 D-loop; other site 668336004001 H-loop/switch region; other site 668336004002 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 668336004003 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 668336004004 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 668336004005 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 668336004006 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 668336004007 Outer membrane efflux protein; Region: OEP; pfam02321 668336004008 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 668336004009 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 668336004010 ABC-ATPase subunit interface; other site 668336004011 dimer interface [polypeptide binding]; other site 668336004012 putative PBP binding regions; other site 668336004013 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 668336004014 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 668336004015 Walker A/P-loop; other site 668336004016 ATP binding site [chemical binding]; other site 668336004017 Q-loop/lid; other site 668336004018 ABC transporter signature motif; other site 668336004019 Walker B; other site 668336004020 D-loop; other site 668336004021 H-loop/switch region; other site 668336004022 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 668336004023 putative ligand binding residues [chemical binding]; other site 668336004024 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 668336004025 molybdenum-pterin binding domain; Region: Mop; TIGR00638 668336004026 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 668336004027 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 668336004028 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 668336004029 N-terminal plug; other site 668336004030 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 668336004031 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 668336004032 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 668336004033 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 668336004034 ABC-ATPase subunit interface; other site 668336004035 dimer interface [polypeptide binding]; other site 668336004036 putative PBP binding regions; other site 668336004037 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 668336004038 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 668336004039 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 668336004040 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 668336004041 N-terminal plug; other site 668336004042 ligand-binding site [chemical binding]; other site 668336004043 DoxX; Region: DoxX; pfam07681 668336004044 potential frameshift: common BLAST hit: gi|251792546|ref|YP_003007272.1| threonyl-tRNA synthetase 668336004045 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 668336004046 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 668336004047 Ligand Binding Site [chemical binding]; other site 668336004048 NlpC/P60 family; Region: NLPC_P60; pfam00877 668336004049 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 668336004050 IHF dimer interface [polypeptide binding]; other site 668336004051 IHF - DNA interface [nucleotide binding]; other site 668336004052 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 668336004053 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 668336004054 putative tRNA-binding site [nucleotide binding]; other site 668336004055 B3/4 domain; Region: B3_4; pfam03483 668336004056 tRNA synthetase B5 domain; Region: B5; smart00874 668336004057 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 668336004058 dimer interface [polypeptide binding]; other site 668336004059 motif 1; other site 668336004060 motif 3; other site 668336004061 motif 2; other site 668336004062 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 668336004063 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 668336004064 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 668336004065 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 668336004066 dimer interface [polypeptide binding]; other site 668336004067 motif 1; other site 668336004068 active site 668336004069 motif 2; other site 668336004070 motif 3; other site 668336004071 heat shock protein HtpX; Provisional; Region: PRK05457 668336004072 KpsF/GutQ family protein; Region: kpsF; TIGR00393 668336004073 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 668336004074 putative active site [active] 668336004075 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 668336004076 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 668336004077 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 668336004078 active site 668336004079 motif I; other site 668336004080 motif II; other site 668336004081 anthranilate synthase component I; Provisional; Region: PRK13564 668336004082 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 668336004083 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 668336004084 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 668336004085 glutamine binding [chemical binding]; other site 668336004086 catalytic triad [active] 668336004087 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 668336004088 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 668336004089 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 668336004090 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 668336004091 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 668336004092 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 668336004093 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 668336004094 active site 668336004095 ribulose/triose binding site [chemical binding]; other site 668336004096 phosphate binding site [ion binding]; other site 668336004097 substrate (anthranilate) binding pocket [chemical binding]; other site 668336004098 product (indole) binding pocket [chemical binding]; other site 668336004099 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 668336004100 active site 668336004101 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 668336004102 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 668336004103 oxaloacetate decarboxylase; Provisional; Region: PRK14040 668336004104 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 668336004105 active site 668336004106 catalytic residues [active] 668336004107 metal binding site [ion binding]; metal-binding site 668336004108 homodimer binding site [polypeptide binding]; other site 668336004109 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 668336004110 carboxyltransferase (CT) interaction site; other site 668336004111 biotinylation site [posttranslational modification]; other site 668336004112 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 668336004113 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 668336004114 malonic semialdehyde reductase; Provisional; Region: PRK10538 668336004115 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 668336004116 putative NAD(P) binding site [chemical binding]; other site 668336004117 homotetramer interface [polypeptide binding]; other site 668336004118 homodimer interface [polypeptide binding]; other site 668336004119 active site 668336004120 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 668336004121 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 668336004122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336004123 catalytic residue [active] 668336004124 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 668336004125 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 668336004126 substrate binding site [chemical binding]; other site 668336004127 active site 668336004128 catalytic residues [active] 668336004129 heterodimer interface [polypeptide binding]; other site 668336004130 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 668336004131 Class I ribonucleotide reductase; Region: RNR_I; cd01679 668336004132 active site 668336004133 dimer interface [polypeptide binding]; other site 668336004134 catalytic residues [active] 668336004135 effector binding site; other site 668336004136 R2 peptide binding site; other site 668336004137 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 668336004138 dimer interface [polypeptide binding]; other site 668336004139 putative radical transfer pathway; other site 668336004140 diiron center [ion binding]; other site 668336004141 tyrosyl radical; other site 668336004142 pyruvate kinase; Provisional; Region: PRK05826 668336004143 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 668336004144 domain interfaces; other site 668336004145 active site 668336004146 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 668336004147 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 668336004148 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 668336004149 putative active site; other site 668336004150 catalytic residue [active] 668336004151 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 668336004152 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 668336004153 ligand binding site [chemical binding]; other site 668336004154 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 668336004155 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 668336004156 TM-ABC transporter signature motif; other site 668336004157 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 668336004158 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 668336004159 TM-ABC transporter signature motif; other site 668336004160 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 668336004161 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 668336004162 Walker A/P-loop; other site 668336004163 ATP binding site [chemical binding]; other site 668336004164 Q-loop/lid; other site 668336004165 ABC transporter signature motif; other site 668336004166 Walker B; other site 668336004167 D-loop; other site 668336004168 H-loop/switch region; other site 668336004169 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 668336004170 transcriptional regulator LsrR; Provisional; Region: PRK15418 668336004171 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 668336004172 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 668336004173 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 668336004174 putative N- and C-terminal domain interface [polypeptide binding]; other site 668336004175 putative active site [active] 668336004176 putative MgATP binding site [chemical binding]; other site 668336004177 catalytic site [active] 668336004178 metal binding site [ion binding]; metal-binding site 668336004179 putative carbohydrate binding site [chemical binding]; other site 668336004180 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 668336004181 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 668336004182 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 668336004183 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 668336004184 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 668336004185 putative dimer interface [polypeptide binding]; other site 668336004186 putative anticodon binding site; other site 668336004187 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 668336004188 homodimer interface [polypeptide binding]; other site 668336004189 motif 1; other site 668336004190 motif 2; other site 668336004191 active site 668336004192 motif 3; other site 668336004193 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 668336004194 stringent starvation protein A; Provisional; Region: sspA; PRK09481 668336004195 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 668336004196 C-terminal domain interface [polypeptide binding]; other site 668336004197 putative GSH binding site (G-site) [chemical binding]; other site 668336004198 dimer interface [polypeptide binding]; other site 668336004199 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 668336004200 dimer interface [polypeptide binding]; other site 668336004201 N-terminal domain interface [polypeptide binding]; other site 668336004202 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 668336004203 MoaE homodimer interface [polypeptide binding]; other site 668336004204 MoaD interaction [polypeptide binding]; other site 668336004205 active site residues [active] 668336004206 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 668336004207 MoaE interaction surface [polypeptide binding]; other site 668336004208 MoeB interaction surface [polypeptide binding]; other site 668336004209 thiocarboxylated glycine; other site 668336004210 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 668336004211 trimer interface [polypeptide binding]; other site 668336004212 dimer interface [polypeptide binding]; other site 668336004213 putative active site [active] 668336004214 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 668336004215 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 668336004216 FeS/SAM binding site; other site 668336004217 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 668336004218 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 668336004219 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 668336004220 phosphate binding site [ion binding]; other site 668336004221 putative substrate binding pocket [chemical binding]; other site 668336004222 dimer interface [polypeptide binding]; other site 668336004223 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 668336004224 Fic/DOC family; Region: Fic; pfam02661 668336004225 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 668336004226 active site pocket [active] 668336004227 oxyanion hole [active] 668336004228 catalytic triad [active] 668336004229 active site nucleophile [active] 668336004230 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 668336004231 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 668336004232 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 668336004233 Ligand Binding Site [chemical binding]; other site 668336004234 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 668336004235 active site residue [active] 668336004236 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 668336004237 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 668336004238 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 668336004239 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 668336004240 molybdopterin cofactor binding site [chemical binding]; other site 668336004241 substrate binding site [chemical binding]; other site 668336004242 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 668336004243 molybdopterin cofactor binding site; other site 668336004244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 668336004245 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 668336004246 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 668336004247 transmembrane helices; other site 668336004248 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 668336004249 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 668336004250 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 668336004251 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 668336004252 dimerization interface 3.5A [polypeptide binding]; other site 668336004253 active site 668336004254 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 668336004255 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 668336004256 23S rRNA interface [nucleotide binding]; other site 668336004257 L3 interface [polypeptide binding]; other site 668336004258 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 668336004259 S-adenosylmethionine binding site [chemical binding]; other site 668336004260 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 668336004261 AAA domain; Region: AAA_30; pfam13604 668336004262 Family description; Region: UvrD_C_2; pfam13538 668336004263 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 668336004264 Family description; Region: UvrD_C_2; pfam13538 668336004265 DsrE/DsrF-like family; Region: DrsE; cl00672 668336004266 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 668336004267 active site 1 [active] 668336004268 dimer interface [polypeptide binding]; other site 668336004269 active site 2 [active] 668336004270 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 668336004271 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 668336004272 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 668336004273 DNA-binding site [nucleotide binding]; DNA binding site 668336004274 RNA-binding motif; other site 668336004275 hypothetical protein; Provisional; Region: PRK05114 668336004276 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 668336004277 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 668336004278 probable active site [active] 668336004279 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 668336004280 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 668336004281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 668336004282 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 668336004283 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 668336004284 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 668336004285 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 668336004286 active site 668336004287 phosphorylation site [posttranslational modification] 668336004288 intermolecular recognition site; other site 668336004289 dimerization interface [polypeptide binding]; other site 668336004290 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 668336004291 Walker A motif; other site 668336004292 ATP binding site [chemical binding]; other site 668336004293 Walker B motif; other site 668336004294 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 668336004295 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 668336004296 HAMP domain; Region: HAMP; pfam00672 668336004297 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; cl00080 668336004298 dimer interface [polypeptide binding]; other site 668336004299 phosphorylation site [posttranslational modification] 668336004300 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 668336004301 Mg2+ binding site [ion binding]; other site 668336004302 G-X-G motif; other site 668336004303 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 668336004304 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 668336004305 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 668336004306 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 668336004307 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 668336004308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336004309 Walker A/P-loop; other site 668336004310 ATP binding site [chemical binding]; other site 668336004311 Q-loop/lid; other site 668336004312 ABC transporter signature motif; other site 668336004313 Walker B; other site 668336004314 D-loop; other site 668336004315 H-loop/switch region; other site 668336004316 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 668336004317 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 668336004318 ABC-ATPase subunit interface; other site 668336004319 putative PBP binding loops; other site 668336004320 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 668336004321 dimer interface [polypeptide binding]; other site 668336004322 conserved gate region; other site 668336004323 putative PBP binding loops; other site 668336004324 ABC-ATPase subunit interface; other site 668336004325 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 668336004326 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 668336004327 Walker A/P-loop; other site 668336004328 ATP binding site [chemical binding]; other site 668336004329 Q-loop/lid; other site 668336004330 ABC transporter signature motif; other site 668336004331 Walker B; other site 668336004332 D-loop; other site 668336004333 H-loop/switch region; other site 668336004334 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 668336004335 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 668336004336 Walker A motif; other site 668336004337 ATP binding site [chemical binding]; other site 668336004338 Walker B motif; other site 668336004339 arginine finger; other site 668336004340 Peptidase family M41; Region: Peptidase_M41; pfam01434 668336004341 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 668336004342 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 668336004343 S-adenosylmethionine binding site [chemical binding]; other site 668336004344 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 668336004345 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 668336004346 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 668336004347 putative active site [active] 668336004348 putative substrate binding site [chemical binding]; other site 668336004349 putative cosubstrate binding site; other site 668336004350 catalytic site [active] 668336004351 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 668336004352 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 668336004353 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 668336004354 glutamate racemase; Provisional; Region: PRK00865 668336004355 Chorismate lyase; Region: Chor_lyase; cl01230 668336004356 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 668336004357 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 668336004358 generic binding surface II; other site 668336004359 ssDNA binding site; other site 668336004360 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 668336004361 ATP binding site [chemical binding]; other site 668336004362 putative Mg++ binding site [ion binding]; other site 668336004363 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 668336004364 nucleotide binding region [chemical binding]; other site 668336004365 ATP-binding site [chemical binding]; other site 668336004366 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 668336004367 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 668336004368 Zn2+ binding site [ion binding]; other site 668336004369 Mg2+ binding site [ion binding]; other site 668336004370 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 668336004371 synthetase active site [active] 668336004372 NTP binding site [chemical binding]; other site 668336004373 metal binding site [ion binding]; metal-binding site 668336004374 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 668336004375 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 668336004376 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 668336004377 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 668336004378 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 668336004379 catalytic site [active] 668336004380 G-X2-G-X-G-K; other site 668336004381 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 668336004382 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 668336004383 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 668336004384 Predicted membrane protein [Function unknown]; Region: COG2510 668336004385 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 668336004386 putative coenzyme Q binding site [chemical binding]; other site 668336004387 hypothetical protein; Validated; Region: PRK01777 668336004388 Uncharacterized conserved protein [Function unknown]; Region: COG2850 668336004389 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 668336004390 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 668336004391 generic binding surface II; other site 668336004392 generic binding surface I; other site 668336004393 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 668336004394 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 668336004395 active site 668336004396 phosphorylation site [posttranslational modification] 668336004397 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 668336004398 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 668336004399 Walker A/P-loop; other site 668336004400 ATP binding site [chemical binding]; other site 668336004401 Q-loop/lid; other site 668336004402 ABC transporter signature motif; other site 668336004403 Walker B; other site 668336004404 D-loop; other site 668336004405 H-loop/switch region; other site 668336004406 OstA-like protein; Region: OstA; cl00844 668336004407 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 668336004408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 668336004409 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 668336004410 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 668336004411 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 668336004412 Walker A/P-loop; other site 668336004413 ATP binding site [chemical binding]; other site 668336004414 Q-loop/lid; other site 668336004415 ABC transporter signature motif; other site 668336004416 Walker B; other site 668336004417 D-loop; other site 668336004418 H-loop/switch region; other site 668336004419 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 668336004420 conserved hypothetical integral membrane protein; Region: TIGR00056 668336004421 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 668336004422 mce related protein; Region: MCE; pfam02470 668336004423 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 668336004424 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 668336004425 anti sigma factor interaction site; other site 668336004426 regulatory phosphorylation site [posttranslational modification]; other site 668336004427 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 668336004428 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 668336004429 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 668336004430 hinge; other site 668336004431 active site 668336004432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 668336004433 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 668336004434 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 668336004435 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 668336004436 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 668336004437 DNA binding site [nucleotide binding] 668336004438 active site 668336004439 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 668336004440 putative DNA-binding cleft [nucleotide binding]; other site 668336004441 putative DNA clevage site; other site 668336004442 molecular lever; other site 668336004443 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 668336004444 glutamine synthetase; Provisional; Region: glnA; PRK09469 668336004445 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 668336004446 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 668336004447 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 668336004448 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 668336004449 G1 box; other site 668336004450 putative GEF interaction site [polypeptide binding]; other site 668336004451 GTP/Mg2+ binding site [chemical binding]; other site 668336004452 Switch I region; other site 668336004453 G2 box; other site 668336004454 G3 box; other site 668336004455 Switch II region; other site 668336004456 G4 box; other site 668336004457 G5 box; other site 668336004458 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 668336004459 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 668336004460 Autotransporter beta-domain; Region: Autotransporter; pfam03797 668336004461 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 668336004462 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 668336004463 catalytic triad [active] 668336004464 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 668336004465 dihydrodipicolinate synthase; Region: dapA; TIGR00674 668336004466 dimer interface [polypeptide binding]; other site 668336004467 active site 668336004468 catalytic residue [active] 668336004469 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 668336004470 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 668336004471 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 668336004472 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 668336004473 dimer interface [polypeptide binding]; other site 668336004474 conserved gate region; other site 668336004475 ABC-ATPase subunit interface; other site 668336004476 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 668336004477 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 668336004478 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 668336004479 Walker A/P-loop; other site 668336004480 ATP binding site [chemical binding]; other site 668336004481 Q-loop/lid; other site 668336004482 ABC transporter signature motif; other site 668336004483 Walker B; other site 668336004484 D-loop; other site 668336004485 H-loop/switch region; other site 668336004486 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 668336004487 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 668336004488 catalytic residue [active] 668336004489 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 668336004490 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 668336004491 active site 668336004492 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 668336004493 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 668336004494 nucleotide binding site [chemical binding]; other site 668336004495 substrate binding site [chemical binding]; other site 668336004496 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 668336004497 dimer interface [polypeptide binding]; other site 668336004498 putative threonine allosteric regulatory site; other site 668336004499 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 668336004500 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 668336004501 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 668336004502 homoserine kinase; Provisional; Region: PRK01212 668336004503 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 668336004504 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 668336004505 threonine synthase; Validated; Region: PRK09225 668336004506 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 668336004507 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 668336004508 catalytic residue [active] 668336004509 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 668336004510 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 668336004511 FtsH protease regulator HflK; Provisional; Region: PRK10930 668336004512 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 668336004513 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 668336004514 FtsH protease regulator HflC; Provisional; Region: PRK11029 668336004515 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 668336004516 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 668336004517 active site 668336004518 dimerization interface [polypeptide binding]; other site 668336004519 Uncharacterized conserved protein [Function unknown]; Region: COG0393 668336004520 HemN family oxidoreductase; Provisional; Region: PRK05660 668336004521 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 668336004522 FeS/SAM binding site; other site 668336004523 HemN C-terminal domain; Region: HemN_C; pfam06969 668336004524 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 668336004525 tetramer (dimer of dimers) interface [polypeptide binding]; other site 668336004526 active site 668336004527 dimer interface [polypeptide binding]; other site 668336004528 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 668336004529 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 668336004530 ligand binding site [chemical binding]; other site 668336004531 NAD binding site [chemical binding]; other site 668336004532 tetramer interface [polypeptide binding]; other site 668336004533 catalytic site [active] 668336004534 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 668336004535 L-serine binding site [chemical binding]; other site 668336004536 ACT domain interface; other site 668336004537 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 668336004538 putative ligand binding residues [chemical binding]; other site 668336004539 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 668336004540 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 668336004541 DctM-like transporters; Region: DctM; pfam06808 668336004542 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 668336004543 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 668336004544 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 668336004545 putative active site [active] 668336004546 putative catalytic site [active] 668336004547 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 668336004548 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 668336004549 DNA-binding site [nucleotide binding]; DNA binding site 668336004550 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 668336004551 mannonate dehydratase; Provisional; Region: PRK03906 668336004552 mannonate dehydratase; Region: uxuA; TIGR00695 668336004553 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 668336004554 EamA-like transporter family; Region: EamA; pfam00892 668336004555 EamA-like transporter family; Region: EamA; pfam00892 668336004556 putative transporter; Provisional; Region: PRK11660 668336004557 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 668336004558 Sulfate transporter family; Region: Sulfate_transp; pfam00916 668336004559 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 668336004560 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 668336004561 Found in ATP-dependent protease La (LON); Region: LON; smart00464 668336004562 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 668336004563 Walker A motif; other site 668336004564 ATP binding site [chemical binding]; other site 668336004565 Walker B motif; other site 668336004566 arginine finger; other site 668336004567 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 668336004568 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 668336004569 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 668336004570 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 668336004571 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 668336004572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 668336004573 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 668336004574 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 668336004575 DNA binding residues [nucleotide binding] 668336004576 DNA primase; Validated; Region: dnaG; PRK05667 668336004577 CHC2 zinc finger; Region: zf-CHC2; pfam01807 668336004578 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 668336004579 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 668336004580 active site 668336004581 metal binding site [ion binding]; metal-binding site 668336004582 interdomain interaction site; other site 668336004583 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 668336004584 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 668336004585 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 668336004586 UGMP family protein; Validated; Region: PRK09604 668336004587 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 668336004588 thymidine kinase; Provisional; Region: PRK04296 668336004589 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 668336004590 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 668336004591 nucleotide binding pocket [chemical binding]; other site 668336004592 K-X-D-G motif; other site 668336004593 catalytic site [active] 668336004594 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 668336004595 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 668336004596 Helix-hairpin-helix motif; Region: HHH; pfam00633 668336004597 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 668336004598 Dimer interface [polypeptide binding]; other site 668336004599 BRCT sequence motif; other site 668336004600 cell division protein ZipA; Provisional; Region: PRK01741 668336004601 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 668336004602 FtsZ protein binding site [polypeptide binding]; other site 668336004603 putative sulfate transport protein CysZ; Validated; Region: PRK04949 668336004604 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 668336004605 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 668336004606 dimer interface [polypeptide binding]; other site 668336004607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336004608 catalytic residue [active] 668336004609 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 668336004610 putative uracil binding site [chemical binding]; other site 668336004611 putative active site [active] 668336004612 GTP-binding protein YchF; Reviewed; Region: PRK09601 668336004613 YchF GTPase; Region: YchF; cd01900 668336004614 G1 box; other site 668336004615 GTP/Mg2+ binding site [chemical binding]; other site 668336004616 Switch I region; other site 668336004617 G2 box; other site 668336004618 Switch II region; other site 668336004619 G3 box; other site 668336004620 G4 box; other site 668336004621 G5 box; other site 668336004622 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 668336004623 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 668336004624 putative active site [active] 668336004625 catalytic residue [active] 668336004626 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 668336004627 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 668336004628 Mg++ binding site [ion binding]; other site 668336004629 putative catalytic motif [active] 668336004630 substrate binding site [chemical binding]; other site 668336004631 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 668336004632 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 668336004633 inhibitor-cofactor binding pocket; inhibition site 668336004634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336004635 catalytic residue [active] 668336004636 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 668336004637 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 668336004638 metal binding triad; other site 668336004639 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 668336004640 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 668336004641 Zn2+ binding site [ion binding]; other site 668336004642 Mg2+ binding site [ion binding]; other site 668336004643 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 668336004644 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 668336004645 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 668336004646 active site 668336004647 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 668336004648 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 668336004649 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 668336004650 Transglycosylase; Region: Transgly; pfam00912 668336004651 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 668336004652 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 668336004653 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 668336004654 Predicted membrane protein [Function unknown]; Region: COG4393 668336004655 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 668336004656 Uncharacterized conserved protein [Function unknown]; Region: COG3350 668336004657 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 668336004658 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 668336004659 FtsX-like permease family; Region: FtsX; pfam02687 668336004660 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 668336004661 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 668336004662 FtsX-like permease family; Region: FtsX; pfam02687 668336004663 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 668336004664 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 668336004665 Walker A/P-loop; other site 668336004666 ATP binding site [chemical binding]; other site 668336004667 Q-loop/lid; other site 668336004668 ABC transporter signature motif; other site 668336004669 Walker B; other site 668336004670 D-loop; other site 668336004671 H-loop/switch region; other site 668336004672 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 668336004673 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 668336004674 catalytic residues [active] 668336004675 Cytochrome c; Region: Cytochrom_C; cl11414 668336004676 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 668336004677 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 668336004678 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 668336004679 motif II; other site 668336004680 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 668336004681 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 668336004682 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 668336004683 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 668336004684 ATP binding site [chemical binding]; other site 668336004685 putative Mg++ binding site [ion binding]; other site 668336004686 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 668336004687 nucleotide binding region [chemical binding]; other site 668336004688 ATP-binding site [chemical binding]; other site 668336004689 Helicase associated domain (HA2); Region: HA2; pfam04408 668336004690 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 668336004691 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 668336004692 Protein of unknown function (DUF423); Region: DUF423; cl01008 668336004693 Predicted membrane protein [Function unknown]; Region: COG2707 668336004694 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 668336004695 putative GSH binding site [chemical binding]; other site 668336004696 catalytic residues [active] 668336004697 outer membrane protein A; Reviewed; Region: PRK10808 668336004698 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 668336004699 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 668336004700 ligand binding site [chemical binding]; other site 668336004701 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 668336004702 FAD binding domain; Region: FAD_binding_4; pfam01565 668336004703 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 668336004704 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 668336004705 CoenzymeA binding site [chemical binding]; other site 668336004706 subunit interaction site [polypeptide binding]; other site 668336004707 PHB binding site; other site 668336004708 ferrochelatase; Reviewed; Region: hemH; PRK00035 668336004709 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 668336004710 C-terminal domain interface [polypeptide binding]; other site 668336004711 active site 668336004712 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 668336004713 active site 668336004714 N-terminal domain interface [polypeptide binding]; other site 668336004715 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 668336004716 dimer interface [polypeptide binding]; other site 668336004717 catalytic triad [active] 668336004718 peroxidatic and resolving cysteines [active] 668336004719 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 668336004720 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 668336004721 active site 668336004722 dimer interface [polypeptide binding]; other site 668336004723 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 668336004724 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 668336004725 active site 668336004726 trimer interface [polypeptide binding]; other site 668336004727 allosteric site; other site 668336004728 active site lid [active] 668336004729 hexamer (dimer of trimers) interface [polypeptide binding]; other site 668336004730 N-acetylneuraminate lyase; Provisional; Region: PRK04147 668336004731 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 668336004732 inhibitor site; inhibition site 668336004733 active site 668336004734 dimer interface [polypeptide binding]; other site 668336004735 catalytic residue [active] 668336004736 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 668336004737 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 668336004738 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 668336004739 putative active site [active] 668336004740 N-acetylmannosamine kinase; Provisional; Region: PRK05082 668336004741 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 668336004742 nucleotide binding site [chemical binding]; other site 668336004743 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 668336004744 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 668336004745 putative active site cavity [active] 668336004746 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 668336004747 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 668336004748 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 668336004749 DctM-like transporters; Region: DctM; pfam06808 668336004750 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 668336004751 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 668336004752 Kelch motif; Region: Kelch_1; pfam01344 668336004753 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 668336004754 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 668336004755 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 668336004756 active site turn [active] 668336004757 phosphorylation site [posttranslational modification] 668336004758 outer membrane protein A; Reviewed; Region: PRK10808 668336004759 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 668336004760 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 668336004761 ligand binding site [chemical binding]; other site 668336004762 excinuclease ABC subunit B; Provisional; Region: PRK05298 668336004763 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 668336004764 ATP binding site [chemical binding]; other site 668336004765 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 668336004766 nucleotide binding region [chemical binding]; other site 668336004767 ATP-binding site [chemical binding]; other site 668336004768 Ultra-violet resistance protein B; Region: UvrB; pfam12344 668336004769 UvrB/uvrC motif; Region: UVR; pfam02151 668336004770 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 668336004771 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 668336004772 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 668336004773 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 668336004774 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 668336004775 ABC transporter; Region: ABC_tran_2; pfam12848 668336004776 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 668336004777 YadA-like C-terminal region; Region: YadA; pfam03895 668336004778 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 668336004779 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 668336004780 ATP binding site [chemical binding]; other site 668336004781 Mg2+ binding site [ion binding]; other site 668336004782 G-X-G motif; other site 668336004783 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 668336004784 anchoring element; other site 668336004785 dimer interface [polypeptide binding]; other site 668336004786 ATP binding site [chemical binding]; other site 668336004787 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 668336004788 active site 668336004789 putative metal-binding site [ion binding]; other site 668336004790 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 668336004791 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 668336004792 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 668336004793 CAP-like domain; other site 668336004794 active site 668336004795 primary dimer interface [polypeptide binding]; other site 668336004796 glutathionine S-transferase; Provisional; Region: PRK10542 668336004797 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 668336004798 C-terminal domain interface [polypeptide binding]; other site 668336004799 GSH binding site (G-site) [chemical binding]; other site 668336004800 dimer interface [polypeptide binding]; other site 668336004801 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 668336004802 dimer interface [polypeptide binding]; other site 668336004803 substrate binding pocket (H-site) [chemical binding]; other site 668336004804 N-terminal domain interface [polypeptide binding]; other site 668336004805 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 668336004806 Sel1-like repeats; Region: SEL1; smart00671 668336004807 Sel1 repeat; Region: Sel1; cl02723 668336004808 Sel1-like repeats; Region: SEL1; smart00671 668336004809 Sel1 repeat; Region: Sel1; cl02723 668336004810 YwiC-like protein; Region: YwiC; pfam14256 668336004811 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 668336004812 homotrimer interaction site [polypeptide binding]; other site 668336004813 putative active site [active] 668336004814 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 668336004815 hypothetical protein; Provisional; Region: PRK05421 668336004816 putative catalytic site [active] 668336004817 putative metal binding site [ion binding]; other site 668336004818 putative phosphate binding site [ion binding]; other site 668336004819 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 668336004820 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 668336004821 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 668336004822 Walker A motif; other site 668336004823 ATP binding site [chemical binding]; other site 668336004824 Walker B motif; other site 668336004825 DNA polymerase III subunit delta'; Validated; Region: PRK08485 668336004826 arginine finger; other site 668336004827 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 668336004828 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 668336004829 active site 668336004830 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 668336004831 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 668336004832 putative acyl-acceptor binding pocket; other site 668336004833 hypothetical protein; Provisional; Region: PRK10621 668336004834 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 668336004835 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 668336004836 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 668336004837 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 668336004838 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 668336004839 Tetramer interface [polypeptide binding]; other site 668336004840 active site 668336004841 FMN-binding site [chemical binding]; other site 668336004842 hypothetical protein; Provisional; Region: PRK11281 668336004843 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 668336004844 Mechanosensitive ion channel; Region: MS_channel; pfam00924 668336004845 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 668336004846 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 668336004847 acyl-activating enzyme (AAE) consensus motif; other site 668336004848 putative AMP binding site [chemical binding]; other site 668336004849 putative active site [active] 668336004850 putative CoA binding site [chemical binding]; other site 668336004851 replication initiation regulator SeqA; Provisional; Region: PRK11187 668336004852 acyl-CoA esterase; Provisional; Region: PRK10673 668336004853 PGAP1-like protein; Region: PGAP1; pfam07819 668336004854 flavodoxin FldA; Validated; Region: PRK09267 668336004855 ferric uptake regulator; Provisional; Region: fur; PRK09462 668336004856 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 668336004857 metal binding site 2 [ion binding]; metal-binding site 668336004858 putative DNA binding helix; other site 668336004859 metal binding site 1 [ion binding]; metal-binding site 668336004860 dimer interface [polypeptide binding]; other site 668336004861 structural Zn2+ binding site [ion binding]; other site 668336004862 DNA gyrase subunit A; Validated; Region: PRK05560 668336004863 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 668336004864 CAP-like domain; other site 668336004865 active site 668336004866 primary dimer interface [polypeptide binding]; other site 668336004867 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 668336004868 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 668336004869 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 668336004870 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 668336004871 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 668336004872 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 668336004873 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 668336004874 translation initiation factor Sui1; Validated; Region: PRK06824 668336004875 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 668336004876 putative rRNA binding site [nucleotide binding]; other site 668336004877 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 668336004878 active site 668336004879 dimer interface [polypeptide binding]; other site 668336004880 tetratricopeptide repeat protein; Provisional; Region: PRK11788 668336004881 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 668336004882 Predicted membrane protein [Function unknown]; Region: COG3771 668336004883 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 668336004884 IHF dimer interface [polypeptide binding]; other site 668336004885 IHF - DNA interface [nucleotide binding]; other site 668336004886 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 668336004887 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 668336004888 RNA binding site [nucleotide binding]; other site 668336004889 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 668336004890 RNA binding site [nucleotide binding]; other site 668336004891 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 668336004892 RNA binding site [nucleotide binding]; other site 668336004893 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 668336004894 RNA binding site [nucleotide binding]; other site 668336004895 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 668336004896 RNA binding site [nucleotide binding]; other site 668336004897 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 668336004898 RNA binding site [nucleotide binding]; other site 668336004899 cytidylate kinase; Provisional; Region: cmk; PRK00023 668336004900 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 668336004901 CMP-binding site; other site 668336004902 The sites determining sugar specificity; other site 668336004903 Protein of unknown function (DUF535); Region: DUF535; pfam04393 668336004904 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 668336004905 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 668336004906 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 668336004907 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 668336004908 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 668336004909 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 668336004910 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 668336004911 AzlC protein; Region: AzlC; cl00570 668336004912 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 668336004913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 668336004914 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 668336004915 putative dimerization interface [polypeptide binding]; other site 668336004916 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 668336004917 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 668336004918 THF binding site; other site 668336004919 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 668336004920 substrate binding site [chemical binding]; other site 668336004921 THF binding site; other site 668336004922 zinc-binding site [ion binding]; other site 668336004923 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 668336004924 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 668336004925 ATP binding site [chemical binding]; other site 668336004926 putative Mg++ binding site [ion binding]; other site 668336004927 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 668336004928 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 668336004929 nucleotide binding region [chemical binding]; other site 668336004930 ATP-binding site [chemical binding]; other site 668336004931 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 668336004932 YccA-like proteins; Region: YccA_like; cd10433 668336004933 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 668336004934 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 668336004935 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 668336004936 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 668336004937 metal binding site [ion binding]; metal-binding site 668336004938 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 668336004939 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 668336004940 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 668336004941 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 668336004942 ABC-ATPase subunit interface; other site 668336004943 dimer interface [polypeptide binding]; other site 668336004944 putative PBP binding regions; other site 668336004945 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 668336004946 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 668336004947 ABC-ATPase subunit interface; other site 668336004948 dimer interface [polypeptide binding]; other site 668336004949 putative PBP binding regions; other site 668336004950 acylphosphatase; Provisional; Region: PRK14448 668336004951 hypothetical protein; Provisional; Region: PRK03641 668336004952 hypothetical protein; Provisional; Region: PRK01904 668336004953 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 668336004954 active site 668336004955 dimer interfaces [polypeptide binding]; other site 668336004956 catalytic residues [active] 668336004957 Predicted membrane protein [Function unknown]; Region: COG3304 668336004958 Domain of unknown function (DUF307); Region: DUF307; pfam03733 668336004959 Domain of unknown function (DUF307); Region: DUF307; pfam03733 668336004960 TIGR01666 family membrane protein; Region: YCCS 668336004961 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 668336004962 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 668336004963 hypothetical protein; Provisional; Region: PRK04946 668336004964 Smr domain; Region: Smr; pfam01713 668336004965 hypothetical protein; Provisional; Region: PRK04946 668336004966 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 668336004967 HemK family putative methylases; Region: hemK_fam; TIGR00536 668336004968 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 668336004969 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 668336004970 PYR/PP interface [polypeptide binding]; other site 668336004971 dimer interface [polypeptide binding]; other site 668336004972 TPP binding site [chemical binding]; other site 668336004973 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 668336004974 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 668336004975 TPP-binding site [chemical binding]; other site 668336004976 dimer interface [polypeptide binding]; other site 668336004977 potential frameshift: common BLAST hit: gi|52424206|ref|YP_087343.1| ascorbate-specific PTS system enzyme IIC 668336004978 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 668336004979 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 668336004980 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 668336004981 active site 668336004982 P-loop; other site 668336004983 phosphorylation site [posttranslational modification] 668336004984 ABC transporter ATPase component; Reviewed; Region: PRK11147 668336004985 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 668336004986 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 668336004987 ABC transporter; Region: ABC_tran_2; pfam12848 668336004988 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 668336004989 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 668336004990 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 668336004991 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 668336004992 LrgB-like family; Region: LrgB; cl00596 668336004993 hypothetical protein; Provisional; Region: PRK01821 668336004994 Staphylococcal nuclease homologues; Region: SNc; smart00318 668336004995 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 668336004996 Catalytic site; other site 668336004997 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 668336004998 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 668336004999 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 668336005000 catalytic residue [active] 668336005001 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 668336005002 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 668336005003 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 668336005004 putative ribose interaction site [chemical binding]; other site 668336005005 putative ADP binding site [chemical binding]; other site 668336005006 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 668336005007 active site 668336005008 nucleotide binding site [chemical binding]; other site 668336005009 HIGH motif; other site 668336005010 KMSKS motif; other site 668336005011 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 668336005012 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 668336005013 putative acyl-acceptor binding pocket; other site 668336005014 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 668336005015 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 668336005016 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 668336005017 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 668336005018 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 668336005019 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 668336005020 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 668336005021 Domain of unknown function DUF302; Region: DUF302; cl01364 668336005022 Protein of unknown function, DUF417; Region: DUF417; cl01162 668336005023 Haem-binding domain; Region: Haem_bd; pfam14376 668336005024 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 668336005025 ribonuclease D; Provisional; Region: PRK10829 668336005026 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 668336005027 catalytic site [active] 668336005028 putative active site [active] 668336005029 putative substrate binding site [chemical binding]; other site 668336005030 HRDC domain; Region: HRDC; pfam00570 668336005031 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 668336005032 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 668336005033 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 668336005034 acyl-activating enzyme (AAE) consensus motif; other site 668336005035 putative AMP binding site [chemical binding]; other site 668336005036 putative active site [active] 668336005037 putative CoA binding site [chemical binding]; other site 668336005038 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 668336005039 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 668336005040 Glycoprotease family; Region: Peptidase_M22; pfam00814 668336005041 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 668336005042 DEAD_2; Region: DEAD_2; pfam06733 668336005043 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 668336005044 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 668336005045 active site 668336005046 phosphate binding residues; other site 668336005047 catalytic residues [active] 668336005048 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 668336005049 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 668336005050 thioredoxin reductase; Provisional; Region: PRK10262 668336005051 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 668336005052 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 668336005053 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 668336005054 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 668336005055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336005056 Walker A/P-loop; other site 668336005057 ATP binding site [chemical binding]; other site 668336005058 Q-loop/lid; other site 668336005059 ABC transporter signature motif; other site 668336005060 Walker B; other site 668336005061 D-loop; other site 668336005062 H-loop/switch region; other site 668336005063 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 668336005064 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 668336005065 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 668336005066 Walker A/P-loop; other site 668336005067 ATP binding site [chemical binding]; other site 668336005068 Q-loop/lid; other site 668336005069 ABC transporter signature motif; other site 668336005070 Walker B; other site 668336005071 D-loop; other site 668336005072 H-loop/switch region; other site 668336005073 Phosphotransferase enzyme family; Region: APH; pfam01636 668336005074 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 668336005075 active site 668336005076 ATP binding site [chemical binding]; other site 668336005077 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 668336005078 fructokinase; Reviewed; Region: PRK09557 668336005079 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 668336005080 nucleotide binding site [chemical binding]; other site 668336005081 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 668336005082 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 668336005083 active site 668336005084 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 668336005085 dimerization interface [polypeptide binding]; other site 668336005086 active site 668336005087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 668336005088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 668336005089 NAD(P) binding site [chemical binding]; other site 668336005090 Family of unknown function (DUF695); Region: DUF695; pfam05117 668336005091 TIGR01619 family protein; Region: hyp_HI0040 668336005092 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 668336005093 putative catalytic site [active] 668336005094 putative phosphate binding site [ion binding]; other site 668336005095 active site 668336005096 metal binding site A [ion binding]; metal-binding site 668336005097 DNA binding site [nucleotide binding] 668336005098 putative AP binding site [nucleotide binding]; other site 668336005099 putative metal binding site B [ion binding]; other site 668336005100 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 668336005101 Bacterial sugar transferase; Region: Bac_transf; pfam02397 668336005102 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 668336005103 active site 668336005104 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 668336005105 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 668336005106 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 668336005107 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 668336005108 Probable Catalytic site; other site 668336005109 Acyltransferase family; Region: Acyl_transf_3; pfam01757 668336005110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 668336005111 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 668336005112 NAD(P) binding site [chemical binding]; other site 668336005113 active site 668336005114 Rhamnan synthesis protein F; Region: RgpF; pfam05045 668336005115 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 668336005116 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 668336005117 Walker A/P-loop; other site 668336005118 ATP binding site [chemical binding]; other site 668336005119 Q-loop/lid; other site 668336005120 ABC transporter signature motif; other site 668336005121 Walker B; other site 668336005122 D-loop; other site 668336005123 H-loop/switch region; other site 668336005124 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 668336005125 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 668336005126 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 668336005127 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 668336005128 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 668336005129 NADP binding site [chemical binding]; other site 668336005130 active site 668336005131 putative substrate binding site [chemical binding]; other site 668336005132 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 668336005133 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 668336005134 substrate binding site; other site 668336005135 tetramer interface; other site 668336005136 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 668336005137 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 668336005138 NAD binding site [chemical binding]; other site 668336005139 substrate binding site [chemical binding]; other site 668336005140 homodimer interface [polypeptide binding]; other site 668336005141 active site 668336005142 lytic murein transglycosylase; Region: MltB_2; TIGR02283 668336005143 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 668336005144 N-acetyl-D-glucosamine binding site [chemical binding]; other site 668336005145 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 668336005146 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 668336005147 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 668336005148 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 668336005149 active site 668336005150 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 668336005151 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 668336005152 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 668336005153 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 668336005154 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 668336005155 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 668336005156 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 668336005157 Uncharacterized conserved protein [Function unknown]; Region: COG1434 668336005158 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 668336005159 putative active site [active] 668336005160 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 668336005161 active site 668336005162 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK07636 668336005163 DNA binding site [nucleotide binding] 668336005164 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 668336005165 DNA binding site [nucleotide binding] 668336005166 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 668336005167 Part of AAA domain; Region: AAA_19; pfam13245 668336005168 Family description; Region: UvrD_C_2; pfam13538 668336005169 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 668336005170 fructuronate transporter; Provisional; Region: PRK10034; cl15264 668336005171 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 668336005172 Shikimate kinase; Region: SKI; pfam01202 668336005173 ATP-binding site [chemical binding]; other site 668336005174 Gluconate-6-phosphate binding site [chemical binding]; other site 668336005175 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 668336005176 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 668336005177 DNA binding site [nucleotide binding] 668336005178 domain linker motif; other site 668336005179 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 668336005180 putative ligand binding site [chemical binding]; other site 668336005181 putative dimerization interface [polypeptide binding]; other site 668336005182 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 668336005183 potential frameshift: common BLAST hit: gi|251792819|ref|YP_003007545.1| formate dehydrogenase, alpha subunit 668336005184 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 668336005185 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 668336005186 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 668336005187 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 668336005188 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 668336005189 molybdopterin cofactor binding site; other site 668336005190 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 668336005191 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 668336005192 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 668336005193 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 668336005194 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 668336005195 Acylphosphatase; Region: Acylphosphatase; pfam00708 668336005196 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 668336005197 HypF finger; Region: zf-HYPF; pfam07503 668336005198 HypF finger; Region: zf-HYPF; pfam07503 668336005199 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 668336005200 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 668336005201 4Fe-4S binding domain; Region: Fer4; pfam00037 668336005202 potential frameshift: common BLAST hit: gi|251792884|ref|YP_003007610.1| hydrogenase-4 component B 668336005203 hydrogenase 4 subunit B; Validated; Region: PRK06521 668336005204 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 668336005205 hydrogenase 4 subunit B; Validated; Region: PRK06521 668336005206 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 668336005207 NADH dehydrogenase; Region: NADHdh; cl00469 668336005208 hydrogenase 4 subunit D; Validated; Region: PRK06525 668336005209 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 668336005210 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 668336005211 hydrogenase 4 subunit F; Validated; Region: PRK06458 668336005212 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 668336005213 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 668336005214 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 668336005215 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 668336005216 hydrogenase 4 subunit H; Validated; Region: PRK08222 668336005217 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 668336005218 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 668336005219 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 668336005220 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 668336005221 nickel binding site [ion binding]; other site 668336005222 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 668336005223 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 668336005224 molybdopterin cofactor binding site; other site 668336005225 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 668336005226 molybdopterin cofactor binding site; other site 668336005227 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 668336005228 CoA binding domain; Region: CoA_binding; pfam02629 668336005229 CoA-ligase; Region: Ligase_CoA; pfam00549 668336005230 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 668336005231 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 668336005232 CoA-ligase; Region: Ligase_CoA; pfam00549 668336005233 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 668336005234 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 668336005235 E3 interaction surface; other site 668336005236 lipoyl attachment site [posttranslational modification]; other site 668336005237 e3 binding domain; Region: E3_binding; pfam02817 668336005238 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 668336005239 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 668336005240 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 668336005241 TPP-binding site [chemical binding]; other site 668336005242 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 668336005243 PYR/PP interface [polypeptide binding]; other site 668336005244 dimer interface [polypeptide binding]; other site 668336005245 TPP binding site [chemical binding]; other site 668336005246 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 668336005247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 668336005248 Peptidase M15; Region: Peptidase_M15_3; cl01194 668336005249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 668336005250 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 668336005251 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 668336005252 carboxy-terminal protease; Provisional; Region: PRK11186 668336005253 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 668336005254 protein binding site [polypeptide binding]; other site 668336005255 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 668336005256 Catalytic dyad [active] 668336005257 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 668336005258 ProP expression regulator; Provisional; Region: PRK04950 668336005259 ProQ/FINO family; Region: ProQ; pfam04352 668336005260 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 668336005261 Paraquat-inducible protein A; Region: PqiA; pfam04403 668336005262 Paraquat-inducible protein A; Region: PqiA; pfam04403 668336005263 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 668336005264 mce related protein; Region: MCE; pfam02470 668336005265 mce related protein; Region: MCE; pfam02470 668336005266 mce related protein; Region: MCE; pfam02470 668336005267 mce related protein; Region: MCE; pfam02470 668336005268 mce related protein; Region: MCE; pfam02470 668336005269 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 668336005270 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 668336005271 metal binding site [ion binding]; metal-binding site 668336005272 dimer interface [polypeptide binding]; other site 668336005273 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 668336005274 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 668336005275 Walker A/P-loop; other site 668336005276 ATP binding site [chemical binding]; other site 668336005277 Q-loop/lid; other site 668336005278 ABC transporter signature motif; other site 668336005279 Walker B; other site 668336005280 D-loop; other site 668336005281 H-loop/switch region; other site 668336005282 TOBE domain; Region: TOBE_2; pfam08402 668336005283 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 668336005284 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 668336005285 dimer interface [polypeptide binding]; other site 668336005286 conserved gate region; other site 668336005287 putative PBP binding loops; other site 668336005288 ABC-ATPase subunit interface; other site 668336005289 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 668336005290 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 668336005291 dimer interface [polypeptide binding]; other site 668336005292 conserved gate region; other site 668336005293 ABC-ATPase subunit interface; other site 668336005294 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 668336005295 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 668336005296 cytidine deaminase; Provisional; Region: PRK09027 668336005297 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 668336005298 active site 668336005299 catalytic motif [active] 668336005300 Zn binding site [ion binding]; other site 668336005301 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 668336005302 active site 668336005303 catalytic motif [active] 668336005304 Zn binding site [ion binding]; other site 668336005305 seryl-tRNA synthetase; Provisional; Region: PRK05431 668336005306 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 668336005307 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 668336005308 dimer interface [polypeptide binding]; other site 668336005309 active site 668336005310 motif 1; other site 668336005311 motif 2; other site 668336005312 motif 3; other site 668336005313 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 668336005314 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 668336005315 recombination factor protein RarA; Reviewed; Region: PRK13342 668336005316 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 668336005317 Walker A motif; other site 668336005318 ATP binding site [chemical binding]; other site 668336005319 Walker B motif; other site 668336005320 arginine finger; other site 668336005321 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 668336005322 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 668336005323 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 668336005324 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 668336005325 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 668336005326 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 668336005327 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 668336005328 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 668336005329 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 668336005330 dimerization interface [polypeptide binding]; other site 668336005331 putative DNA binding site [nucleotide binding]; other site 668336005332 putative Zn2+ binding site [ion binding]; other site 668336005333 AsnC family; Region: AsnC_trans_reg; pfam01037 668336005334 DNA repair protein RadA; Provisional; Region: PRK11823 668336005335 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 668336005336 Walker A motif; other site 668336005337 ATP binding site [chemical binding]; other site 668336005338 Walker B motif; other site 668336005339 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 668336005340 Uncharacterized conserved protein [Function unknown]; Region: COG3025 668336005341 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 668336005342 putative active site [active] 668336005343 putative metal binding residues [ion binding]; other site 668336005344 signature motif; other site 668336005345 putative triphosphate binding site [ion binding]; other site 668336005346 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 668336005347 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 668336005348 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 668336005349 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 668336005350 Bacterial SH3 domain homologues; Region: SH3b; smart00287 668336005351 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 668336005352 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 668336005353 active site 668336005354 NTP binding site [chemical binding]; other site 668336005355 metal binding triad [ion binding]; metal-binding site 668336005356 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 668336005357 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 668336005358 Zn2+ binding site [ion binding]; other site 668336005359 Mg2+ binding site [ion binding]; other site 668336005360 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 668336005361 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 668336005362 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 668336005363 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 668336005364 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 668336005365 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 668336005366 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 668336005367 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 668336005368 active site 668336005369 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 668336005370 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 668336005371 phosphate binding site [ion binding]; other site 668336005372 L-lactate permease; Region: Lactate_perm; cl00701 668336005373 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 668336005374 hypothetical protein; Provisional; Region: PRK05423 668336005375 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 668336005376 homodimer interface [polypeptide binding]; other site 668336005377 substrate-cofactor binding pocket; other site 668336005378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336005379 catalytic residue [active] 668336005380 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 668336005381 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 668336005382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336005383 homodimer interface [polypeptide binding]; other site 668336005384 catalytic residue [active] 668336005385 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 668336005386 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 668336005387 hinge; other site 668336005388 active site 668336005389 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 668336005390 RNA/DNA hybrid binding site [nucleotide binding]; other site 668336005391 active site 668336005392 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 668336005393 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 668336005394 active site 668336005395 catalytic site [active] 668336005396 substrate binding site [chemical binding]; other site 668336005397 primosomal protein DnaI; Provisional; Region: PRK02854 668336005398 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 668336005399 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 668336005400 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 668336005401 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 668336005402 putative protease; Provisional; Region: PRK15452 668336005403 Peptidase family U32; Region: Peptidase_U32; pfam01136 668336005404 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 668336005405 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 668336005406 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 668336005407 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 668336005408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336005409 homodimer interface [polypeptide binding]; other site 668336005410 catalytic residue [active] 668336005411 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 668336005412 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 668336005413 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 668336005414 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 668336005415 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 668336005416 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 668336005417 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 668336005418 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 668336005419 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 668336005420 Protein export membrane protein; Region: SecD_SecF; pfam02355 668336005421 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 668336005422 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 668336005423 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 668336005424 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 668336005425 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 668336005426 putative catalytic cysteine [active] 668336005427 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 668336005428 putative active site [active] 668336005429 metal binding site [ion binding]; metal-binding site 668336005430 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 668336005431 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 668336005432 TM-ABC transporter signature motif; other site 668336005433 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 668336005434 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 668336005435 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 668336005436 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 668336005437 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 668336005438 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 668336005439 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 668336005440 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 668336005441 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 668336005442 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 668336005443 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 668336005444 active site 668336005445 P-loop; other site 668336005446 phosphorylation site [posttranslational modification] 668336005447 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 668336005448 active site 668336005449 phosphorylation site [posttranslational modification] 668336005450 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 668336005451 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 668336005452 HlyD family secretion protein; Region: HlyD_3; pfam13437 668336005453 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 668336005454 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 668336005455 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 668336005456 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 668336005457 Walker A/P-loop; other site 668336005458 ATP binding site [chemical binding]; other site 668336005459 Q-loop/lid; other site 668336005460 ABC transporter signature motif; other site 668336005461 Walker B; other site 668336005462 D-loop; other site 668336005463 H-loop/switch region; other site 668336005464 RTX N-terminal domain; Region: RTX; pfam02382 668336005465 RTX C-terminal domain; Region: RTX_C; pfam08339 668336005466 RTX toxin acyltransferase family; Region: HlyC; pfam02794 668336005467 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 668336005468 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 668336005469 dimer interface [polypeptide binding]; other site 668336005470 active site 668336005471 glycine-pyridoxal phosphate binding site [chemical binding]; other site 668336005472 folate binding site [chemical binding]; other site 668336005473 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 668336005474 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 668336005475 active site turn [active] 668336005476 phosphorylation site [posttranslational modification] 668336005477 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 668336005478 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 668336005479 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 668336005480 S-adenosylmethionine binding site [chemical binding]; other site 668336005481 DNA polymerase III subunit psi; Validated; Region: PRK06856 668336005482 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 668336005483 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 668336005484 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 668336005485 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 668336005486 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 668336005487 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 668336005488 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 668336005489 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 668336005490 ligand binding site [chemical binding]; other site 668336005491 translocation protein TolB; Provisional; Region: tolB; PRK01742 668336005492 TolB amino-terminal domain; Region: TolB_N; pfam04052 668336005493 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 668336005494 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 668336005495 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 668336005496 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 668336005497 TolA C-terminal; Region: TolA; pfam06519 668336005498 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 668336005499 colicin uptake protein TolR; Provisional; Region: PRK11024 668336005500 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 668336005501 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 668336005502 active site 668336005503 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 668336005504 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 668336005505 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 668336005506 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 668336005507 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 668336005508 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 668336005509 Walker A motif; other site 668336005510 ATP binding site [chemical binding]; other site 668336005511 Walker B motif; other site 668336005512 arginine finger; other site 668336005513 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 668336005514 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 668336005515 RuvA N terminal domain; Region: RuvA_N; pfam01330 668336005516 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 668336005517 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 668336005518 active site 668336005519 putative DNA-binding cleft [nucleotide binding]; other site 668336005520 dimer interface [polypeptide binding]; other site 668336005521 hypothetical protein; Validated; Region: PRK00110 668336005522 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 668336005523 nudix motif; other site 668336005524 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 668336005525 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 668336005526 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 668336005527 dimer interface [polypeptide binding]; other site 668336005528 anticodon binding site; other site 668336005529 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 668336005530 homodimer interface [polypeptide binding]; other site 668336005531 motif 1; other site 668336005532 active site 668336005533 motif 2; other site 668336005534 GAD domain; Region: GAD; pfam02938 668336005535 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 668336005536 active site 668336005537 motif 3; other site 668336005538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 668336005539 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 668336005540 S-adenosylmethionine binding site [chemical binding]; other site 668336005541 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 668336005542 Methyltransferase domain; Region: Methyltransf_26; pfam13659 668336005543 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 668336005544 non-specific DNA binding site [nucleotide binding]; other site 668336005545 salt bridge; other site 668336005546 sequence-specific DNA binding site [nucleotide binding]; other site 668336005547 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 668336005548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 668336005549 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 668336005550 Predicted membrane protein [Function unknown]; Region: COG4984 668336005551 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 668336005552 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 668336005553 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 668336005554 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 668336005555 putative substrate translocation pore; other site 668336005556 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 668336005557 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 668336005558 N-terminal plug; other site 668336005559 ligand-binding site [chemical binding]; other site 668336005560 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 668336005561 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 668336005562 dimer interface [polypeptide binding]; other site 668336005563 active site 668336005564 metal binding site [ion binding]; metal-binding site 668336005565 glutathione binding site [chemical binding]; other site 668336005566 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 668336005567 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 668336005568 dimer interface [polypeptide binding]; other site 668336005569 catalytic site [active] 668336005570 putative active site [active] 668336005571 putative substrate binding site [chemical binding]; other site 668336005572 Predicted permease [General function prediction only]; Region: COG2056 668336005573 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 668336005574 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 668336005575 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 668336005576 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 668336005577 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 668336005578 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 668336005579 FeS/SAM binding site; other site 668336005580 TRAM domain; Region: TRAM; pfam01938 668336005581 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 668336005582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 668336005583 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 668336005584 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 668336005585 substrate binding pocket [chemical binding]; other site 668336005586 chain length determination region; other site 668336005587 substrate-Mg2+ binding site; other site 668336005588 catalytic residues [active] 668336005589 aspartate-rich region 1; other site 668336005590 active site lid residues [active] 668336005591 aspartate-rich region 2; other site 668336005592 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 668336005593 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 668336005594 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 668336005595 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 668336005596 EamA-like transporter family; Region: EamA; pfam00892 668336005597 EamA-like transporter family; Region: EamA; pfam00892 668336005598 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 668336005599 EamA-like transporter family; Region: EamA; pfam00892 668336005600 EamA-like transporter family; Region: EamA; pfam00892 668336005601 GTPase CgtA; Reviewed; Region: obgE; PRK12298 668336005602 GTP1/OBG; Region: GTP1_OBG; pfam01018 668336005603 Obg GTPase; Region: Obg; cd01898 668336005604 G1 box; other site 668336005605 GTP/Mg2+ binding site [chemical binding]; other site 668336005606 Switch I region; other site 668336005607 G2 box; other site 668336005608 G3 box; other site 668336005609 Switch II region; other site 668336005610 G4 box; other site 668336005611 G5 box; other site 668336005612 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 668336005613 SmpB-tmRNA interface; other site 668336005614 potential frameshift: common BLAST hit: gi|251793096|ref|YP_003007822.1| oligopeptide ABC transporter, periplasmic oligopeptide-binding 668336005615 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 668336005616 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 668336005617 peptide binding site [polypeptide binding]; other site 668336005618 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 668336005619 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 668336005620 dimer interface [polypeptide binding]; other site 668336005621 conserved gate region; other site 668336005622 putative PBP binding loops; other site 668336005623 ABC-ATPase subunit interface; other site 668336005624 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 668336005625 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 668336005626 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 668336005627 dimer interface [polypeptide binding]; other site 668336005628 conserved gate region; other site 668336005629 ABC-ATPase subunit interface; other site 668336005630 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 668336005631 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 668336005632 Walker A/P-loop; other site 668336005633 ATP binding site [chemical binding]; other site 668336005634 Q-loop/lid; other site 668336005635 ABC transporter signature motif; other site 668336005636 Walker B; other site 668336005637 D-loop; other site 668336005638 H-loop/switch region; other site 668336005639 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 668336005640 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 668336005641 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 668336005642 Walker A/P-loop; other site 668336005643 ATP binding site [chemical binding]; other site 668336005644 Q-loop/lid; other site 668336005645 ABC transporter signature motif; other site 668336005646 Walker B; other site 668336005647 D-loop; other site 668336005648 H-loop/switch region; other site 668336005649 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 668336005650 two-component response regulator; Provisional; Region: PRK11173 668336005651 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 668336005652 active site 668336005653 phosphorylation site [posttranslational modification] 668336005654 intermolecular recognition site; other site 668336005655 dimerization interface [polypeptide binding]; other site 668336005656 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 668336005657 DNA binding site [nucleotide binding] 668336005658 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 668336005659 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 668336005660 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 668336005661 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 668336005662 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 668336005663 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 668336005664 DsbD alpha interface [polypeptide binding]; other site 668336005665 catalytic residues [active] 668336005666 Predicted membrane protein [Function unknown]; Region: COG2259 668336005667 ribonuclease E; Reviewed; Region: rne; PRK10811 668336005668 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 668336005669 homodimer interface [polypeptide binding]; other site 668336005670 oligonucleotide binding site [chemical binding]; other site 668336005671 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 668336005672 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 668336005673 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 668336005674 RNA binding surface [nucleotide binding]; other site 668336005675 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 668336005676 active site 668336005677 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 668336005678 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 668336005679 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 668336005680 putative ligand binding site [chemical binding]; other site 668336005681 putative NAD binding site [chemical binding]; other site 668336005682 catalytic site [active] 668336005683 cystathionine gamma-synthase; Reviewed; Region: PRK08247 668336005684 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 668336005685 homodimer interface [polypeptide binding]; other site 668336005686 substrate-cofactor binding pocket; other site 668336005687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336005688 catalytic residue [active] 668336005689 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 668336005690 N-acetyl-D-glucosamine binding site [chemical binding]; other site 668336005691 catalytic residue [active] 668336005692 potential frameshift: common BLAST hit: gi|51209462|ref|YP_063425.1| cmgb3/4 668336005693 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 668336005694 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 668336005695 Predicted membrane protein [Function unknown]; Region: COG2860 668336005696 UPF0126 domain; Region: UPF0126; pfam03458 668336005697 UPF0126 domain; Region: UPF0126; pfam03458 668336005698 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 668336005699 AMP binding site [chemical binding]; other site 668336005700 metal binding site [ion binding]; metal-binding site 668336005701 active site 668336005702 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 668336005703 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 668336005704 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 668336005705 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 668336005706 murein transglycosylase A; Provisional; Region: mltA; PRK11162 668336005707 MltA specific insert domain; Region: MltA; smart00925 668336005708 3D domain; Region: 3D; pfam06725 668336005709 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 668336005710 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 668336005711 putative ATP binding site [chemical binding]; other site 668336005712 putative substrate interface [chemical binding]; other site 668336005713 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 668336005714 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 668336005715 metal binding site [ion binding]; metal-binding site 668336005716 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 668336005717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 668336005718 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 668336005719 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 668336005720 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 668336005721 motif II; other site 668336005722 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 668336005723 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 668336005724 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 668336005725 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 668336005726 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 668336005727 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 668336005728 active site 668336005729 Riboflavin kinase; Region: Flavokinase; smart00904 668336005730 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 668336005731 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 668336005732 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 668336005733 active site 668336005734 HIGH motif; other site 668336005735 nucleotide binding site [chemical binding]; other site 668336005736 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 668336005737 active site 668336005738 KMSKS motif; other site 668336005739 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 668336005740 tRNA binding surface [nucleotide binding]; other site 668336005741 anticodon binding site; other site 668336005742 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 668336005743 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 668336005744 lipoprotein signal peptidase; Provisional; Region: PRK14787 668336005745 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 668336005746 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 668336005747 trigger factor; Provisional; Region: tig; PRK01490 668336005748 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 668336005749 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 668336005750 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 668336005751 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 668336005752 active site 668336005753 Int/Topo IB signature motif; other site 668336005754 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 668336005755 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 668336005756 putative substrate translocation pore; other site 668336005757 potential frameshift: common BLAST hit: gi|251791939|ref|YP_003006659.1| pyrroline-5-carboxylate reductase 668336005758 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 668336005759 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 668336005760 recombination associated protein; Reviewed; Region: rdgC; PRK00321 668336005761 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 668336005762 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 668336005763 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 668336005764 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 668336005765 FeS/SAM binding site; other site 668336005766 elongation factor P; Validated; Region: PRK00529 668336005767 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 668336005768 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 668336005769 RNA binding site [nucleotide binding]; other site 668336005770 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 668336005771 RNA binding site [nucleotide binding]; other site 668336005772 tyrosine phenol-lyase; Provisional; Region: PRK13237 668336005773 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 668336005774 substrate binding site [chemical binding]; other site 668336005775 tetramer interface [polypeptide binding]; other site 668336005776 catalytic residue [active] 668336005777 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 668336005778 aromatic amino acid transport protein; Region: araaP; TIGR00837 668336005779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 668336005780 YheO-like PAS domain; Region: PAS_6; pfam08348 668336005781 HTH domain; Region: HTH_22; pfam13309 668336005782 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 668336005783 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 668336005784 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 668336005785 putative active site [active] 668336005786 putative metal binding site [ion binding]; other site 668336005787 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 668336005788 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 668336005789 putative acyl-acceptor binding pocket; other site 668336005790 FtsI repressor; Provisional; Region: PRK10883 668336005791 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 668336005792 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 668336005793 EamA-like transporter family; Region: EamA; pfam00892 668336005794 EamA-like transporter family; Region: EamA; pfam00892 668336005795 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 668336005796 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 668336005797 FeS/SAM binding site; other site 668336005798 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 668336005799 Pyruvate formate lyase 1; Region: PFL1; cd01678 668336005800 coenzyme A binding site [chemical binding]; other site 668336005801 active site 668336005802 catalytic residues [active] 668336005803 glycine loop; other site 668336005804 formate transporter FocA; Region: formate_focA; TIGR04060 668336005805 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 668336005806 nucleotide binding site/active site [active] 668336005807 HIT family signature motif; other site 668336005808 catalytic residue [active] 668336005809 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 668336005810 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 668336005811 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 668336005812 putative dimer interface [polypeptide binding]; other site 668336005813 beta-hexosaminidase; Provisional; Region: PRK05337 668336005814 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 668336005815 potential frameshift: common BLAST hit: gi|251791917|ref|YP_003006637.1| 23S rRNA (uracil-5-)-methyltransferase RumB 668336005816 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 668336005817 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 668336005818 Methyltransferase domain; Region: Methyltransf_26; pfam13659 668336005819 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 668336005820 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 668336005821 active site 668336005822 ADP/pyrophosphate binding site [chemical binding]; other site 668336005823 dimerization interface [polypeptide binding]; other site 668336005824 allosteric effector site; other site 668336005825 fructose-1,6-bisphosphate binding site; other site 668336005826 Cation efflux family; Region: Cation_efflux; cl00316 668336005827 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 668336005828 hypothetical protein; Validated; Region: PRK02101 668336005829 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 668336005830 ligand binding site [chemical binding]; other site 668336005831 active site 668336005832 UGI interface [polypeptide binding]; other site 668336005833 catalytic site [active] 668336005834 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 668336005835 GTP-binding protein LepA; Provisional; Region: PRK05433 668336005836 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 668336005837 G1 box; other site 668336005838 putative GEF interaction site [polypeptide binding]; other site 668336005839 GTP/Mg2+ binding site [chemical binding]; other site 668336005840 Switch I region; other site 668336005841 G2 box; other site 668336005842 G3 box; other site 668336005843 Switch II region; other site 668336005844 G4 box; other site 668336005845 G5 box; other site 668336005846 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 668336005847 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 668336005848 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 668336005849 signal peptidase I; Provisional; Region: PRK10861 668336005850 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 668336005851 Catalytic site [active] 668336005852 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 668336005853 Catalytic site [active] 668336005854 ribonuclease III; Reviewed; Region: rnc; PRK00102 668336005855 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 668336005856 dimerization interface [polypeptide binding]; other site 668336005857 active site 668336005858 metal binding site [ion binding]; metal-binding site 668336005859 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 668336005860 dsRNA binding site [nucleotide binding]; other site 668336005861 GTPase Era; Reviewed; Region: era; PRK00089 668336005862 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 668336005863 G1 box; other site 668336005864 GTP/Mg2+ binding site [chemical binding]; other site 668336005865 Switch I region; other site 668336005866 G2 box; other site 668336005867 Switch II region; other site 668336005868 G3 box; other site 668336005869 G4 box; other site 668336005870 G5 box; other site 668336005871 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 668336005872 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 668336005873 trmE is a tRNA modification GTPase; Region: trmE; cd04164 668336005874 G1 box; other site 668336005875 GTP/Mg2+ binding site [chemical binding]; other site 668336005876 Switch I region; other site 668336005877 G2 box; other site 668336005878 Switch II region; other site 668336005879 G3 box; other site 668336005880 G4 box; other site 668336005881 G5 box; other site 668336005882 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 668336005883 membrane protein insertase; Provisional; Region: PRK01318 668336005884 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 668336005885 hypothetical protein; Validated; Region: PRK00041 668336005886 ribonuclease P; Reviewed; Region: rnpA; PRK01732 668336005887 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 668336005888 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 668336005889 DnaA N-terminal domain; Region: DnaA_N; pfam11638 668336005890 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 668336005891 Walker B motif; other site 668336005892 arginine finger; other site 668336005893 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 668336005894 DnaA box-binding interface [nucleotide binding]; other site 668336005895 DNA polymerase III subunit beta; Validated; Region: PRK05643 668336005896 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 668336005897 putative DNA binding surface [nucleotide binding]; other site 668336005898 dimer interface [polypeptide binding]; other site 668336005899 beta-clamp/clamp loader binding surface; other site 668336005900 beta-clamp/translesion DNA polymerase binding surface; other site 668336005901 recF protein; Region: recf; TIGR00611 668336005902 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336005903 Walker A/P-loop; other site 668336005904 ATP binding site [chemical binding]; other site 668336005905 Q-loop/lid; other site 668336005906 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336005907 ABC transporter signature motif; other site 668336005908 Walker B; other site 668336005909 D-loop; other site 668336005910 H-loop/switch region; other site 668336005911 Methyltransferase domain; Region: Methyltransf_31; pfam13847 668336005912 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 668336005913 S-adenosylmethionine binding site [chemical binding]; other site 668336005914 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 668336005915 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 668336005916 E-class dimer interface [polypeptide binding]; other site 668336005917 P-class dimer interface [polypeptide binding]; other site 668336005918 active site 668336005919 Cu2+ binding site [ion binding]; other site 668336005920 Zn2+ binding site [ion binding]; other site 668336005921 Integrase core domain; Region: rve; pfam00665 668336005922 Integrase core domain; Region: rve_2; pfam13333 668336005923 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 668336005924 non-specific DNA binding site [nucleotide binding]; other site 668336005925 salt bridge; other site 668336005926 sequence-specific DNA binding site [nucleotide binding]; other site 668336005927 malate dehydrogenase; Provisional; Region: PRK13529 668336005928 Malic enzyme, N-terminal domain; Region: malic; pfam00390 668336005929 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 668336005930 NAD(P) binding site [chemical binding]; other site 668336005931 Predicted flavoproteins [General function prediction only]; Region: COG2081 668336005932 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 668336005933 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 668336005934 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 668336005935 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 668336005936 binding surface 668336005937 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 668336005938 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 668336005939 catalytic residues [active] 668336005940 central insert; other site 668336005941 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 668336005942 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 668336005943 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 668336005944 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 668336005945 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 668336005946 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 668336005947 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 668336005948 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 668336005949 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 668336005950 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 668336005951 TPR motif; other site 668336005952 binding surface 668336005953 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 668336005954 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 668336005955 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 668336005956 catalytic residues [active] 668336005957 central insert; other site 668336005958 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 668336005959 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 668336005960 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 668336005961 heme exporter protein CcmC; Region: ccmC; TIGR01191 668336005962 heme exporter protein CcmB; Region: ccmB; TIGR01190 668336005963 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 668336005964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 668336005965 Walker A/P-loop; other site 668336005966 ATP binding site [chemical binding]; other site 668336005967 Q-loop/lid; other site 668336005968 ABC transporter signature motif; other site 668336005969 Walker B; other site 668336005970 D-loop; other site 668336005971 H-loop/switch region; other site 668336005972 potential frameshift: common BLAST hit: gi|251791840|ref|YP_003006560.1| bicyclomycin resistance protein (Sulfonamide resistance protein) 668336005973 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 668336005974 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; cl17904 668336005975 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 668336005976 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 668336005977 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 668336005978 RNA binding surface [nucleotide binding]; other site 668336005979 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 668336005980 active site 668336005981 uracil binding [chemical binding]; other site 668336005982 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 668336005983 Malic enzyme, N-terminal domain; Region: malic; pfam00390 668336005984 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 668336005985 putative NAD(P) binding site [chemical binding]; other site 668336005986 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 668336005987 superoxide dismutase; Provisional; Region: PRK10925 668336005988 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 668336005989 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 668336005990 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 668336005991 Predicted metalloprotease [General function prediction only]; Region: COG2321 668336005992 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 668336005993 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 668336005994 BON domain; Region: BON; pfam04972 668336005995 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 668336005996 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 668336005997 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 668336005998 homooctamer interface [polypeptide binding]; other site 668336005999 active site 668336006000 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 668336006001 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 668336006002 substrate binding pocket [chemical binding]; other site 668336006003 membrane-bound complex binding site; other site 668336006004 hinge residues; other site 668336006005 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 668336006006 N-acetyl-D-glucosamine binding site [chemical binding]; other site 668336006007 catalytic residue [active] 668336006008 disulfide bond formation protein B; Provisional; Region: PRK01749 668336006009 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 668336006010 fatty acid metabolism regulator; Provisional; Region: PRK04984 668336006011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 668336006012 DNA-binding site [nucleotide binding]; DNA binding site 668336006013 FadR C-terminal domain; Region: FadR_C; pfam07840 668336006014 aminotransferase AlaT; Validated; Region: PRK09265 668336006015 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 668336006016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 668336006017 homodimer interface [polypeptide binding]; other site 668336006018 catalytic residue [active] 668336006019 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 668336006020 chorismate binding enzyme; Region: Chorismate_bind; cl10555 668336006021 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 668336006022 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 668336006023 dimer interface [polypeptide binding]; other site 668336006024 tetramer interface [polypeptide binding]; other site 668336006025 PYR/PP interface [polypeptide binding]; other site 668336006026 TPP binding site [chemical binding]; other site 668336006027 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 668336006028 TPP-binding site; other site 668336006029 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 668336006030 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 668336006031 16S/18S rRNA binding site [nucleotide binding]; other site 668336006032 S13e-L30e interaction site [polypeptide binding]; other site 668336006033 25S rRNA binding site [nucleotide binding]; other site 668336006034 S-adenosylmethionine synthetase; Validated; Region: PRK05250 668336006035 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 668336006036 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 668336006037 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 668336006038 hypothetical protein; Provisional; Region: PRK04860 668336006039 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 668336006040 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 668336006041 serine transporter; Region: stp; TIGR00814 668336006042 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 668336006043 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 668336006044 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 668336006045 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 668336006046 active site 668336006047 homodimer interface [polypeptide binding]; other site 668336006048 homotetramer interface [polypeptide binding]; other site 668336006049 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 668336006050 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 668336006051 FeS/SAM binding site; other site 668336006052 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 668336006053 binding surface 668336006054 TPR motif; other site 668336006055 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 668336006056 Helix-turn-helix domain; Region: HTH_25; pfam13413 668336006057 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 668336006058 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 668336006059 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 668336006060 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 668336006061 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 668336006062 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 668336006063 dimer interface [polypeptide binding]; other site 668336006064 motif 1; other site 668336006065 active site 668336006066 motif 2; other site 668336006067 motif 3; other site 668336006068 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 668336006069 anticodon binding site; other site 668336006070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 668336006071 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 668336006072 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 668336006073 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 668336006074 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 668336006075 uracil-xanthine permease; Region: ncs2; TIGR00801 668336006076 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 668336006077 active site 668336006078 periplasmic folding chaperone; Provisional; Region: PRK10788 668336006079 SurA N-terminal domain; Region: SurA_N_3; cl07813 668336006080 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 668336006081 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 668336006082 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 668336006083 ATP-grasp domain; Region: ATP-grasp_4; cl17255 668336006084 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 668336006085 Sulfatase; Region: Sulfatase; pfam00884 668336006086 Clp protease; Region: CLP_protease; pfam00574 668336006087 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 668336006088 oligomer interface [polypeptide binding]; other site 668336006089 active site residues [active] 668336006090 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 668336006091 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 668336006092 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 668336006093 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 668336006094 Walker A motif; other site 668336006095 ATP binding site [chemical binding]; other site 668336006096 Walker B motif; other site 668336006097 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 668336006098 Helix-turn-helix domain; Region: HTH_37; pfam13744 668336006099 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 668336006100 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 668336006101 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 668336006102 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 668336006103 metal-binding site [ion binding] 668336006104 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 668336006105 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 668336006106 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 668336006107 metal-binding site [ion binding] 668336006108 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 668336006109 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 668336006110 DNA binding residues [nucleotide binding] 668336006111 dimer interface [polypeptide binding]; other site 668336006112 copper binding site [ion binding]; other site 668336006113 Methyltransferase domain; Region: Methyltransf_26; pfam13659 668336006114 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 668336006115 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 668336006116 homodimer interaction site [polypeptide binding]; other site 668336006117 cofactor binding site; other site 668336006118 RelB antitoxin; Region: RelB; cl01171 668336006119 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 668336006120 UbiA prenyltransferase family; Region: UbiA; pfam01040 668336006121 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 668336006122 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 668336006123 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 668336006124 hypothetical protein; Provisional; Region: PRK05255 668336006125 peptidase PmbA; Provisional; Region: PRK11040 668336006126 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 668336006127 active site 668336006128 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 668336006129 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 668336006130 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 668336006131 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 668336006132 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 668336006133 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 668336006134 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 668336006135 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 668336006136 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 668336006137 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 668336006138 ATP binding site [chemical binding]; other site 668336006139 Mg++ binding site [ion binding]; other site 668336006140 motif III; other site 668336006141 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 668336006142 nucleotide binding region [chemical binding]; other site 668336006143 ATP-binding site [chemical binding]; other site 668336006144 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 668336006145 putative RNA binding site [nucleotide binding]; other site 668336006146 lipoprotein NlpI; Provisional; Region: PRK11189 668336006147 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 668336006148 binding surface 668336006149 TPR motif; other site 668336006150 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 668336006151 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 668336006152 RNase E interface [polypeptide binding]; other site 668336006153 trimer interface [polypeptide binding]; other site 668336006154 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 668336006155 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 668336006156 RNase E interface [polypeptide binding]; other site 668336006157 trimer interface [polypeptide binding]; other site 668336006158 active site 668336006159 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 668336006160 putative nucleic acid binding region [nucleotide binding]; other site 668336006161 G-X-X-G motif; other site 668336006162 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 668336006163 RNA binding site [nucleotide binding]; other site 668336006164 domain interface; other site 668336006165 Domain of unknown function (DUF386); Region: DUF386; pfam04074 668336006166 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 668336006167 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 668336006168 amidase catalytic site [active] 668336006169 Zn binding residues [ion binding]; other site 668336006170 substrate binding site [chemical binding]; other site 668336006171 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 668336006172 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 668336006173 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 668336006174 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 668336006175 Walker A motif; other site 668336006176 ATP binding site [chemical binding]; other site 668336006177 Walker B motif; other site 668336006178 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 668336006179 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 668336006180 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 668336006181 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 668336006182 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 668336006183 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 668336006184 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 668336006185 CoA-binding site [chemical binding]; other site 668336006186 ATP-binding [chemical binding]; other site 668336006187 DNA gyrase inhibitor; Reviewed; Region: PRK00418 668336006188 Predicted acetyltransferase [General function prediction only]; Region: COG2388 668336006189 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 668336006190 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 668336006191 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 668336006192 30S subunit binding site; other site 668336006193 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 668336006194 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 668336006195 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 668336006196 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 668336006197 FMN binding site [chemical binding]; other site 668336006198 active site 668336006199 catalytic residues [active] 668336006200 substrate binding site [chemical binding]; other site 668336006201 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 668336006202 Methyltransferase domain; Region: Methyltransf_18; pfam12847 668336006203 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 668336006204 Fic/DOC family; Region: Fic; cl00960 668336006205 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 668336006206 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 668336006207 Na binding site [ion binding]; other site 668336006208 Predicted membrane protein [Function unknown]; Region: COG3924 668336006209 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 668336006210 TPR motif; other site 668336006211 binding surface 668336006212 Protein of unknown function (DUF560); Region: DUF560; pfam04575 668336006213 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 668336006214 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 668336006215 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 668336006216 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 668336006217 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 668336006218 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 668336006219 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 668336006220 carboxyltransferase (CT) interaction site; other site 668336006221 biotinylation site [posttranslational modification]; other site 668336006222 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 668336006223 Dehydroquinase class II; Region: DHquinase_II; pfam01220 668336006224 active site 668336006225 trimer interface [polypeptide binding]; other site 668336006226 dimer interface [polypeptide binding]; other site 668336006227 O-succinylbenzoate synthase; Provisional; Region: PRK05105 668336006228 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 668336006229 active site 668336006230 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 668336006231 active site 668336006232 NTP binding site [chemical binding]; other site 668336006233 metal binding triad [ion binding]; metal-binding site 668336006234 antibiotic binding site [chemical binding]; other site 668336006235 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 668336006236 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 668336006237 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 668336006238 substrate binding site [chemical binding]; other site 668336006239 oxyanion hole (OAH) forming residues; other site 668336006240 trimer interface [polypeptide binding]; other site 668336006241 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 668336006242 triosephosphate isomerase; Provisional; Region: PRK14567 668336006243 substrate binding site [chemical binding]; other site 668336006244 dimer interface [polypeptide binding]; other site 668336006245 catalytic triad [active] 668336006246 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 668336006247 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 668336006248 FeS/SAM binding site; other site 668336006249 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 668336006250 Der GTPase activator; Provisional; Region: PRK05244 668336006251 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 668336006252 nucleoside/Zn binding site; other site 668336006253 dimer interface [polypeptide binding]; other site 668336006254 catalytic motif [active] 668336006255 thymidylate synthase; Reviewed; Region: thyA; PRK01827 668336006256 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 668336006257 dimerization interface [polypeptide binding]; other site 668336006258 active site 668336006259 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 668336006260 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 668336006261 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 668336006262 putative active site [active] 668336006263 Ap4A binding site [chemical binding]; other site 668336006264 nudix motif; other site 668336006265 putative metal binding site [ion binding]; other site 668336006266 D-ribose pyranase; Provisional; Region: PRK11797 668336006267 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 668336006268 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 668336006269 Walker A/P-loop; other site 668336006270 ATP binding site [chemical binding]; other site 668336006271 Q-loop/lid; other site 668336006272 ABC transporter signature motif; other site 668336006273 Walker B; other site 668336006274 D-loop; other site 668336006275 H-loop/switch region; other site 668336006276 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 668336006277 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 668336006278 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 668336006279 TM-ABC transporter signature motif; other site 668336006280 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 668336006281 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 668336006282 ligand binding site [chemical binding]; other site 668336006283 dimerization interface [polypeptide binding]; other site 668336006284 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 668336006285 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 668336006286 substrate binding site [chemical binding]; other site 668336006287 dimer interface [polypeptide binding]; other site 668336006288 ATP binding site [chemical binding]; other site 668336006289 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 668336006290 DNA-binding site [nucleotide binding]; DNA binding site 668336006291 RNA-binding motif; other site 668336006292 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 668336006293 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 668336006294 HIGH motif; other site 668336006295 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 668336006296 active site 668336006297 KMSKS motif; other site 668336006298 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 668336006299 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 668336006300 argininosuccinate lyase; Provisional; Region: PRK04833 668336006301 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 668336006302 active sites [active] 668336006303 tetramer interface [polypeptide binding]; other site 668336006304 glutamate dehydrogenase; Provisional; Region: PRK09414 668336006305 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 668336006306 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 668336006307 NAD(P) binding site [chemical binding]; other site 668336006308 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 668336006309 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 668336006310 tetramer interface [polypeptide binding]; other site 668336006311 heme binding pocket [chemical binding]; other site 668336006312 NADPH binding site [chemical binding]; other site 668336006313 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 668336006314 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 668336006315 putative active site [active] 668336006316 putative PHP Thumb interface [polypeptide binding]; other site 668336006317 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 668336006318 generic binding surface I; other site 668336006319 generic binding surface II; other site 668336006320 Putative FMN-binding domain; Region: FMN_bind_2; cl17803 668336006321 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 668336006322 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 668336006323 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 668336006324 acyl-activating enzyme (AAE) consensus motif; other site 668336006325 putative AMP binding site [chemical binding]; other site 668336006326 putative active site [active] 668336006327 putative CoA binding site [chemical binding]; other site 668336006328 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 668336006329 trimer interface [polypeptide binding]; other site 668336006330 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 668336006331 trimer interface [polypeptide binding]; other site 668336006332 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 668336006333 trimer interface [polypeptide binding]; other site 668336006334 YadA-like C-terminal region; Region: YadA; pfam03895 668336006335 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 668336006336 ATP cone domain; Region: ATP-cone; pfam03477 668336006337 Class III ribonucleotide reductase; Region: RNR_III; cd01675 668336006338 effector binding site; other site 668336006339 active site 668336006340 Zn binding site [ion binding]; other site 668336006341 glycine loop; other site 668336006342 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 668336006343 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 668336006344 FeS/SAM binding site; other site 668336006345 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 668336006346 active site 668336006347 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 668336006348 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 668336006349 substrate binding site [chemical binding]; other site 668336006350 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 668336006351 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 668336006352 active site 668336006353 HIGH motif; other site 668336006354 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 668336006355 KMSKS motif; other site 668336006356 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 668336006357 tRNA binding surface [nucleotide binding]; other site 668336006358 anticodon binding site; other site 668336006359 lipoyl synthase; Provisional; Region: PRK05481 668336006360 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 668336006361 FeS/SAM binding site; other site 668336006362 lipoate-protein ligase B; Provisional; Region: PRK14342 668336006363 hypothetical protein; Provisional; Region: PRK04998 668336006364 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 668336006365 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 668336006366 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 668336006367 rare lipoprotein A; Region: rlpA; TIGR00413 668336006368 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 668336006369 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 668336006370 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 668336006371 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 668336006372 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 668336006373 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 668336006374 Oligomerisation domain; Region: Oligomerisation; cl00519 668336006375 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 668336006376 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 668336006377 ATP binding site [chemical binding]; other site 668336006378 Mg++ binding site [ion binding]; other site 668336006379 motif III; other site 668336006380 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 668336006381 nucleotide binding region [chemical binding]; other site 668336006382 ATP-binding site [chemical binding]; other site 668336006383 transcription termination factor Rho; Provisional; Region: rho; PRK09376 668336006384 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 668336006385 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 668336006386 RNA binding site [nucleotide binding]; other site 668336006387 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 668336006388 multimer interface [polypeptide binding]; other site 668336006389 Walker A motif; other site 668336006390 ATP binding site [chemical binding]; other site 668336006391 Walker B motif; other site 668336006392 benzoate transport; Region: 2A0115; TIGR00895 668336006393 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 668336006394 putative substrate translocation pore; other site 668336006395 acyl carrier protein; Provisional; Region: acpP; PRK00982 668336006396 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 668336006397 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 668336006398 NAD(P) binding site [chemical binding]; other site 668336006399 homotetramer interface [polypeptide binding]; other site 668336006400 homodimer interface [polypeptide binding]; other site 668336006401 active site 668336006402 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 668336006403 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 668336006404 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 668336006405 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 668336006406 dimer interface [polypeptide binding]; other site 668336006407 active site 668336006408 CoA binding pocket [chemical binding]; other site 668336006409 putative phosphate acyltransferase; Provisional; Region: PRK05331 668336006410 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 668336006411 hypothetical protein; Provisional; Region: PRK11193 668336006412 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 668336006413 AAA domain; Region: AAA_26; pfam13500 668336006414 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 668336006415 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 668336006416 S-adenosylmethionine binding site [chemical binding]; other site 668336006417 Protein of unknown function (DUF452); Region: DUF452; cl01062 668336006418 Putative phage tail protein; Region: Phage-tail_3; pfam13550 668336006419 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 668336006420 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 668336006421 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 668336006422 tape measure domain; Region: tape_meas_nterm; TIGR02675 668336006423 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 668336006424 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 668336006425 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 668336006426 Mu-like prophage I protein [General function prediction only]; Region: COG4388 668336006427 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 668336006428 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 668336006429 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 668336006430 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 668336006431 Protein of unknown function (DUF935); Region: DUF935; pfam06074 668336006432 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 668336006433 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 668336006434 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 668336006435 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 668336006436 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 668336006437 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 668336006438 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 668336006439 amidase catalytic site [active] 668336006440 Zn binding residues [ion binding]; other site 668336006441 substrate binding site [chemical binding]; other site 668336006442 Uncharacterized conserved protein [Function unknown]; Region: COG5566 668336006443 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 668336006444 HD domain; Region: HD_3; cl17350 668336006445 Initiator Replication protein; Region: Rep_3; pfam01051 668336006446 RelB antitoxin; Region: RelB; cl01171 668336006447 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 668336006448 N-acetyl-D-glucosamine binding site [chemical binding]; other site 668336006449 catalytic residue [active] 668336006450 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 668336006451 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 668336006452 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 668336006453 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 668336006454 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 668336006455 Type IV secretion system proteins; Region: T4SS; pfam07996 668336006456 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 668336006457 VirB8 protein; Region: VirB8; pfam04335 668336006458 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 668336006459 VirB7 interaction site; other site 668336006460 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 668336006461 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 668336006462 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 668336006463 Walker A motif; other site 668336006464 hexamer interface [polypeptide binding]; other site 668336006465 ATP binding site [chemical binding]; other site 668336006466 Walker B motif; other site 668336006467 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 668336006468 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 668336006469 Walker A motif; other site 668336006470 ATP binding site [chemical binding]; other site 668336006471 Walker B motif; other site 668336006472 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 668336006473 TrbM; Region: TrbM; pfam07424 668336006474 TrbM; Region: TrbM; pfam07424 668336006475 multiple promoter invertase; Provisional; Region: mpi; PRK13413 668336006476 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 668336006477 catalytic residues [active] 668336006478 catalytic nucleophile [active] 668336006479 Presynaptic Site I dimer interface [polypeptide binding]; other site 668336006480 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 668336006481 Synaptic Flat tetramer interface [polypeptide binding]; other site 668336006482 Synaptic Site I dimer interface [polypeptide binding]; other site 668336006483 DNA binding site [nucleotide binding] 668336006484 Mga helix-turn-helix domain; Region: Mga; pfam05043 668336006485 DNA topoisomerase III; Provisional; Region: PRK07726 668336006486 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 668336006487 active site 668336006488 putative interdomain interaction site [polypeptide binding]; other site 668336006489 putative metal-binding site [ion binding]; other site 668336006490 putative nucleotide binding site [chemical binding]; other site 668336006491 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; cl11986 668336006492 domain I; other site 668336006493 DNA binding groove [nucleotide binding] 668336006494 phosphate binding site [ion binding]; other site 668336006495 domain II; other site 668336006496 domain III; other site 668336006497 nucleotide binding site [chemical binding]; other site 668336006498 catalytic site [active] 668336006499 domain IV; other site 668336006500 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 668336006501 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 668336006502 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 668336006503 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 668336006504 dimer interface [polypeptide binding]; other site 668336006505 ssDNA binding site [nucleotide binding]; other site 668336006506 tetramer (dimer of dimers) interface [polypeptide binding]; other site 668336006507 AAA domain; Region: AAA_31; pfam13614 668336006508 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 668336006509 P-loop; other site 668336006510 Magnesium ion binding site [ion binding]; other site 683735006511 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 683735006512 aromatic chitin/cellulose binding site residues [chemical binding]; other site 683735006513 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 683735006514 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 683735006515 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 683735006516 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 683735006517 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 683735006518 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 683735006519 Protein of unknown function (DUF2669); Region: DUF2669; pfam10876 683735006520 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 683735006521 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 683735006522 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 683735006523 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 683735006524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 683735006525 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 683735006526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 683735006527 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 683735006528 HD domain; Region: HD_4; pfam13328 683735006529 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 683735006530 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 683735006531 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 683735006532 thioester formation/cholesterol transfer; other site 683735006533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567 683735006534 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 683735006535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 683735006536 Terminase-like family; Region: Terminase_6; pfam03237 683735006537 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 683735006538 Terminase small subunit; Region: Terminase_2; pfam03592 683735006539 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 683735006540 Predicted chitinase [General function prediction only]; Region: COG3179 683735006541 catalytic residue [active] 683735006542 Prophage antirepressor [Transcription]; Region: COG3617 683735006543 BRO family, N-terminal domain; Region: Bro-N; smart01040 683735006544 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 683735006545 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 683735006546 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 683735006547 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 683735006548 G1 box; other site 683735006549 GTP/Mg2+ binding site [chemical binding]; other site 683735006550 NinB protein; Region: NinB; pfam05772 683735006551 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 683735006552 Replication protein P; Region: Phage_lambda_P; pfam06992 683735006553 Helix-turn-helix domain; Region: HTH_36; pfam13730 683735006554 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 683735006555 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 683735006556 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 683735006557 non-specific DNA binding site [nucleotide binding]; other site 683735006558 salt bridge; other site 683735006559 sequence-specific DNA binding site [nucleotide binding]; other site 683735006560 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 683735006561 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 683735006562 non-specific DNA binding site [nucleotide binding]; other site 683735006563 salt bridge; other site 683735006564 sequence-specific DNA binding site [nucleotide binding]; other site 683735006565 Predicted transcriptional regulator [Transcription]; Region: COG2932 683735006566 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 683735006567 Catalytic site [active] 683735006568 AIPR protein; Region: AIPR; pfam10592 683735006569 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 683735006570 Prophage antirepressor [Transcription]; Region: COG3617 683735006571 BRO family, N-terminal domain; Region: Bro-N; smart01040 683735006572 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 683735006573 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 683735006574 AAA domain; Region: AAA_24; pfam13479 683735006575 integrase; Provisional; Region: int; PHA02601 683735006576 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 683735006577 Int/Topo IB signature motif; other site 668336006578 TrbC/VIRB2 family; Region: TrbC; cl01583 668336006579 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 668336006580 N-acetyl-D-glucosamine binding site [chemical binding]; other site 668336006581 catalytic residue [active] 668336006582 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 668336006583 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 668336006584 dimer interface [polypeptide binding]; other site 668336006585 ssDNA binding site [nucleotide binding]; other site 668336006586 tetramer (dimer of dimers) interface [polypeptide binding]; other site 668336006587 multiple promoter invertase; Provisional; Region: mpi; PRK13413 668336006588 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 668336006589 catalytic residues [active] 668336006590 catalytic nucleophile [active] 668336006591 Presynaptic Site I dimer interface [polypeptide binding]; other site 668336006592 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 668336006593 Synaptic Flat tetramer interface [polypeptide binding]; other site 668336006594 Synaptic Site I dimer interface [polypeptide binding]; other site 668336006595 DNA binding site [nucleotide binding] 668336006596 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; cd00569 668336006597 DNA-binding interface [nucleotide binding]; DNA binding site 668336006598 ribonuclease E; Reviewed; Region: rne; PRK10811 668336006599 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 668336006600 RelB antitoxin; Region: RelB; cl01171 668336006601 Fic family protein [Function unknown]; Region: COG3177 668336006602 ParA-like protein; Provisional; Region: PHA02518 668336006603 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 668336006604 P-loop; other site 668336006605 Magnesium ion binding site [ion binding]; other site 668336006606 TrbM; Region: TrbM; pfam07424 668336006607 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 668336006608 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 668336006609 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 668336006610 Walker A motif; other site 668336006611 ATP binding site [chemical binding]; other site 668336006612 Walker B motif; other site 668336006613 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 668336006614 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 668336006615 Walker A motif; other site 668336006616 hexamer interface [polypeptide binding]; other site 668336006617 ATP binding site [chemical binding]; other site 668336006618 Walker B motif; other site 668336006619 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 668336006620 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 668336006621 VirB7 interaction site; other site 668336006622 VirB8 protein; Region: VirB8; pfam04335 668336006623 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 668336006624 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 668336006625 Type IV secretion system proteins; Region: T4SS; pfam07996 668336006626 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 668336006627 AAA-like domain; Region: AAA_10; pfam12846