-- dump date 20140619_135355 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1249531000001 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1249531000002 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1249531000003 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1249531000004 selenocysteine synthase; Provisional; Region: PRK04311 1249531000005 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1249531000006 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1249531000007 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249531000008 catalytic residue [active] 1249531000009 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1249531000010 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 1249531000011 putative active site cavity [active] 1249531000012 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1249531000013 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249531000014 nucleotide binding site [chemical binding]; other site 1249531000015 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1249531000016 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1249531000017 inhibitor site; inhibition site 1249531000018 active site 1249531000019 dimer interface [polypeptide binding]; other site 1249531000020 catalytic residue [active] 1249531000021 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 1249531000022 sequence-specific DNA binding site [nucleotide binding]; other site 1249531000023 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249531000024 salt bridge; other site 1249531000025 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 1249531000026 Catalytic site [active] 1249531000027 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1249531000028 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1249531000029 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1249531000030 Phage tail tube protein; Region: Tail_tube; pfam10618 1249531000031 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1249531000032 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 1249531000033 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1249531000034 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249531000035 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249531000036 peptide binding site [polypeptide binding]; other site 1249531000037 FMN-binding protein MioC; Provisional; Region: PRK09004 1249531000038 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1249531000039 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 1249531000040 dimerization interface [polypeptide binding]; other site 1249531000041 putative DNA binding site [nucleotide binding]; other site 1249531000042 putative Zn2+ binding site [ion binding]; other site 1249531000043 AsnC family; Region: AsnC_trans_reg; pfam01037 1249531000044 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 1249531000045 dimer interface [polypeptide binding]; other site 1249531000046 active site 1249531000047 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1249531000048 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1249531000049 gamma subunit interface [polypeptide binding]; other site 1249531000050 epsilon subunit interface [polypeptide binding]; other site 1249531000051 LBP interface [polypeptide binding]; other site 1249531000052 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1249531000053 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1249531000054 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 1249531000055 alpha subunit interaction interface [polypeptide binding]; other site 1249531000056 Walker A motif; other site 1249531000057 ATP binding site [chemical binding]; other site 1249531000058 Walker B motif; other site 1249531000059 inhibitor binding site; inhibition site 1249531000060 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1249531000061 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1249531000062 core domain interface [polypeptide binding]; other site 1249531000063 delta subunit interface [polypeptide binding]; other site 1249531000064 epsilon subunit interface [polypeptide binding]; other site 1249531000065 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1249531000066 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1249531000067 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 1249531000068 beta subunit interaction interface [polypeptide binding]; other site 1249531000069 Walker A motif; other site 1249531000070 ATP binding site [chemical binding]; other site 1249531000071 Walker B motif; other site 1249531000072 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1249531000073 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1249531000074 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1249531000075 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1249531000076 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1249531000077 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1249531000078 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1249531000079 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1249531000080 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 1249531000081 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1249531000082 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1249531000083 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1249531000084 catalytic site [active] 1249531000085 subunit interface [polypeptide binding]; other site 1249531000086 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1249531000087 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249531000088 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1249531000089 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1249531000090 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249531000091 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249531000092 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1249531000093 IMP binding site; other site 1249531000094 dimer interface [polypeptide binding]; other site 1249531000095 interdomain contacts; other site 1249531000096 partial ornithine binding site; other site 1249531000097 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1249531000098 substrate binding site [chemical binding]; other site 1249531000099 Mn binding site [ion binding]; other site 1249531000100 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 1249531000101 Domain of unknown function (DUF386); Region: DUF386; cl01047 1249531000102 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1249531000103 DctM-like transporters; Region: DctM; pfam06808 1249531000104 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1249531000105 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1249531000106 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1249531000107 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1249531000108 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1249531000109 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249531000110 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249531000111 Walker A/P-loop; other site 1249531000112 ATP binding site [chemical binding]; other site 1249531000113 Q-loop/lid; other site 1249531000114 ABC transporter signature motif; other site 1249531000115 Walker B; other site 1249531000116 D-loop; other site 1249531000117 H-loop/switch region; other site 1249531000118 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249531000119 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 1249531000120 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249531000121 TM-ABC transporter signature motif; other site 1249531000122 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249531000123 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249531000124 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1249531000125 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1249531000126 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1249531000127 putative N- and C-terminal domain interface [polypeptide binding]; other site 1249531000128 putative active site [active] 1249531000129 MgATP binding site [chemical binding]; other site 1249531000130 catalytic site [active] 1249531000131 metal binding site [ion binding]; metal-binding site 1249531000132 putative xylulose binding site [chemical binding]; other site 1249531000133 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1249531000134 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1249531000135 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 1249531000136 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 1249531000137 putative substrate translocation pore; other site 1249531000138 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 1249531000139 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1249531000140 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1249531000141 active site 1249531000142 catalytic site [active] 1249531000143 metal binding site [ion binding]; metal-binding site 1249531000144 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1249531000145 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 1249531000146 putative substrate translocation pore; other site 1249531000147 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 1249531000148 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1249531000149 active site 1249531000150 catalytic tetrad [active] 1249531000151 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 1249531000152 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1249531000153 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1249531000154 inhibitor binding site; inhibition site 1249531000155 active site 1249531000156 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1249531000157 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1249531000158 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1249531000159 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 1249531000160 S-adenosylmethionine binding site [chemical binding]; other site 1249531000161 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1249531000162 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1249531000163 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1249531000164 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1249531000165 hypothetical protein; Provisional; Region: PRK01752 1249531000166 SEC-C motif; Region: SEC-C; pfam02810 1249531000167 SEC-C motif; Region: SEC-C; pfam02810 1249531000168 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1249531000169 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1249531000170 putative metal binding site [ion binding]; other site 1249531000171 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1249531000172 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1249531000173 Walker A/P-loop; other site 1249531000174 ATP binding site [chemical binding]; other site 1249531000175 Q-loop/lid; other site 1249531000176 ABC transporter signature motif; other site 1249531000177 Walker B; other site 1249531000178 D-loop; other site 1249531000179 H-loop/switch region; other site 1249531000180 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1249531000181 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1249531000182 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1249531000183 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1249531000184 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1249531000185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1249531000186 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1249531000187 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249531000188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1249531000189 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1249531000190 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1249531000191 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1249531000192 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1249531000193 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1249531000194 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1249531000195 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1249531000196 active site 1249531000197 homodimer interface [polypeptide binding]; other site 1249531000198 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 1249531000199 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1249531000200 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1249531000201 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1249531000202 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 1249531000203 P-loop; other site 1249531000204 Magnesium ion binding site [ion binding]; other site 1249531000205 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 1249531000206 Magnesium ion binding site [ion binding]; other site 1249531000207 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1249531000208 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 1249531000209 active site 1249531000210 substrate binding site [chemical binding]; other site 1249531000211 metal binding site [ion binding]; metal-binding site 1249531000212 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 1249531000213 active site 1249531000214 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 1249531000215 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1249531000216 Pathogenicity locus; Region: Cdd1; pfam11731 1249531000217 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 1249531000218 generic binding surface II; other site 1249531000219 ssDNA binding site; other site 1249531000220 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 1249531000221 ATP binding site [chemical binding]; other site 1249531000222 putative Mg++ binding site [ion binding]; other site 1249531000223 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 1249531000224 nucleotide binding region [chemical binding]; other site 1249531000225 ATP-binding site [chemical binding]; other site 1249531000226 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1249531000227 oligomeric interface; other site 1249531000228 homodimer interface [polypeptide binding]; other site 1249531000229 putative active site [active] 1249531000230 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1249531000231 heat shock protein 90; Provisional; Region: PRK05218 1249531000232 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 1249531000233 ATP binding site [chemical binding]; other site 1249531000234 Mg2+ binding site [ion binding]; other site 1249531000235 G-X-G motif; other site 1249531000236 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1249531000237 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 1249531000238 dimer interface [polypeptide binding]; other site 1249531000239 motif 1; other site 1249531000240 active site 1249531000241 motif 2; other site 1249531000242 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 1249531000243 putative deacylase active site [active] 1249531000244 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 1249531000245 active site 1249531000246 motif 3; other site 1249531000247 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 1249531000248 anticodon binding site; other site 1249531000249 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 1249531000250 motif II; other site 1249531000251 uridine phosphorylase; Provisional; Region: PRK11178 1249531000252 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1249531000253 Chorismate lyase; Region: Chor_lyase; cl01230 1249531000254 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1249531000255 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249531000256 glutamate racemase; Provisional; Region: PRK00865 1249531000257 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1249531000258 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 1249531000259 active site 1249531000260 Int/Topo IB signature motif; other site 1249531000261 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1249531000262 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 1249531000263 Ligand Binding Site [chemical binding]; other site 1249531000264 TilS substrate binding domain; Region: TilS; pfam09179 1249531000265 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1249531000266 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1249531000267 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1249531000268 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1249531000269 G1 box; other site 1249531000270 GTP/Mg2+ binding site [chemical binding]; other site 1249531000271 Switch I region; other site 1249531000272 G2 box; other site 1249531000273 Switch II region; other site 1249531000274 G3 box; other site 1249531000275 G4 box; other site 1249531000276 G5 box; other site 1249531000277 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1249531000278 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531000279 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531000280 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 1249531000281 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 1249531000282 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249531000283 catalytic residues [active] 1249531000284 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1249531000285 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249531000286 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1249531000287 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1249531000288 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1249531000289 MutS domain I; Region: MutS_I; pfam01624 1249531000290 MutS domain II; Region: MutS_II; pfam05188 1249531000291 MutS domain III; Region: MutS_III; pfam05192 1249531000292 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1249531000293 Walker A/P-loop; other site 1249531000294 ATP binding site [chemical binding]; other site 1249531000295 Q-loop/lid; other site 1249531000296 ABC transporter signature motif; other site 1249531000297 Walker B; other site 1249531000298 D-loop; other site 1249531000299 H-loop/switch region; other site 1249531000300 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1249531000301 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1249531000302 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1249531000303 active site 1249531000304 intersubunit interface [polypeptide binding]; other site 1249531000305 catalytic residue [active] 1249531000306 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249531000307 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1249531000308 substrate binding site [chemical binding]; other site 1249531000309 ATP binding site [chemical binding]; other site 1249531000310 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1249531000311 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 1249531000312 putative NAD(P) binding site [chemical binding]; other site 1249531000313 active site 1249531000314 DctM-like transporters; Region: DctM; pfam06808 1249531000315 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1249531000316 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1249531000317 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1249531000318 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1249531000319 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1249531000320 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1249531000321 putative NAD(P) binding site [chemical binding]; other site 1249531000322 catalytic Zn binding site [ion binding]; other site 1249531000323 structural Zn binding site [ion binding]; other site 1249531000324 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1249531000325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249531000326 DNA-binding site [nucleotide binding]; DNA binding site 1249531000327 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1249531000328 mannonate dehydratase; Provisional; Region: PRK03906 1249531000329 mannonate dehydratase; Region: uxuA; TIGR00695 1249531000330 EamA-like transporter family; Region: EamA; cl17759 1249531000331 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1249531000332 EamA-like transporter family; Region: EamA; pfam00892 1249531000333 Oligomerisation domain; Region: Oligomerisation; cl00519 1249531000334 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 1249531000335 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1249531000336 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1249531000337 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1249531000338 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1249531000339 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1249531000340 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1249531000341 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1249531000342 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1249531000343 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1249531000344 hypothetical protein; Provisional; Region: PRK04998 1249531000345 lipoate-protein ligase B; Provisional; Region: PRK14342 1249531000346 lipoyl synthase; Provisional; Region: PRK05481 1249531000347 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 1249531000348 FeS/SAM binding site; other site 1249531000349 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249531000350 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1249531000351 intersubunit interface [polypeptide binding]; other site 1249531000352 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1249531000353 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249531000354 ABC transporter signature motif; other site 1249531000355 Walker B; other site 1249531000356 D-loop; other site 1249531000357 H-loop/switch region; other site 1249531000358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531000359 Walker A/P-loop; other site 1249531000360 ATP binding site [chemical binding]; other site 1249531000361 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531000362 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531000363 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531000364 Integrase core domain; Region: rve; pfam00665 1249531000365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531000366 Integrase core domain; Region: rve_3; pfam13683 1249531000367 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249531000368 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 1249531000369 ABC-ATPase subunit interface; other site 1249531000370 dimer interface [polypeptide binding]; other site 1249531000371 putative PBP binding regions; other site 1249531000372 Protein of unknown function, DUF479; Region: DUF479; cl01203 1249531000373 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1249531000374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531000375 Walker A/P-loop; other site 1249531000376 ATP binding site [chemical binding]; other site 1249531000377 Q-loop/lid; other site 1249531000378 ABC transporter signature motif; other site 1249531000379 Walker B; other site 1249531000380 D-loop; other site 1249531000381 H-loop/switch region; other site 1249531000382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531000383 Walker A/P-loop; other site 1249531000384 ATP binding site [chemical binding]; other site 1249531000385 Q-loop/lid; other site 1249531000386 ABC transporter signature motif; other site 1249531000387 Walker B; other site 1249531000388 D-loop; other site 1249531000389 H-loop/switch region; other site 1249531000390 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1249531000391 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1249531000392 putative active site [active] 1249531000393 substrate binding site [chemical binding]; other site 1249531000394 putative cosubstrate binding site; other site 1249531000395 catalytic site [active] 1249531000396 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1249531000397 substrate binding site [chemical binding]; other site 1249531000398 hypothetical protein; Provisional; Region: PRK11568 1249531000399 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1249531000400 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1249531000401 Cation transport protein; Region: TrkH; cl17365 1249531000402 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1249531000403 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1249531000404 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1249531000405 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1249531000406 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1249531000407 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1249531000408 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1249531000409 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1249531000410 BCCT family transporter; Region: BCCT; pfam02028 1249531000411 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 1249531000412 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 1249531000413 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1249531000414 EamA-like transporter family; Region: EamA; pfam00892 1249531000415 poxB regulator PoxA; Provisional; Region: PRK09350 1249531000416 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 1249531000417 motif 1; other site 1249531000418 dimer interface [polypeptide binding]; other site 1249531000419 active site 1249531000420 motif 2; other site 1249531000421 motif 3; other site 1249531000422 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1249531000423 L-aspartate oxidase; Provisional; Region: PRK06175 1249531000424 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1249531000425 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1249531000426 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 1249531000427 catalytic loop [active] 1249531000428 iron binding site [ion binding]; other site 1249531000429 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 1249531000430 D-subunit interface [polypeptide binding]; other site 1249531000431 Iron-sulfur protein interface; other site 1249531000432 proximal quinone binding site [chemical binding]; other site 1249531000433 distal quinone binding site [chemical binding]; other site 1249531000434 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 1249531000435 Iron-sulfur protein interface; other site 1249531000436 proximal quinone binding site [chemical binding]; other site 1249531000437 C-subunit interface; other site 1249531000438 distal quinone binding site; other site 1249531000439 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1249531000440 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1249531000441 protease TldD; Provisional; Region: tldD; PRK10735 1249531000442 glutathionine S-transferase; Provisional; Region: PRK10542 1249531000443 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 1249531000444 C-terminal domain interface [polypeptide binding]; other site 1249531000445 GSH binding site (G-site) [chemical binding]; other site 1249531000446 dimer interface [polypeptide binding]; other site 1249531000447 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1249531000448 dimer interface [polypeptide binding]; other site 1249531000449 N-terminal domain interface [polypeptide binding]; other site 1249531000450 substrate binding pocket (H-site) [chemical binding]; other site 1249531000451 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1249531000452 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1249531000453 active site 1249531000454 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249531000455 substrate binding site [chemical binding]; other site 1249531000456 catalytic residues [active] 1249531000457 dimer interface [polypeptide binding]; other site 1249531000458 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1249531000459 Class II fumarases; Region: Fumarase_classII; cd01362 1249531000460 active site 1249531000461 tetramer interface [polypeptide binding]; other site 1249531000462 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1249531000463 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1249531000464 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1249531000465 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1249531000466 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1249531000467 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1249531000468 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1249531000469 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1249531000470 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1249531000471 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 1249531000472 protein-rRNA interface [nucleotide binding]; other site 1249531000473 putative translocon binding site; other site 1249531000474 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1249531000475 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 1249531000476 G-X-X-G motif; other site 1249531000477 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1249531000478 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 1249531000479 23S rRNA interface [nucleotide binding]; other site 1249531000480 5S rRNA interface [nucleotide binding]; other site 1249531000481 putative antibiotic binding site [chemical binding]; other site 1249531000482 L25 interface [polypeptide binding]; other site 1249531000483 L27 interface [polypeptide binding]; other site 1249531000484 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 1249531000485 23S rRNA interface [nucleotide binding]; other site 1249531000486 putative translocon interaction site; other site 1249531000487 signal recognition particle (SRP54) interaction site; other site 1249531000488 L23 interface [polypeptide binding]; other site 1249531000489 trigger factor interaction site; other site 1249531000490 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1249531000491 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1249531000492 Flavodoxin; Region: Flavodoxin_1; pfam00258 1249531000493 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1249531000494 FAD binding pocket [chemical binding]; other site 1249531000495 conserved FAD binding motif [chemical binding]; other site 1249531000496 phosphate binding motif [ion binding]; other site 1249531000497 beta-alpha-beta structure motif; other site 1249531000498 NAD binding pocket [chemical binding]; other site 1249531000499 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1249531000500 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1249531000501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1249531000502 Putative esterase; Region: Esterase; pfam00756 1249531000503 Domain of unknown function DUF302; Region: DUF302; cl01364 1249531000504 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1249531000505 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1249531000506 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1249531000507 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1249531000508 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1249531000509 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1249531000510 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 1249531000511 active site 1249531000512 dimer interface [polypeptide binding]; other site 1249531000513 magnesium binding site [ion binding]; other site 1249531000514 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 1249531000515 active site 1249531000516 phosphorylation site [posttranslational modification] 1249531000517 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1249531000518 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1249531000519 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249531000520 active site 1249531000521 metal binding site [ion binding]; metal-binding site 1249531000522 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 1249531000523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1249531000524 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 1249531000525 active site 1249531000526 P-loop; other site 1249531000527 phosphorylation site [posttranslational modification] 1249531000528 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1249531000529 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1249531000530 transcriptional repressor UlaR; Provisional; Region: PRK13509 1249531000531 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1249531000532 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249531000533 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1249531000534 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 1249531000535 AP (apurinic/apyrimidinic) site pocket; other site 1249531000536 DNA interaction; other site 1249531000537 Metal-binding active site; metal-binding site 1249531000538 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1249531000539 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 1249531000540 intersubunit interface [polypeptide binding]; other site 1249531000541 active site 1249531000542 Zn2+ binding site [ion binding]; other site 1249531000543 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1249531000544 catalytic triad [active] 1249531000545 putative active site [active] 1249531000546 autotransporter-associated beta strand repeat; Region: autotrns_rpt; TIGR02601 1249531000547 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249531000548 pyridoxamine kinase; Validated; Region: PRK05756 1249531000549 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 1249531000550 dimer interface [polypeptide binding]; other site 1249531000551 pyridoxal binding site [chemical binding]; other site 1249531000552 ATP binding site [chemical binding]; other site 1249531000553 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1249531000554 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1249531000555 FtsI repressor; Provisional; Region: PRK10883 1249531000556 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1249531000557 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1249531000558 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1249531000559 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1249531000560 putative acyl-acceptor binding pocket; other site 1249531000561 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 1249531000562 dimer interface [polypeptide binding]; other site 1249531000563 catalytic triad [active] 1249531000564 peroxidatic and resolving cysteines [active] 1249531000565 membrane protein insertase; Provisional; Region: PRK01318 1249531000566 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1249531000567 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 1249531000568 CoenzymeA binding site [chemical binding]; other site 1249531000569 subunit interaction site [polypeptide binding]; other site 1249531000570 PHB binding site; other site 1249531000571 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1249531000572 FAD binding domain; Region: FAD_binding_4; pfam01565 1249531000573 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1249531000574 outer membrane protein A; Reviewed; Region: PRK10808 1249531000575 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1249531000576 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249531000577 ligand binding site [chemical binding]; other site 1249531000578 Organiser of macrodomain of Terminus of chromosome; Region: MatP; pfam06303 1249531000579 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1249531000580 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1249531000581 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 1249531000582 active site 1 [active] 1249531000583 dimer interface [polypeptide binding]; other site 1249531000584 active site 2 [active] 1249531000585 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1249531000586 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1249531000587 NADP binding site [chemical binding]; other site 1249531000588 homopentamer interface [polypeptide binding]; other site 1249531000589 substrate binding site [chemical binding]; other site 1249531000590 active site 1249531000591 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 1249531000592 active site 1249531000593 catalytic residues [active] 1249531000594 metal binding site [ion binding]; metal-binding site 1249531000595 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1249531000596 DNA protecting protein DprA; Region: dprA; TIGR00732 1249531000597 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1249531000598 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1249531000599 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 1249531000600 active site 1249531000601 P-loop; other site 1249531000602 phosphorylation site [posttranslational modification] 1249531000603 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249531000604 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249531000605 DNA binding site [nucleotide binding] 1249531000606 domain linker motif; other site 1249531000607 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 1249531000608 putative ligand binding site [chemical binding]; other site 1249531000609 putative dimerization interface [polypeptide binding]; other site 1249531000610 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1249531000611 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1249531000612 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1249531000613 putative homodimer interface [polypeptide binding]; other site 1249531000614 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1249531000615 heterodimer interface [polypeptide binding]; other site 1249531000616 homodimer interface [polypeptide binding]; other site 1249531000617 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1249531000618 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 1249531000619 23S rRNA interface [nucleotide binding]; other site 1249531000620 L7/L12 interface [polypeptide binding]; other site 1249531000621 putative thiostrepton binding site; other site 1249531000622 L25 interface [polypeptide binding]; other site 1249531000623 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 1249531000624 mRNA/rRNA interface [nucleotide binding]; other site 1249531000625 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 1249531000626 dimer interface [polypeptide binding]; other site 1249531000627 active site 1249531000628 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 1249531000629 putative active site 1 [active] 1249531000630 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1249531000631 Divergent AAA domain; Region: AAA_4; pfam04326 1249531000632 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1249531000633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249531000634 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1249531000635 NAD(P) binding site [chemical binding]; other site 1249531000636 active site 1249531000637 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1249531000638 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 1249531000639 dimer interface [polypeptide binding]; other site 1249531000640 active site 1249531000641 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1249531000642 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1249531000643 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1249531000644 dimer interface [polypeptide binding]; other site 1249531000645 active site 1249531000646 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 1249531000647 23S rRNA interface [nucleotide binding]; other site 1249531000648 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1249531000649 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 1249531000650 core dimer interface [polypeptide binding]; other site 1249531000651 peripheral dimer interface [polypeptide binding]; other site 1249531000652 L10 interface [polypeptide binding]; other site 1249531000653 L11 interface [polypeptide binding]; other site 1249531000654 putative EF-Tu interaction site [polypeptide binding]; other site 1249531000655 putative EF-G interaction site [polypeptide binding]; other site 1249531000656 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1249531000657 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 1249531000658 Pyruvate formate lyase; Region: PFL; pfam02901 1249531000659 Pleckstrin homology-like domain; Region: PH-like; cl17171 1249531000660 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 1249531000661 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 1249531000662 FeS/SAM binding site; other site 1249531000663 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1249531000664 Nucleoside recognition; Region: Gate; pfam07670 1249531000665 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1249531000666 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1249531000667 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1249531000668 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1249531000669 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 1249531000670 FeS/SAM binding site; other site 1249531000671 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1249531000672 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1249531000673 SlyX; Region: SlyX; cl01090 1249531000674 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1249531000675 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1249531000676 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249531000677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1249531000678 YheO-like PAS domain; Region: PAS_6; pfam08348 1249531000679 HTH domain; Region: HTH_22; pfam13309 1249531000680 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1249531000681 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 1249531000682 DsrH like protein; Region: DsrH; cl17347 1249531000683 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1249531000684 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 1249531000685 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1249531000686 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 1249531000687 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1249531000688 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 1249531000689 RPB1 interaction site [polypeptide binding]; other site 1249531000690 RPB11 interaction site [polypeptide binding]; other site 1249531000691 RPB10 interaction site [polypeptide binding]; other site 1249531000692 RPB3 interaction site [polypeptide binding]; other site 1249531000693 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1249531000694 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1249531000695 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1249531000696 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1249531000697 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1249531000698 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1249531000699 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1249531000700 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1249531000701 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1249531000702 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1249531000703 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1249531000704 DNA binding site [nucleotide binding] 1249531000705 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1249531000706 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1249531000707 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1249531000708 putative active site [active] 1249531000709 putative NTP binding site [chemical binding]; other site 1249531000710 putative nucleic acid binding site [nucleotide binding]; other site 1249531000711 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1249531000712 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 1249531000713 inhibitor-cofactor binding pocket; inhibition site 1249531000714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531000715 catalytic residue [active] 1249531000716 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1249531000717 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 1249531000718 Mg++ binding site [ion binding]; other site 1249531000719 putative catalytic motif [active] 1249531000720 substrate binding site [chemical binding]; other site 1249531000721 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1249531000722 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1249531000723 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1249531000724 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1249531000725 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1249531000726 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1249531000727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249531000728 Coenzyme A binding pocket [chemical binding]; other site 1249531000729 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1249531000730 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1249531000731 inhibitor-cofactor binding pocket; inhibition site 1249531000732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531000733 catalytic residue [active] 1249531000734 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1249531000735 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 1249531000736 glutamine synthetase; Provisional; Region: glnA; PRK09469 1249531000737 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1249531000738 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1249531000739 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 1249531000740 WzyE protein; Region: WzyE; cl11643 1249531000741 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1249531000742 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1249531000743 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531000744 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531000745 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531000746 Integrase core domain; Region: rve; pfam00665 1249531000747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531000748 Integrase core domain; Region: rve_3; pfam13683 1249531000749 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 1249531000750 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249531000751 eyelet of channel; other site 1249531000752 trimer interface [polypeptide binding]; other site 1249531000753 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1249531000754 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1249531000755 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1249531000756 putative inner membrane peptidase; Provisional; Region: PRK11778 1249531000757 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1249531000758 tandem repeat interface [polypeptide binding]; other site 1249531000759 oligomer interface [polypeptide binding]; other site 1249531000760 active site residues [active] 1249531000761 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531000762 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531000763 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531000764 Integrase core domain; Region: rve; pfam00665 1249531000765 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531000766 Integrase core domain; Region: rve_3; pfam13683 1249531000767 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1249531000768 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1249531000769 RNA polymerase sigma factor; Provisional; Region: PRK12530 1249531000770 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249531000771 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 1249531000772 DNA binding residues [nucleotide binding] 1249531000773 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1249531000774 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531000775 Walker A/P-loop; other site 1249531000776 ATP binding site [chemical binding]; other site 1249531000777 Q-loop/lid; other site 1249531000778 ABC transporter signature motif; other site 1249531000779 Walker B; other site 1249531000780 D-loop; other site 1249531000781 H-loop/switch region; other site 1249531000782 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1249531000783 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1249531000784 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531000785 Walker A/P-loop; other site 1249531000786 ATP binding site [chemical binding]; other site 1249531000787 Q-loop/lid; other site 1249531000788 ABC transporter signature motif; other site 1249531000789 Walker B; other site 1249531000790 D-loop; other site 1249531000791 H-loop/switch region; other site 1249531000792 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1249531000793 dipeptide transporter; Provisional; Region: PRK10913 1249531000794 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1249531000795 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 1249531000796 dimer interface [polypeptide binding]; other site 1249531000797 conserved gate region; other site 1249531000798 putative PBP binding loops; other site 1249531000799 ABC-ATPase subunit interface; other site 1249531000800 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1249531000801 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 1249531000802 dimer interface [polypeptide binding]; other site 1249531000803 conserved gate region; other site 1249531000804 putative PBP binding loops; other site 1249531000805 ABC-ATPase subunit interface; other site 1249531000806 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249531000807 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249531000808 peptide binding site [polypeptide binding]; other site 1249531000809 DNA replication initiation factor; Validated; Region: PRK06893 1249531000810 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1249531000811 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1249531000812 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1249531000813 Walker A/P-loop; other site 1249531000814 ATP binding site [chemical binding]; other site 1249531000815 Q-loop/lid; other site 1249531000816 ABC transporter signature motif; other site 1249531000817 Walker B; other site 1249531000818 D-loop; other site 1249531000819 H-loop/switch region; other site 1249531000820 heme exporter protein CcmB; Region: ccmB; TIGR01190 1249531000821 heme exporter protein CcmC; Region: ccmC; TIGR01191 1249531000822 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1249531000823 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1249531000824 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1249531000825 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1249531000826 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1249531000827 GTP1/OBG; Region: GTP1_OBG; pfam01018 1249531000828 Obg GTPase; Region: Obg; cd01898 1249531000829 G1 box; other site 1249531000830 GTP/Mg2+ binding site [chemical binding]; other site 1249531000831 Switch I region; other site 1249531000832 G2 box; other site 1249531000833 G3 box; other site 1249531000834 Switch II region; other site 1249531000835 G4 box; other site 1249531000836 G5 box; other site 1249531000837 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1249531000838 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1249531000839 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1249531000840 active site 1249531000841 HIGH motif; other site 1249531000842 KMSK motif region; other site 1249531000843 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1249531000844 tRNA binding surface [nucleotide binding]; other site 1249531000845 anticodon binding site; other site 1249531000846 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 1249531000847 putative metal binding site [ion binding]; other site 1249531000848 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1249531000849 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1249531000850 transaldolase-like protein; Provisional; Region: PTZ00411 1249531000851 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1249531000852 active site 1249531000853 dimer interface [polypeptide binding]; other site 1249531000854 catalytic residue [active] 1249531000855 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1249531000856 predicted active site [active] 1249531000857 catalytic triad [active] 1249531000858 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1249531000859 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1249531000860 active site 1249531000861 multimer interface [polypeptide binding]; other site 1249531000862 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1249531000863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249531000864 DNA-binding site [nucleotide binding]; DNA binding site 1249531000865 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 1249531000866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531000867 homodimer interface [polypeptide binding]; other site 1249531000868 catalytic residue [active] 1249531000869 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249531000870 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 1249531000871 active site 1249531000872 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1249531000873 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249531000874 putative active site [active] 1249531000875 putative metal binding site [ion binding]; other site 1249531000876 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1249531000877 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1249531000878 active site 1249531000879 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1249531000880 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1249531000881 DNA polymerase III subunit delta'; Validated; Region: PRK06871 1249531000882 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1249531000883 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1249531000884 thymidylate kinase; Validated; Region: tmk; PRK00698 1249531000885 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 1249531000886 TMP-binding site; other site 1249531000887 ATP-binding site [chemical binding]; other site 1249531000888 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1249531000889 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1249531000890 dimerization interface [polypeptide binding]; other site 1249531000891 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 1249531000892 dimer interface [polypeptide binding]; other site 1249531000893 substrate binding site [chemical binding]; other site 1249531000894 metal binding sites [ion binding]; metal-binding site 1249531000895 Peptidase family M48; Region: Peptidase_M48; pfam01435 1249531000896 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1249531000897 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1249531000898 active site 1249531000899 HIGH motif; other site 1249531000900 dimer interface [polypeptide binding]; other site 1249531000901 KMSKS motif; other site 1249531000902 PemK-like protein; Region: PemK; pfam02452 1249531000903 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1249531000904 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1249531000905 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249531000906 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 1249531000907 motif II; other site 1249531000908 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1249531000909 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1249531000910 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 1249531000911 putative active site [active] 1249531000912 Ap4A binding site [chemical binding]; other site 1249531000913 nudix motif; other site 1249531000914 putative metal binding site [ion binding]; other site 1249531000915 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1249531000916 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1249531000917 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 1249531000918 phosphate binding site [ion binding]; other site 1249531000919 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1249531000920 S-formylglutathione hydrolase; Region: PLN02442 1249531000921 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1249531000922 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1249531000923 putative NAD(P) binding site [chemical binding]; other site 1249531000924 putative substrate binding site [chemical binding]; other site 1249531000925 catalytic Zn binding site [ion binding]; other site 1249531000926 structural Zn binding site [ion binding]; other site 1249531000927 dimer interface [polypeptide binding]; other site 1249531000928 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1249531000929 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1249531000930 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1249531000931 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1249531000932 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249531000933 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1249531000934 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1249531000935 putative NAD(P) binding site [chemical binding]; other site 1249531000936 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1249531000937 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1249531000938 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 1249531000939 dimer interface [polypeptide binding]; other site 1249531000940 FMN binding site [chemical binding]; other site 1249531000941 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1249531000942 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1249531000943 active site 1249531000944 FMN binding site [chemical binding]; other site 1249531000945 substrate binding site [chemical binding]; other site 1249531000946 homotetramer interface [polypeptide binding]; other site 1249531000947 catalytic residue [active] 1249531000948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249531000949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531000950 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 1249531000951 dimerization interface [polypeptide binding]; other site 1249531000952 Predicted flavoprotein [General function prediction only]; Region: COG0431 1249531000953 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1249531000954 Patatin-like phospholipase; Region: Patatin; pfam01734 1249531000955 active site 1249531000956 nucleophile elbow; other site 1249531000957 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1249531000958 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1249531000959 Conserved TM helix; Region: TM_helix; pfam05552 1249531000960 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1249531000961 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1249531000962 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 1249531000963 RNA binding surface [nucleotide binding]; other site 1249531000964 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249531000965 active site 1249531000966 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 1249531000967 dihydropteroate synthase; Region: DHPS; TIGR01496 1249531000968 substrate binding pocket [chemical binding]; other site 1249531000969 dimer interface [polypeptide binding]; other site 1249531000970 inhibitor binding site; inhibition site 1249531000971 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 1249531000972 ArsC family; Region: ArsC; pfam03960 1249531000973 putative catalytic residues [active] 1249531000974 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1249531000975 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1249531000976 metal binding site [ion binding]; metal-binding site 1249531000977 dimer interface [polypeptide binding]; other site 1249531000978 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1249531000979 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1249531000980 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1249531000981 CPxP motif; other site 1249531000982 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1249531000983 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1249531000984 tetramer interface [polypeptide binding]; other site 1249531000985 heme binding pocket [chemical binding]; other site 1249531000986 NADPH binding site [chemical binding]; other site 1249531000987 chaperone protein DnaJ; Provisional; Region: PRK10767 1249531000988 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 1249531000989 HSP70 interaction site [polypeptide binding]; other site 1249531000990 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1249531000991 substrate binding site [polypeptide binding]; other site 1249531000992 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1249531000993 Zn binding sites [ion binding]; other site 1249531000994 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1249531000995 dimer interface [polypeptide binding]; other site 1249531000996 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1249531000997 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1249531000998 nucleotide binding site [chemical binding]; other site 1249531000999 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1249531001000 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1249531001001 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249531001002 trimer interface [polypeptide binding]; other site 1249531001003 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249531001004 trimer interface [polypeptide binding]; other site 1249531001005 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249531001006 trimer interface [polypeptide binding]; other site 1249531001007 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531001008 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531001009 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531001010 Integrase core domain; Region: rve; pfam00665 1249531001011 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531001012 Integrase core domain; Region: rve_3; pfam13683 1249531001013 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1249531001014 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1249531001015 Haemagglutinin; Region: HIM; pfam05662 1249531001016 YadA-like C-terminal region; Region: YadA; pfam03895 1249531001017 GTPase HflX; Provisional; Region: PRK11058 1249531001018 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1249531001019 HflX GTPase family; Region: HflX; cd01878 1249531001020 G1 box; other site 1249531001021 GTP/Mg2+ binding site [chemical binding]; other site 1249531001022 Switch I region; other site 1249531001023 G2 box; other site 1249531001024 G3 box; other site 1249531001025 Switch II region; other site 1249531001026 G4 box; other site 1249531001027 G5 box; other site 1249531001028 bacterial Hfq-like; Region: Hfq; cd01716 1249531001029 hexamer interface [polypeptide binding]; other site 1249531001030 Sm1 motif; other site 1249531001031 RNA binding site [nucleotide binding]; other site 1249531001032 Sm2 motif; other site 1249531001033 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1249531001034 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1249531001035 RelB antitoxin; Region: RelB; cl01171 1249531001036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1249531001037 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1249531001038 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 1249531001039 ATP binding site [chemical binding]; other site 1249531001040 Mg2+ binding site [ion binding]; other site 1249531001041 G-X-G motif; other site 1249531001042 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 1249531001043 ATP binding site [chemical binding]; other site 1249531001044 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1249531001045 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1249531001046 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1249531001047 putative catalytic cysteine [active] 1249531001048 hypothetical protein; Reviewed; Region: PRK01637 1249531001049 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 1249531001050 putative active site [active] 1249531001051 dimerization interface [polypeptide binding]; other site 1249531001052 putative tRNAtyr binding site [nucleotide binding]; other site 1249531001053 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1249531001054 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1249531001055 DNA binding site [nucleotide binding] 1249531001056 catalytic residue [active] 1249531001057 H2TH interface [polypeptide binding]; other site 1249531001058 putative catalytic residues [active] 1249531001059 turnover-facilitating residue; other site 1249531001060 intercalation triad [nucleotide binding]; other site 1249531001061 8OG recognition residue [nucleotide binding]; other site 1249531001062 putative reading head residues; other site 1249531001063 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1249531001064 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1249531001065 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 1249531001066 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1249531001067 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1249531001068 NAD(P) binding site [chemical binding]; other site 1249531001069 homotetramer interface [polypeptide binding]; other site 1249531001070 homodimer interface [polypeptide binding]; other site 1249531001071 active site 1249531001072 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1249531001073 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249531001074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1249531001075 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1249531001076 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1249531001077 substrate binding pocket [chemical binding]; other site 1249531001078 chain length determination region; other site 1249531001079 substrate-Mg2+ binding site; other site 1249531001080 catalytic residues [active] 1249531001081 aspartate-rich region 1; other site 1249531001082 active site lid residues [active] 1249531001083 aspartate-rich region 2; other site 1249531001084 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1249531001085 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1249531001086 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1249531001087 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249531001088 EamA-like transporter family; Region: EamA; pfam00892 1249531001089 EamA-like transporter family; Region: EamA; cl17759 1249531001090 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 1249531001091 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1249531001092 active site 1249531001093 motif I; other site 1249531001094 motif II; other site 1249531001095 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249531001096 DNA utilization protein GntX; Provisional; Region: PRK11595 1249531001097 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249531001098 active site 1249531001099 Predicted membrane protein [Function unknown]; Region: COG2259 1249531001100 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1249531001101 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1249531001102 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1249531001103 ornithine carbamoyltransferase; Provisional; Region: PRK01713 1249531001104 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1249531001105 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1249531001106 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1249531001107 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 1249531001108 S-adenosylmethionine binding site [chemical binding]; other site 1249531001109 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1249531001110 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1249531001111 dimerization interface [polypeptide binding]; other site 1249531001112 DPS ferroxidase diiron center [ion binding]; other site 1249531001113 ion pore; other site 1249531001114 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1249531001115 Transglycosylase; Region: Transgly; pfam00912 1249531001116 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249531001117 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 1249531001118 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1249531001119 substrate binding site [chemical binding]; other site 1249531001120 oxyanion hole (OAH) forming residues; other site 1249531001121 trimer interface [polypeptide binding]; other site 1249531001122 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 1249531001123 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1249531001124 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1249531001125 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1249531001126 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1249531001127 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1249531001128 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1249531001129 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1249531001130 Cl binding site [ion binding]; other site 1249531001131 oligomer interface [polypeptide binding]; other site 1249531001132 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1249531001133 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 1249531001134 S-adenosylmethionine binding site [chemical binding]; other site 1249531001135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1249531001136 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1249531001137 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1249531001138 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1249531001139 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1249531001140 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1249531001141 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1249531001142 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1249531001143 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1249531001144 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 1249531001145 dimer interface [polypeptide binding]; other site 1249531001146 allosteric magnesium binding site [ion binding]; other site 1249531001147 active site 1249531001148 aspartate-rich active site metal binding site; other site 1249531001149 Schiff base residues; other site 1249531001150 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1249531001151 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 1249531001152 dimer interface [polypeptide binding]; other site 1249531001153 active site 1249531001154 CoA binding pocket [chemical binding]; other site 1249531001155 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 1249531001156 S-adenosylmethionine binding site [chemical binding]; other site 1249531001157 hypothetical protein; Provisional; Region: PRK11702 1249531001158 YGGT family; Region: YGGT; pfam02325 1249531001159 YGGT family; Region: YGGT; pfam02325 1249531001160 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1249531001161 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1249531001162 Walker A/P-loop; other site 1249531001163 ATP binding site [chemical binding]; other site 1249531001164 Q-loop/lid; other site 1249531001165 ABC transporter signature motif; other site 1249531001166 Walker B; other site 1249531001167 D-loop; other site 1249531001168 H-loop/switch region; other site 1249531001169 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249531001170 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 1249531001171 dimer interface [polypeptide binding]; other site 1249531001172 conserved gate region; other site 1249531001173 putative PBP binding loops; other site 1249531001174 ABC-ATPase subunit interface; other site 1249531001175 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249531001176 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 1249531001177 substrate binding pocket [chemical binding]; other site 1249531001178 membrane-bound complex binding site; other site 1249531001179 hinge residues; other site 1249531001180 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1249531001181 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1249531001182 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 1249531001183 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1249531001184 substrate binding site [chemical binding]; other site 1249531001185 hexamer interface [polypeptide binding]; other site 1249531001186 metal binding site [ion binding]; metal-binding site 1249531001187 acyl carrier protein; Provisional; Region: acpP; PRK00982 1249531001188 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1249531001189 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1249531001190 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249531001191 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249531001192 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249531001193 Predicted membrane protein [Function unknown]; Region: COG1238 1249531001194 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1249531001195 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1249531001196 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1249531001197 Permutation of conserved domain; other site 1249531001198 active site 1249531001199 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1249531001200 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 1249531001201 triosephosphate isomerase; Provisional; Region: PRK14567 1249531001202 substrate binding site [chemical binding]; other site 1249531001203 dimer interface [polypeptide binding]; other site 1249531001204 catalytic triad [active] 1249531001205 hypothetical protein; Provisional; Region: PRK02913 1249531001206 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1249531001207 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1249531001208 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1249531001209 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 1249531001210 active pocket/dimerization site; other site 1249531001211 active site 1249531001212 phosphorylation site [posttranslational modification] 1249531001213 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 1249531001214 active site 1249531001215 phosphorylation site [posttranslational modification] 1249531001216 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1249531001217 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1249531001218 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249531001219 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249531001220 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249531001221 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249531001222 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 1249531001223 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1249531001224 active site 1249531001225 DNA binding site [nucleotide binding] 1249531001226 Int/Topo IB signature motif; other site 1249531001227 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249531001228 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249531001229 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249531001230 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1249531001231 Divergent AAA domain; Region: AAA_4; pfam04326 1249531001232 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1249531001233 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1249531001234 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1249531001235 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 1249531001236 S-adenosylmethionine binding site [chemical binding]; other site 1249531001237 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1249531001238 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1249531001239 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1249531001240 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 1249531001241 ATP binding site [chemical binding]; other site 1249531001242 putative Mg++ binding site [ion binding]; other site 1249531001243 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1249531001244 nucleotide binding region [chemical binding]; other site 1249531001245 ATP-binding site [chemical binding]; other site 1249531001246 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1249531001247 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1249531001248 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1249531001249 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1249531001250 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249531001251 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 1249531001252 putative active site [active] 1249531001253 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249531001254 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 1249531001255 putative active site [active] 1249531001256 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 1249531001257 S17 interaction site [polypeptide binding]; other site 1249531001258 S8 interaction site; other site 1249531001259 16S rRNA interaction site [nucleotide binding]; other site 1249531001260 streptomycin interaction site [chemical binding]; other site 1249531001261 23S rRNA interaction site [nucleotide binding]; other site 1249531001262 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1249531001263 30S ribosomal protein S7; Validated; Region: PRK05302 1249531001264 elongation factor G; Reviewed; Region: PRK00007 1249531001265 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1249531001266 G1 box; other site 1249531001267 putative GEF interaction site [polypeptide binding]; other site 1249531001268 GTP/Mg2+ binding site [chemical binding]; other site 1249531001269 Switch I region; other site 1249531001270 G2 box; other site 1249531001271 G3 box; other site 1249531001272 Switch II region; other site 1249531001273 G4 box; other site 1249531001274 G5 box; other site 1249531001275 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 1249531001276 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 1249531001277 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 1249531001278 elongation factor Tu; Reviewed; Region: PRK00049 1249531001279 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1249531001280 G1 box; other site 1249531001281 GEF interaction site [polypeptide binding]; other site 1249531001282 GTP/Mg2+ binding site [chemical binding]; other site 1249531001283 Switch I region; other site 1249531001284 G2 box; other site 1249531001285 G3 box; other site 1249531001286 Switch II region; other site 1249531001287 G4 box; other site 1249531001288 G5 box; other site 1249531001289 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1249531001290 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 1249531001291 Antibiotic Binding Site [chemical binding]; other site 1249531001292 trigger factor; Provisional; Region: tig; PRK01490 1249531001293 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249531001294 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1249531001295 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 1249531001296 active site residue [active] 1249531001297 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 1249531001298 SecA binding site; other site 1249531001299 Preprotein binding site; other site 1249531001300 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1249531001301 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1249531001302 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1249531001303 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1249531001304 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1249531001305 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 1249531001306 trimer interface [polypeptide binding]; other site 1249531001307 active site 1249531001308 substrate binding site [chemical binding]; other site 1249531001309 CoA binding site [chemical binding]; other site 1249531001310 Autotransporter beta-domain; Region: Autotransporter; cl17461 1249531001311 Terminase small subunit; Region: Terminase_2; pfam03592 1249531001312 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1249531001313 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1249531001314 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1249531001315 integrase; Provisional; Region: PRK09692 1249531001316 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1249531001317 active site 1249531001318 Int/Topo IB signature motif; other site 1249531001319 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1249531001320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249531001321 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 1249531001322 DNA binding residues [nucleotide binding] 1249531001323 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1249531001324 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1249531001325 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1249531001326 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1249531001327 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 1249531001328 active site 1249531001329 motif I; other site 1249531001330 motif II; other site 1249531001331 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1249531001332 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249531001333 catalytic residue [active] 1249531001334 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1249531001335 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1249531001336 G1 box; other site 1249531001337 putative GEF interaction site [polypeptide binding]; other site 1249531001338 GTP/Mg2+ binding site [chemical binding]; other site 1249531001339 Switch I region; other site 1249531001340 G2 box; other site 1249531001341 G3 box; other site 1249531001342 Switch II region; other site 1249531001343 G4 box; other site 1249531001344 G5 box; other site 1249531001345 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 1249531001346 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 1249531001347 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1249531001348 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249531001349 Coenzyme A binding pocket [chemical binding]; other site 1249531001350 DNA polymerase III subunit psi; Validated; Region: PRK06856 1249531001351 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1249531001352 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1249531001353 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 1249531001354 S-adenosylmethionine binding site [chemical binding]; other site 1249531001355 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249531001356 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1249531001357 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249531001358 Coenzyme A binding pocket [chemical binding]; other site 1249531001359 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1249531001360 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 1249531001361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531001362 homodimer interface [polypeptide binding]; other site 1249531001363 catalytic residue [active] 1249531001364 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1249531001365 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 1249531001366 active site 1249531001367 motif I; other site 1249531001368 motif II; other site 1249531001369 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1249531001370 putative active site pocket [active] 1249531001371 4-fold oligomerization interface [polypeptide binding]; other site 1249531001372 metal binding residues [ion binding]; metal-binding site 1249531001373 3-fold/trimer interface [polypeptide binding]; other site 1249531001374 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1249531001375 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1249531001376 putative active site [active] 1249531001377 oxyanion strand; other site 1249531001378 catalytic triad [active] 1249531001379 BRO family, N-terminal domain; Region: Bro-N; smart01040 1249531001380 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1249531001381 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1249531001382 catalytic residues [active] 1249531001383 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1249531001384 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1249531001385 substrate binding site [chemical binding]; other site 1249531001386 glutamase interaction surface [polypeptide binding]; other site 1249531001387 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1249531001388 dimer interface [polypeptide binding]; other site 1249531001389 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249531001390 metal binding site [ion binding]; metal-binding site 1249531001391 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1249531001392 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1249531001393 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1249531001394 metal binding site [ion binding]; metal-binding site 1249531001395 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1249531001396 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 1249531001397 dimerization interface [polypeptide binding]; other site 1249531001398 domain crossover interface; other site 1249531001399 redox-dependent activation switch; other site 1249531001400 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 1249531001401 RNA binding surface [nucleotide binding]; other site 1249531001402 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1249531001403 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 1249531001404 dimer interface [polypeptide binding]; other site 1249531001405 ADP-ribose binding site [chemical binding]; other site 1249531001406 active site 1249531001407 nudix motif; other site 1249531001408 metal binding site [ion binding]; metal-binding site 1249531001409 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1249531001410 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 1249531001411 active site 1249531001412 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1249531001413 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1249531001414 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1249531001415 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1249531001416 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 1249531001417 putative active site [active] 1249531001418 ORF6N domain; Region: ORF6N; pfam10543 1249531001419 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1249531001420 aspartate racemase; Region: asp_race; TIGR00035 1249531001421 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1249531001422 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249531001423 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1249531001424 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 1249531001425 active site 1249531001426 catalytic triad [active] 1249531001427 oxyanion hole [active] 1249531001428 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1249531001429 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1249531001430 HIGH motif; other site 1249531001431 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1249531001432 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1249531001433 active site 1249531001434 KMSKS motif; other site 1249531001435 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1249531001436 tRNA binding surface [nucleotide binding]; other site 1249531001437 anticodon binding site; other site 1249531001438 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1249531001439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1249531001440 Fic/DOC family; Region: Fic; pfam02661 1249531001441 Fic family protein [Function unknown]; Region: COG3177 1249531001442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249531001443 Coenzyme A binding pocket [chemical binding]; other site 1249531001444 DNA polymerase III subunit chi; Validated; Region: PRK05728 1249531001445 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1249531001446 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249531001447 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1249531001448 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 1249531001449 dimerization interface [polypeptide binding]; other site 1249531001450 active site 1249531001451 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1249531001452 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 1249531001453 substrate binding pocket [chemical binding]; other site 1249531001454 membrane-bound complex binding site; other site 1249531001455 hinge residues; other site 1249531001456 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 1249531001457 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249531001458 catalytic residue [active] 1249531001459 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1249531001460 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1249531001461 HIGH motif; other site 1249531001462 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1249531001463 active site 1249531001464 KMSKS motif; other site 1249531001465 recombination and repair protein; Provisional; Region: PRK10869 1249531001466 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1249531001467 Walker A/P-loop; other site 1249531001468 ATP binding site [chemical binding]; other site 1249531001469 Q-loop/lid; other site 1249531001470 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1249531001471 ABC transporter signature motif; other site 1249531001472 Walker B; other site 1249531001473 D-loop; other site 1249531001474 H-loop/switch region; other site 1249531001475 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1249531001476 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1249531001477 cell division protein FtsZ; Validated; Region: PRK09330 1249531001478 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 1249531001479 nucleotide binding site [chemical binding]; other site 1249531001480 SulA interaction site; other site 1249531001481 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1249531001482 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249531001483 nucleotide binding site [chemical binding]; other site 1249531001484 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249531001485 Cell division protein FtsA; Region: FtsA; pfam14450 1249531001486 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1249531001487 Cell division protein FtsQ; Region: FtsQ; pfam03799 1249531001488 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1249531001489 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1249531001490 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1249531001491 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1249531001492 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249531001493 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249531001494 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249531001495 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1249531001496 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 1249531001497 active site 1249531001498 homodimer interface [polypeptide binding]; other site 1249531001499 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1249531001500 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1249531001501 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249531001502 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249531001503 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1249531001504 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 1249531001505 Mg++ binding site [ion binding]; other site 1249531001506 putative catalytic motif [active] 1249531001507 putative substrate binding site [chemical binding]; other site 1249531001508 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1249531001509 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249531001510 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249531001511 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249531001512 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1249531001513 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249531001514 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249531001515 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249531001516 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1249531001517 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1249531001518 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1249531001519 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 1249531001520 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1249531001521 MraW methylase family; Region: Methyltransf_5; pfam01795 1249531001522 cell division protein MraZ; Reviewed; Region: PRK00326 1249531001523 MraZ protein; Region: MraZ; pfam02381 1249531001524 MraZ protein; Region: MraZ; pfam02381 1249531001525 ribonuclease R; Region: RNase_R; TIGR02063 1249531001526 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1249531001527 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1249531001528 RNB domain; Region: RNB; pfam00773 1249531001529 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 1249531001530 RNA binding site [nucleotide binding]; other site 1249531001531 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1249531001532 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 1249531001533 PhnA protein; Region: PhnA; pfam03831 1249531001534 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249531001535 intersubunit interface [polypeptide binding]; other site 1249531001536 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 1249531001537 metal binding site [ion binding]; metal-binding site 1249531001538 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1249531001539 Cupin; Region: Cupin_6; pfam12852 1249531001540 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531001541 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249531001542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531001543 Isochorismatase family; Region: Isochorismatase; pfam00857 1249531001544 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1249531001545 catalytic triad [active] 1249531001546 conserved cis-peptide bond; other site 1249531001547 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1249531001548 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 1249531001549 homodimer interface [polypeptide binding]; other site 1249531001550 oligonucleotide binding site [chemical binding]; other site 1249531001551 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1249531001552 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 1249531001553 IHF dimer interface [polypeptide binding]; other site 1249531001554 IHF - DNA interface [nucleotide binding]; other site 1249531001555 Protein of unknown function (DUF416); Region: DUF416; cl01166 1249531001556 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1249531001557 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 1249531001558 substrate binding site [chemical binding]; other site 1249531001559 active site 1249531001560 hypothetical protein; Reviewed; Region: PRK01736 1249531001561 Cell division protein ZapA; Region: ZapA; pfam05164 1249531001562 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1249531001563 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1249531001564 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249531001565 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249531001566 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249531001567 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1249531001568 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1249531001569 Na binding site [ion binding]; other site 1249531001570 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 1249531001571 putative substrate translocation pore; other site 1249531001572 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1249531001573 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1249531001574 putative SAM binding site [chemical binding]; other site 1249531001575 putative homodimer interface [polypeptide binding]; other site 1249531001576 LppC putative lipoprotein; Region: LppC; pfam04348 1249531001577 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1249531001578 putative ligand binding site [chemical binding]; other site 1249531001579 hypothetical protein; Reviewed; Region: PRK12497 1249531001580 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 1249531001581 dimer interface [polypeptide binding]; other site 1249531001582 active site 1249531001583 outer membrane lipoprotein; Provisional; Region: PRK11023 1249531001584 BON domain; Region: BON; pfam04972 1249531001585 acetylornithine deacetylase; Provisional; Region: PRK05111 1249531001586 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1249531001587 metal binding site [ion binding]; metal-binding site 1249531001588 putative dimer interface [polypeptide binding]; other site 1249531001589 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1249531001590 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1249531001591 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 1249531001592 motif I; other site 1249531001593 active site 1249531001594 Putative exonuclease, RdgC; Region: RdgC; pfam04381 1249531001595 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1249531001596 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1249531001597 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1249531001598 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 1249531001599 putative substrate translocation pore; other site 1249531001600 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 1249531001601 DNA-binding site [nucleotide binding]; DNA binding site 1249531001602 RNA-binding motif; other site 1249531001603 ProQ/FINO family; Region: ProQ; pfam04352 1249531001604 carboxy-terminal protease; Provisional; Region: PRK11186 1249531001605 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1249531001606 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 1249531001607 protein binding site [polypeptide binding]; other site 1249531001608 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1249531001609 Catalytic dyad [active] 1249531001610 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1249531001611 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1249531001612 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1249531001613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1249531001614 Peptidase M15; Region: Peptidase_M15_3; cl01194 1249531001615 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1249531001616 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1249531001617 putative dimer interface [polypeptide binding]; other site 1249531001618 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 1249531001619 nucleotide binding site/active site [active] 1249531001620 HIT family signature motif; other site 1249531001621 catalytic residue [active] 1249531001622 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1249531001623 RNA/DNA hybrid binding site [nucleotide binding]; other site 1249531001624 active site 1249531001625 GTPase RsgA; Reviewed; Region: PRK12288 1249531001626 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 1249531001627 RNA binding site [nucleotide binding]; other site 1249531001628 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1249531001629 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1249531001630 GTP/Mg2+ binding site [chemical binding]; other site 1249531001631 G4 box; other site 1249531001632 G5 box; other site 1249531001633 G1 box; other site 1249531001634 Switch I region; other site 1249531001635 G2 box; other site 1249531001636 G3 box; other site 1249531001637 Switch II region; other site 1249531001638 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249531001639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531001640 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 1249531001641 dimerization interface [polypeptide binding]; other site 1249531001642 substrate binding pocket [chemical binding]; other site 1249531001643 dUMP phosphatase; Provisional; Region: PRK09449 1249531001644 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 1249531001645 motif II; other site 1249531001646 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1249531001647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531001648 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1249531001649 substrate binding site [chemical binding]; other site 1249531001650 dimerization interface [polypeptide binding]; other site 1249531001651 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1249531001652 active site 1249531001653 homotetramer interface [polypeptide binding]; other site 1249531001654 homodimer interface [polypeptide binding]; other site 1249531001655 CTP synthetase; Validated; Region: pyrG; PRK05380 1249531001656 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 1249531001657 Catalytic site [active] 1249531001658 active site 1249531001659 UTP binding site [chemical binding]; other site 1249531001660 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1249531001661 active site 1249531001662 putative oxyanion hole; other site 1249531001663 catalytic triad [active] 1249531001664 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1249531001665 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1249531001666 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1249531001667 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1249531001668 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 1249531001669 E3 interaction surface; other site 1249531001670 lipoyl attachment site [posttranslational modification]; other site 1249531001671 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1249531001672 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1249531001673 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1249531001674 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1249531001675 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1249531001676 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1249531001677 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1249531001678 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 1249531001679 FAD binding pocket [chemical binding]; other site 1249531001680 FAD binding motif [chemical binding]; other site 1249531001681 phosphate binding motif [ion binding]; other site 1249531001682 beta-alpha-beta structure motif; other site 1249531001683 NAD binding pocket [chemical binding]; other site 1249531001684 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1249531001685 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1249531001686 active site 1249531001687 NTP binding site [chemical binding]; other site 1249531001688 metal binding triad [ion binding]; metal-binding site 1249531001689 antibiotic binding site [chemical binding]; other site 1249531001690 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1249531001691 ApbE family; Region: ApbE; pfam02424 1249531001692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1249531001693 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1249531001694 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1249531001695 active site 1249531001696 NTP binding site [chemical binding]; other site 1249531001697 metal binding triad [ion binding]; metal-binding site 1249531001698 antibiotic binding site [chemical binding]; other site 1249531001699 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1249531001700 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 1249531001701 Ligand Binding Site [chemical binding]; other site 1249531001702 argininosuccinate lyase; Provisional; Region: PRK04833 1249531001703 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1249531001704 active sites [active] 1249531001705 tetramer interface [polypeptide binding]; other site 1249531001706 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1249531001707 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 1249531001708 non-specific DNA binding site [nucleotide binding]; other site 1249531001709 salt bridge; other site 1249531001710 sequence-specific DNA binding site [nucleotide binding]; other site 1249531001711 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1249531001712 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1249531001713 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1249531001714 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1249531001715 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 1249531001716 dimer interface [polypeptide binding]; other site 1249531001717 motif 1; other site 1249531001718 active site 1249531001719 motif 2; other site 1249531001720 motif 3; other site 1249531001721 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 1249531001722 anticodon binding site; other site 1249531001723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1249531001724 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1249531001725 DNA polymerase III subunit beta; Validated; Region: PRK05643 1249531001726 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 1249531001727 putative DNA binding surface [nucleotide binding]; other site 1249531001728 dimer interface [polypeptide binding]; other site 1249531001729 beta-clamp/clamp loader binding surface; other site 1249531001730 beta-clamp/translesion DNA polymerase binding surface; other site 1249531001731 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1249531001732 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1249531001733 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 1249531001734 Walker A motif; other site 1249531001735 ATP binding site [chemical binding]; other site 1249531001736 Walker B motif; other site 1249531001737 arginine finger; other site 1249531001738 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 1249531001739 DnaA box-binding interface [nucleotide binding]; other site 1249531001740 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1249531001741 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249531001742 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1249531001743 Walker A/P-loop; other site 1249531001744 ATP binding site [chemical binding]; other site 1249531001745 Q-loop/lid; other site 1249531001746 ABC transporter signature motif; other site 1249531001747 Walker B; other site 1249531001748 D-loop; other site 1249531001749 H-loop/switch region; other site 1249531001750 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1249531001751 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1249531001752 mce related protein; Region: MCE; pfam02470 1249531001753 mce related protein; Region: MCE; pfam02470 1249531001754 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1249531001755 mce related protein; Region: MCE; pfam02470 1249531001756 mce related protein; Region: MCE; pfam02470 1249531001757 mce related protein; Region: MCE; pfam02470 1249531001758 ferric uptake regulator; Provisional; Region: fur; PRK09462 1249531001759 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1249531001760 metal binding site 2 [ion binding]; metal-binding site 1249531001761 putative DNA binding helix; other site 1249531001762 metal binding site 1 [ion binding]; metal-binding site 1249531001763 dimer interface [polypeptide binding]; other site 1249531001764 structural Zn2+ binding site [ion binding]; other site 1249531001765 flavodoxin FldA; Validated; Region: PRK09267 1249531001766 LexA regulated protein; Provisional; Region: PRK11675 1249531001767 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 1249531001768 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1249531001769 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 1249531001770 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1249531001771 Predicted flavoproteins [General function prediction only]; Region: COG2081 1249531001772 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1249531001773 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249531001774 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 1249531001775 rRNA binding site [nucleotide binding]; other site 1249531001776 predicted 30S ribosome binding site; other site 1249531001777 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1249531001778 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1249531001779 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 1249531001780 motif I; other site 1249531001781 motif II; other site 1249531001782 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249531001783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1249531001784 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1249531001785 malate dehydrogenase; Provisional; Region: PRK05086 1249531001786 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1249531001787 NAD binding site [chemical binding]; other site 1249531001788 dimerization interface [polypeptide binding]; other site 1249531001789 Substrate binding site [chemical binding]; other site 1249531001790 arginine repressor; Provisional; Region: PRK05066 1249531001791 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1249531001792 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1249531001793 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1249531001794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249531001795 NAD(P) binding site [chemical binding]; other site 1249531001796 active site 1249531001797 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1249531001798 Part of AAA domain; Region: AAA_19; pfam13245 1249531001799 Family description; Region: UvrD_C_2; pfam13538 1249531001800 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1249531001801 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1249531001802 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1249531001803 shikimate binding site; other site 1249531001804 NAD(P) binding site [chemical binding]; other site 1249531001805 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1249531001806 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249531001807 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1249531001808 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249531001809 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249531001810 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1249531001811 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1249531001812 recombinase A; Provisional; Region: recA; PRK09354 1249531001813 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 1249531001814 hexamer interface [polypeptide binding]; other site 1249531001815 Walker A motif; other site 1249531001816 ATP binding site [chemical binding]; other site 1249531001817 Walker B motif; other site 1249531001818 hypothetical protein; Provisional; Region: PRK07101 1249531001819 para-aminobenzoate synthase component I; Validated; Region: PRK07093 1249531001820 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1249531001821 RmuC family; Region: RmuC; pfam02646 1249531001822 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1249531001823 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1249531001824 glutamine binding [chemical binding]; other site 1249531001825 catalytic triad [active] 1249531001826 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1249531001827 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1249531001828 RF-1 domain; Region: RF-1; pfam00472 1249531001829 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 1249531001830 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1249531001831 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 1249531001832 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1249531001833 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1249531001834 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 1249531001835 binding surface 1249531001836 TPR motif; other site 1249531001837 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1249531001838 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249531001839 glycerate dehydrogenase; Provisional; Region: PRK06932 1249531001840 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1249531001841 putative ligand binding site [chemical binding]; other site 1249531001842 putative NAD binding site [chemical binding]; other site 1249531001843 catalytic site [active] 1249531001844 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1249531001845 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249531001846 FtsX-like permease family; Region: FtsX; pfam02687 1249531001847 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1249531001848 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1249531001849 Walker A/P-loop; other site 1249531001850 ATP binding site [chemical binding]; other site 1249531001851 Q-loop/lid; other site 1249531001852 ABC transporter signature motif; other site 1249531001853 Walker B; other site 1249531001854 D-loop; other site 1249531001855 H-loop/switch region; other site 1249531001856 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1249531001857 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249531001858 FtsX-like permease family; Region: FtsX; pfam02687 1249531001859 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1249531001860 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 1249531001861 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1249531001862 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 1249531001863 active site 1249531001864 dimer interface [polypeptide binding]; other site 1249531001865 motif 1; other site 1249531001866 motif 2; other site 1249531001867 motif 3; other site 1249531001868 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 1249531001869 anticodon binding site; other site 1249531001870 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 1249531001871 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249531001872 putative substrate translocation pore; other site 1249531001873 BioY family; Region: BioY; pfam02632 1249531001874 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1249531001875 conserved cys residue [active] 1249531001876 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1249531001877 active site 1249531001878 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1249531001879 Carbon starvation protein CstA; Region: CstA; pfam02554 1249531001880 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1249531001881 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1249531001882 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 1249531001883 TPP-binding site; other site 1249531001884 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 1249531001885 PYR/PP interface [polypeptide binding]; other site 1249531001886 dimer interface [polypeptide binding]; other site 1249531001887 TPP binding site [chemical binding]; other site 1249531001888 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1249531001889 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1249531001890 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 1249531001891 active site 1249531001892 dimerization interface [polypeptide binding]; other site 1249531001893 putative methyltransferase; Provisional; Region: PRK10864 1249531001894 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1249531001895 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1249531001896 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1249531001897 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1249531001898 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1249531001899 methionine synthase; Provisional; Region: PRK01207 1249531001900 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 1249531001901 substrate binding site [chemical binding]; other site 1249531001902 THF binding site; other site 1249531001903 zinc-binding site [ion binding]; other site 1249531001904 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1249531001905 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 1249531001906 dimer interface [polypeptide binding]; other site 1249531001907 active site 1249531001908 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1249531001909 folate binding site [chemical binding]; other site 1249531001910 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1249531001911 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1249531001912 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 1249531001913 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1249531001914 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1249531001915 active site 1249531001916 substrate binding site [chemical binding]; other site 1249531001917 cosubstrate binding site; other site 1249531001918 catalytic site [active] 1249531001919 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 1249531001920 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249531001921 Walker A/P-loop; other site 1249531001922 ATP binding site [chemical binding]; other site 1249531001923 Q-loop/lid; other site 1249531001924 ABC transporter signature motif; other site 1249531001925 Walker B; other site 1249531001926 D-loop; other site 1249531001927 H-loop/switch region; other site 1249531001928 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249531001929 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 1249531001930 ABC-ATPase subunit interface; other site 1249531001931 dimer interface [polypeptide binding]; other site 1249531001932 putative PBP binding regions; other site 1249531001933 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1249531001934 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249531001935 intersubunit interface [polypeptide binding]; other site 1249531001936 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1249531001937 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 1249531001938 N-terminal plug; other site 1249531001939 ligand-binding site [chemical binding]; other site 1249531001940 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1249531001941 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531001942 Walker A/P-loop; other site 1249531001943 ATP binding site [chemical binding]; other site 1249531001944 Q-loop/lid; other site 1249531001945 ABC transporter signature motif; other site 1249531001946 Walker B; other site 1249531001947 D-loop; other site 1249531001948 H-loop/switch region; other site 1249531001949 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249531001950 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531001951 Walker A/P-loop; other site 1249531001952 ATP binding site [chemical binding]; other site 1249531001953 Q-loop/lid; other site 1249531001954 ABC transporter signature motif; other site 1249531001955 Walker B; other site 1249531001956 D-loop; other site 1249531001957 H-loop/switch region; other site 1249531001958 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249531001959 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1249531001960 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1249531001961 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 1249531001962 dimer interface [polypeptide binding]; other site 1249531001963 conserved gate region; other site 1249531001964 ABC-ATPase subunit interface; other site 1249531001965 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1249531001966 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 1249531001967 dimer interface [polypeptide binding]; other site 1249531001968 conserved gate region; other site 1249531001969 putative PBP binding loops; other site 1249531001970 ABC-ATPase subunit interface; other site 1249531001971 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249531001972 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 1249531001973 dimer interface [polypeptide binding]; other site 1249531001974 conserved gate region; other site 1249531001975 putative PBP binding loops; other site 1249531001976 ABC-ATPase subunit interface; other site 1249531001977 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 1249531001978 dimer interface [polypeptide binding]; other site 1249531001979 conserved gate region; other site 1249531001980 putative PBP binding loops; other site 1249531001981 ABC-ATPase subunit interface; other site 1249531001982 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1249531001983 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1249531001984 Walker A/P-loop; other site 1249531001985 ATP binding site [chemical binding]; other site 1249531001986 Q-loop/lid; other site 1249531001987 ABC transporter signature motif; other site 1249531001988 Walker B; other site 1249531001989 D-loop; other site 1249531001990 H-loop/switch region; other site 1249531001991 TOBE domain; Region: TOBE_2; pfam08402 1249531001992 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1249531001993 Part of AAA domain; Region: AAA_19; pfam13245 1249531001994 Family description; Region: UvrD_C_2; pfam13538 1249531001995 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1249531001996 Aspartase; Region: Aspartase; cd01357 1249531001997 active sites [active] 1249531001998 tetramer interface [polypeptide binding]; other site 1249531001999 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1249531002000 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1249531002001 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 1249531002002 dimerization interface [polypeptide binding]; other site 1249531002003 putative ATP binding site [chemical binding]; other site 1249531002004 tellurite resistance protein TehB; Provisional; Region: PRK12335 1249531002005 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1249531002006 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 1249531002007 S-adenosylmethionine binding site [chemical binding]; other site 1249531002008 Flavin Reductases; Region: FlaRed; cl00801 1249531002009 dsDNA-mimic protein; Reviewed; Region: PRK05094 1249531002010 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1249531002011 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 1249531002012 S-adenosylmethionine binding site [chemical binding]; other site 1249531002013 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1249531002014 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1249531002015 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 1249531002016 P loop; other site 1249531002017 GTP binding site [chemical binding]; other site 1249531002018 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1249531002019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531002020 Walker A/P-loop; other site 1249531002021 ATP binding site [chemical binding]; other site 1249531002022 Q-loop/lid; other site 1249531002023 ABC transporter signature motif; other site 1249531002024 Walker B; other site 1249531002025 D-loop; other site 1249531002026 H-loop/switch region; other site 1249531002027 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1249531002028 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1249531002029 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249531002030 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1249531002031 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1249531002032 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 1249531002033 active site 1249531002034 phosphorylation site [posttranslational modification] 1249531002035 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1249531002036 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1249531002037 Walker A/P-loop; other site 1249531002038 ATP binding site [chemical binding]; other site 1249531002039 Q-loop/lid; other site 1249531002040 ABC transporter signature motif; other site 1249531002041 Walker B; other site 1249531002042 D-loop; other site 1249531002043 H-loop/switch region; other site 1249531002044 OstA-like protein; Region: OstA; cl00844 1249531002045 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1249531002046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1249531002047 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1249531002048 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 1249531002049 putative catalytic site [active] 1249531002050 putative phosphate binding site [ion binding]; other site 1249531002051 active site 1249531002052 metal binding site A [ion binding]; metal-binding site 1249531002053 DNA binding site [nucleotide binding] 1249531002054 putative AP binding site [nucleotide binding]; other site 1249531002055 putative metal binding site B [ion binding]; other site 1249531002056 Predicted permease [General function prediction only]; Region: COG2056 1249531002057 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1249531002058 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1249531002059 putative transporter; Validated; Region: PRK03818 1249531002060 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1249531002061 TrkA-C domain; Region: TrkA_C; pfam02080 1249531002062 TrkA-C domain; Region: TrkA_C; pfam02080 1249531002063 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1249531002064 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1249531002065 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1249531002066 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 1249531002067 homodimer interface [polypeptide binding]; other site 1249531002068 maltodextrin phosphorylase; Provisional; Region: PRK14985 1249531002069 active site pocket [active] 1249531002070 transcriptional regulator MalT; Provisional; Region: PRK04841 1249531002071 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 1249531002072 DNA binding residues [nucleotide binding] 1249531002073 dimerization interface [polypeptide binding]; other site 1249531002074 alpha-amylase; Reviewed; Region: malS; PRK09505 1249531002075 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1249531002076 active site 1249531002077 catalytic site [active] 1249531002078 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1249531002079 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 1249531002080 dimer interface [polypeptide binding]; other site 1249531002081 conserved gate region; other site 1249531002082 putative PBP binding loops; other site 1249531002083 ABC-ATPase subunit interface; other site 1249531002084 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1249531002085 anticodon binding site; other site 1249531002086 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 1249531002087 dimer interface [polypeptide binding]; other site 1249531002088 conserved gate region; other site 1249531002089 putative PBP binding loops; other site 1249531002090 ABC-ATPase subunit interface; other site 1249531002091 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1249531002092 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1249531002093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531002094 ABC transporter; Region: ABC_tran; pfam00005 1249531002095 Q-loop/lid; other site 1249531002096 ABC transporter signature motif; other site 1249531002097 Walker B; other site 1249531002098 D-loop; other site 1249531002099 H-loop/switch region; other site 1249531002100 TOBE domain; Region: TOBE_2; pfam08402 1249531002101 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 1249531002102 trimer interface; other site 1249531002103 sugar binding site [chemical binding]; other site 1249531002104 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1249531002105 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1249531002106 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1249531002107 TrkA-N domain; Region: TrkA_N; pfam02254 1249531002108 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1249531002109 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1249531002110 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1249531002111 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1249531002112 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 1249531002113 dimer interface [polypeptide binding]; other site 1249531002114 active site 1249531002115 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 1249531002116 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1249531002117 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1249531002118 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 1249531002119 nucleotide binding pocket [chemical binding]; other site 1249531002120 K-X-D-G motif; other site 1249531002121 catalytic site [active] 1249531002122 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1249531002123 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1249531002124 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 1249531002125 Dimer interface [polypeptide binding]; other site 1249531002126 cell division protein ZipA; Provisional; Region: PRK01741 1249531002127 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1249531002128 FtsZ protein binding site [polypeptide binding]; other site 1249531002129 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1249531002130 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1249531002131 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249531002132 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1249531002133 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1249531002134 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 1249531002135 active site residue [active] 1249531002136 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1249531002137 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 1249531002138 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1249531002139 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 1249531002140 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 1249531002141 Dak1 domain; Region: Dak1; pfam02733 1249531002142 thioredoxin reductase; Provisional; Region: PRK10262 1249531002143 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249531002144 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249531002145 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1249531002146 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1249531002147 Ligand binding site; other site 1249531002148 oligomer interface; other site 1249531002149 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1249531002150 hypothetical protein; Validated; Region: PRK06886 1249531002151 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 1249531002152 active site 1249531002153 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249531002154 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1249531002155 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1249531002156 poly(A) polymerase; Region: pcnB; TIGR01942 1249531002157 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1249531002158 active site 1249531002159 NTP binding site [chemical binding]; other site 1249531002160 metal binding triad [ion binding]; metal-binding site 1249531002161 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1249531002162 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1249531002163 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 1249531002164 catalytic center binding site [active] 1249531002165 ATP binding site [chemical binding]; other site 1249531002166 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1249531002167 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1249531002168 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1249531002169 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1249531002170 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249531002171 dimer interface [polypeptide binding]; other site 1249531002172 active site 1249531002173 glutathione binding site [chemical binding]; other site 1249531002174 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1249531002175 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1249531002176 dimer interface [polypeptide binding]; other site 1249531002177 catalytic site [active] 1249531002178 putative active site [active] 1249531002179 putative substrate binding site [chemical binding]; other site 1249531002180 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1249531002181 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 1249531002182 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 1249531002183 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 1249531002184 ligand-binding site [chemical binding]; other site 1249531002185 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1249531002186 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1249531002187 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1249531002188 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 1249531002189 FMN binding site [chemical binding]; other site 1249531002190 active site 1249531002191 catalytic residues [active] 1249531002192 substrate binding site [chemical binding]; other site 1249531002193 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 1249531002194 catalytic core [active] 1249531002195 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 1249531002196 pyruvate kinase; Provisional; Region: PRK05826 1249531002197 active site 1249531002198 domain interfaces; other site 1249531002199 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 1249531002200 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249531002201 putative active site [active] 1249531002202 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1249531002203 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249531002204 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1249531002205 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 1249531002206 arogenate dehydrogenase; Region: PLN02256 1249531002207 recF protein; Region: recf; TIGR00611 1249531002208 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531002209 Walker A/P-loop; other site 1249531002210 ATP binding site [chemical binding]; other site 1249531002211 Q-loop/lid; other site 1249531002212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531002213 ABC transporter signature motif; other site 1249531002214 Walker B; other site 1249531002215 D-loop; other site 1249531002216 H-loop/switch region; other site 1249531002217 hypothetical protein; Validated; Region: PRK00153 1249531002218 recombination protein RecR; Reviewed; Region: recR; PRK00076 1249531002219 RecR protein; Region: RecR; pfam02132 1249531002220 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 1249531002221 putative active site [active] 1249531002222 putative metal-binding site [ion binding]; other site 1249531002223 tetramer interface [polypeptide binding]; other site 1249531002224 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 1249531002225 putative GSH binding site [chemical binding]; other site 1249531002226 catalytic residues [active] 1249531002227 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1249531002228 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 1249531002229 homodimer interface [polypeptide binding]; other site 1249531002230 substrate-cofactor binding pocket; other site 1249531002231 catalytic residue [active] 1249531002232 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 1249531002233 homotrimer interaction site [polypeptide binding]; other site 1249531002234 putative active site [active] 1249531002235 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1249531002236 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249531002237 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1249531002238 acyl-activating enzyme (AAE) consensus motif; other site 1249531002239 putative AMP binding site [chemical binding]; other site 1249531002240 putative active site [active] 1249531002241 putative CoA binding site [chemical binding]; other site 1249531002242 Protein of unknown function, DUF462; Region: DUF462; cl01190 1249531002243 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1249531002244 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1249531002245 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1249531002246 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 1249531002247 DsbD alpha interface [polypeptide binding]; other site 1249531002248 catalytic residues [active] 1249531002249 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1249531002250 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1249531002251 Walker A/P-loop; other site 1249531002252 ATP binding site [chemical binding]; other site 1249531002253 Q-loop/lid; other site 1249531002254 ABC transporter signature motif; other site 1249531002255 Walker B; other site 1249531002256 D-loop; other site 1249531002257 H-loop/switch region; other site 1249531002258 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1249531002259 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 1249531002260 substrate binding pocket [chemical binding]; other site 1249531002261 membrane-bound complex binding site; other site 1249531002262 hinge residues; other site 1249531002263 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249531002264 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 1249531002265 dimer interface [polypeptide binding]; other site 1249531002266 conserved gate region; other site 1249531002267 putative PBP binding loops; other site 1249531002268 ABC-ATPase subunit interface; other site 1249531002269 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 1249531002270 dimer interface [polypeptide binding]; other site 1249531002271 conserved gate region; other site 1249531002272 putative PBP binding loops; other site 1249531002273 ABC-ATPase subunit interface; other site 1249531002274 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1249531002275 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 1249531002276 Walker A motif; other site 1249531002277 ATP binding site [chemical binding]; other site 1249531002278 Walker B motif; other site 1249531002279 arginine finger; other site 1249531002280 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1249531002281 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1249531002282 RuvA N terminal domain; Region: RuvA_N; pfam01330 1249531002283 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1249531002284 helix-hairpin-helix signature motif; other site 1249531002285 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1249531002286 LysE type translocator; Region: LysE; cl00565 1249531002287 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1249531002288 tetramer interfaces [polypeptide binding]; other site 1249531002289 binuclear metal-binding site [ion binding]; other site 1249531002290 thiamine monophosphate kinase; Provisional; Region: PRK05731 1249531002291 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 1249531002292 ATP binding site [chemical binding]; other site 1249531002293 dimerization interface [polypeptide binding]; other site 1249531002294 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 1249531002295 putative RNA binding site [nucleotide binding]; other site 1249531002296 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1249531002297 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249531002298 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249531002299 Competence protein A; Region: Competence_A; pfam11104 1249531002300 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1249531002301 Transglycosylase; Region: Transgly; pfam00912 1249531002302 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249531002303 shikimate kinase; Reviewed; Region: aroK; PRK00131 1249531002304 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 1249531002305 ADP binding site [chemical binding]; other site 1249531002306 magnesium binding site [ion binding]; other site 1249531002307 putative shikimate binding site; other site 1249531002308 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1249531002309 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1249531002310 active site 1249531002311 dimer interface [polypeptide binding]; other site 1249531002312 metal binding site [ion binding]; metal-binding site 1249531002313 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1249531002314 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1249531002315 Na2 binding site [ion binding]; other site 1249531002316 putative substrate binding site 1 [chemical binding]; other site 1249531002317 Na binding site 1 [ion binding]; other site 1249531002318 putative substrate binding site 2 [chemical binding]; other site 1249531002319 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 1249531002320 Phosphoglycerate kinase; Region: PGK; pfam00162 1249531002321 substrate binding site [chemical binding]; other site 1249531002322 hinge regions; other site 1249531002323 ADP binding site [chemical binding]; other site 1249531002324 catalytic site [active] 1249531002325 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1249531002326 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 1249531002327 active site 1249531002328 intersubunit interface [polypeptide binding]; other site 1249531002329 zinc binding site [ion binding]; other site 1249531002330 Na+ binding site [ion binding]; other site 1249531002331 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1249531002332 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531002333 Walker A/P-loop; other site 1249531002334 ATP binding site [chemical binding]; other site 1249531002335 Q-loop/lid; other site 1249531002336 ABC transporter signature motif; other site 1249531002337 Walker B; other site 1249531002338 D-loop; other site 1249531002339 H-loop/switch region; other site 1249531002340 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1249531002341 dimer interface [polypeptide binding]; other site 1249531002342 FMN binding site [chemical binding]; other site 1249531002343 hypothetical protein; Provisional; Region: PRK05208 1249531002344 glutathione reductase; Validated; Region: PRK06116 1249531002345 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249531002346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249531002347 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1249531002348 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1249531002349 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1249531002350 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1249531002351 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1249531002352 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 1249531002353 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1249531002354 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 1249531002355 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_Formate-Dh-Na-like; cd02752 1249531002356 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 1249531002357 molybdopterin cofactor binding site; other site 1249531002358 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 1249531002359 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1249531002360 Membrane transport protein; Region: Mem_trans; cl09117 1249531002361 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 1249531002362 substrate binding site [chemical binding]; other site 1249531002363 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1249531002364 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1249531002365 active site 1249531002366 HIGH motif; other site 1249531002367 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1249531002368 KMSKS motif; other site 1249531002369 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1249531002370 tRNA binding surface [nucleotide binding]; other site 1249531002371 anticodon binding site; other site 1249531002372 homoserine kinase; Provisional; Region: PRK01212 1249531002373 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1249531002374 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1249531002375 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1249531002376 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1249531002377 putative catalytic residues [active] 1249531002378 putative nucleotide binding site [chemical binding]; other site 1249531002379 putative aspartate binding site [chemical binding]; other site 1249531002380 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1249531002381 dimer interface [polypeptide binding]; other site 1249531002382 putative threonine allosteric regulatory site; other site 1249531002383 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1249531002384 putative threonine allosteric regulatory site; other site 1249531002385 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1249531002386 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1249531002387 superoxide dismutase; Provisional; Region: PRK10925 1249531002388 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1249531002389 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1249531002390 alanine racemase; Reviewed; Region: alr; PRK00053 1249531002391 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1249531002392 active site 1249531002393 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249531002394 substrate binding site [chemical binding]; other site 1249531002395 catalytic residues [active] 1249531002396 dimer interface [polypeptide binding]; other site 1249531002397 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1249531002398 AAA domain; Region: AAA_30; pfam13604 1249531002399 Family description; Region: UvrD_C_2; pfam13538 1249531002400 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1249531002401 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 1249531002402 active site 1249531002403 dimer interface [polypeptide binding]; other site 1249531002404 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 1249531002405 dimer interface [polypeptide binding]; other site 1249531002406 active site 1249531002407 Membrane fusogenic activity; Region: BMFP; cl01115 1249531002408 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 1249531002409 Ligand Binding Site [chemical binding]; other site 1249531002410 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1249531002411 active site 1249531002412 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1249531002413 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 1249531002414 FeS/SAM binding site; other site 1249531002415 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531002416 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531002417 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531002418 Integrase core domain; Region: rve; pfam00665 1249531002419 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531002420 Integrase core domain; Region: rve_3; pfam13683 1249531002421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531002422 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1249531002423 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1249531002424 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1249531002425 aminotransferase AlaT; Validated; Region: PRK09265 1249531002426 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 1249531002427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531002428 homodimer interface [polypeptide binding]; other site 1249531002429 catalytic residue [active] 1249531002430 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1249531002431 EamA-like transporter family; Region: EamA; pfam00892 1249531002432 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249531002433 primosome assembly protein PriA; Validated; Region: PRK05580 1249531002434 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 1249531002435 ATP binding site [chemical binding]; other site 1249531002436 putative Mg++ binding site [ion binding]; other site 1249531002437 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1249531002438 nucleotide binding region [chemical binding]; other site 1249531002439 ATP-binding site [chemical binding]; other site 1249531002440 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1249531002441 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 1249531002442 putative active site [active] 1249531002443 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1249531002444 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1249531002445 putative trimer interface [polypeptide binding]; other site 1249531002446 putative CoA binding site [chemical binding]; other site 1249531002447 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1249531002448 NeuB family; Region: NeuB; pfam03102 1249531002449 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1249531002450 NeuB binding interface [polypeptide binding]; other site 1249531002451 putative substrate binding site [chemical binding]; other site 1249531002452 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1249531002453 ligand binding site; other site 1249531002454 tetramer interface; other site 1249531002455 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1249531002456 active site 1249531002457 catalytic triad [active] 1249531002458 oxyanion hole [active] 1249531002459 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1249531002460 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1249531002461 active site 1249531002462 homodimer interface [polypeptide binding]; other site 1249531002463 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1249531002464 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1249531002465 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1249531002466 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1249531002467 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 1249531002468 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249531002469 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 1249531002470 active site 1249531002471 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 1249531002472 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1249531002473 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 1249531002474 active site 1249531002475 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1249531002476 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1249531002477 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1249531002478 Nucleoside recognition; Region: Gate; pfam07670 1249531002479 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1249531002480 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1249531002481 intersubunit interface [polypeptide binding]; other site 1249531002482 active site 1249531002483 catalytic residue [active] 1249531002484 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1249531002485 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1249531002486 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1249531002487 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249531002488 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249531002489 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531002490 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1249531002491 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1249531002492 putative FMN binding site [chemical binding]; other site 1249531002493 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1249531002494 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1249531002495 putative active site [active] 1249531002496 putative FMN binding site [chemical binding]; other site 1249531002497 putative substrate binding site [chemical binding]; other site 1249531002498 putative catalytic residue [active] 1249531002499 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249531002500 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1249531002501 putative C-terminal domain interface [polypeptide binding]; other site 1249531002502 putative dimer interface [polypeptide binding]; other site 1249531002503 putative GSH binding site (G-site) [chemical binding]; other site 1249531002504 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1249531002505 N-terminal domain interface [polypeptide binding]; other site 1249531002506 dimer interface [polypeptide binding]; other site 1249531002507 substrate binding pocket (H-site) [chemical binding]; other site 1249531002508 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1249531002509 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1249531002510 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1249531002511 nucleotide binding site [chemical binding]; other site 1249531002512 homohexameric interface [polypeptide binding]; other site 1249531002513 N-acetyl-L-glutamate binding site [chemical binding]; other site 1249531002514 acetylornithine aminotransferase; Provisional; Region: PRK02627 1249531002515 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 1249531002516 inhibitor-cofactor binding pocket; inhibition site 1249531002517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531002518 catalytic residue [active] 1249531002519 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 1249531002520 active pocket/dimerization site; other site 1249531002521 active site 1249531002522 phosphorylation site [posttranslational modification] 1249531002523 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 1249531002524 active site 1249531002525 phosphorylation site [posttranslational modification] 1249531002526 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1249531002527 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1249531002528 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1249531002529 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1249531002530 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1249531002531 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1249531002532 catalytic core [active] 1249531002533 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1249531002534 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1249531002535 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 1249531002536 putative active site [active] 1249531002537 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 1249531002538 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249531002539 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1249531002540 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 1249531002541 putative active site [active] 1249531002542 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1249531002543 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1249531002544 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 1249531002545 RNA binding site [nucleotide binding]; other site 1249531002546 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 1249531002547 multimer interface [polypeptide binding]; other site 1249531002548 Walker A motif; other site 1249531002549 ATP binding site [chemical binding]; other site 1249531002550 Walker B motif; other site 1249531002551 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1249531002552 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 1249531002553 dimer interface [polypeptide binding]; other site 1249531002554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531002555 catalytic residue [active] 1249531002556 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1249531002557 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 1249531002558 interface (dimer of trimers) [polypeptide binding]; other site 1249531002559 Substrate-binding/catalytic site; other site 1249531002560 Zn-binding sites [ion binding]; other site 1249531002561 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1249531002562 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1249531002563 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1249531002564 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1249531002565 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1249531002566 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1249531002567 putative active site [active] 1249531002568 putative PHP Thumb interface [polypeptide binding]; other site 1249531002569 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 1249531002570 generic binding surface II; other site 1249531002571 generic binding surface I; other site 1249531002572 Cytochrome b562; Region: Cytochrom_B562; pfam07361 1249531002573 putative protease; Provisional; Region: PRK15452 1249531002574 Peptidase family U32; Region: Peptidase_U32; pfam01136 1249531002575 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1249531002576 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1249531002577 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 1249531002578 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1249531002579 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1249531002580 active site 1249531002581 (T/H)XGH motif; other site 1249531002582 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1249531002583 catalytic site [active] 1249531002584 putative active site [active] 1249531002585 putative substrate binding site [chemical binding]; other site 1249531002586 dimer interface [polypeptide binding]; other site 1249531002587 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1249531002588 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 1249531002589 active site 1249531002590 metal binding site [ion binding]; metal-binding site 1249531002591 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1249531002592 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249531002593 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1249531002594 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1249531002595 Spore germination protein; Region: Spore_permease; cl17796 1249531002596 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1249531002597 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1249531002598 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1249531002599 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1249531002600 putative catalytic cysteine [active] 1249531002601 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1249531002602 putative active site [active] 1249531002603 metal binding site [ion binding]; metal-binding site 1249531002604 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1249531002605 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 1249531002606 domain interfaces; other site 1249531002607 active site 1249531002608 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1249531002609 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 1249531002610 active site 1249531002611 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1249531002612 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1249531002613 HemY protein N-terminus; Region: HemY_N; pfam07219 1249531002614 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 1249531002615 TPR motif; other site 1249531002616 binding surface 1249531002617 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1249531002618 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 1249531002619 16S/18S rRNA binding site [nucleotide binding]; other site 1249531002620 S13e-L30e interaction site [polypeptide binding]; other site 1249531002621 25S rRNA binding site [nucleotide binding]; other site 1249531002622 periplasmic folding chaperone; Provisional; Region: PRK10788 1249531002623 SurA N-terminal domain; Region: SurA_N_3; cl07813 1249531002624 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249531002625 hypothetical protein; Provisional; Region: PRK11111 1249531002626 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1249531002627 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1249531002628 peptide binding site [polypeptide binding]; other site 1249531002629 antiporter inner membrane protein; Provisional; Region: PRK11670 1249531002630 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 1249531002631 Walker A motif; other site 1249531002632 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1249531002633 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1249531002634 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 1249531002635 homodecamer interface [polypeptide binding]; other site 1249531002636 active site 1249531002637 putative catalytic site residues [active] 1249531002638 zinc binding site [ion binding]; other site 1249531002639 GTP-CH-I/GFRP interaction surface; other site 1249531002640 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1249531002641 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1249531002642 dimerization interface 3.5A [polypeptide binding]; other site 1249531002643 active site 1249531002644 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1249531002645 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 1249531002646 metal-binding site [ion binding] 1249531002647 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1249531002648 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 1249531002649 motif II; other site 1249531002650 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 1249531002651 metal-binding site [ion binding] 1249531002652 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1249531002653 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1249531002654 DNA binding residues [nucleotide binding] 1249531002655 dimer interface [polypeptide binding]; other site 1249531002656 copper binding site [ion binding]; other site 1249531002657 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1249531002658 HicB family; Region: HicB; pfam05534 1249531002659 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1249531002660 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 1249531002661 ATP binding site [chemical binding]; other site 1249531002662 Mg2+ binding site [ion binding]; other site 1249531002663 G-X-G motif; other site 1249531002664 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 1249531002665 anchoring element; other site 1249531002666 dimer interface [polypeptide binding]; other site 1249531002667 ATP binding site [chemical binding]; other site 1249531002668 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 1249531002669 active site 1249531002670 putative metal-binding site [ion binding]; other site 1249531002671 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1249531002672 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1249531002673 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 1249531002674 homooctamer interface [polypeptide binding]; other site 1249531002675 active site 1249531002676 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249531002677 EamA-like transporter family; Region: EamA; pfam00892 1249531002678 EamA-like transporter family; Region: EamA; pfam00892 1249531002679 cytidine deaminase; Provisional; Region: PRK09027 1249531002680 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 1249531002681 active site 1249531002682 catalytic motif [active] 1249531002683 Zn binding site [ion binding]; other site 1249531002684 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 1249531002685 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1249531002686 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 1249531002687 transmembrane helices; other site 1249531002688 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 1249531002689 substrate binding site [chemical binding]; other site 1249531002690 THF binding site; other site 1249531002691 zinc-binding site [ion binding]; other site 1249531002692 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1249531002693 Clp amino terminal domain; Region: Clp_N; pfam02861 1249531002694 Clp amino terminal domain; Region: Clp_N; pfam02861 1249531002695 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 1249531002696 Walker A motif; other site 1249531002697 ATP binding site [chemical binding]; other site 1249531002698 Walker B motif; other site 1249531002699 arginine finger; other site 1249531002700 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 1249531002701 Walker A motif; other site 1249531002702 ATP binding site [chemical binding]; other site 1249531002703 Walker B motif; other site 1249531002704 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1249531002705 OmpW family; Region: OmpW; cl17427 1249531002706 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 1249531002707 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249531002708 catalytic residues [active] 1249531002709 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1249531002710 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 1249531002711 HflK protein; Region: hflK; TIGR01933 1249531002712 FtsH protease regulator HflC; Provisional; Region: PRK11029 1249531002713 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 1249531002714 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1249531002715 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 1249531002716 GDP-binding site [chemical binding]; other site 1249531002717 ACT binding site; other site 1249531002718 IMP binding site; other site 1249531002719 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1249531002720 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 1249531002721 non-specific DNA binding site [nucleotide binding]; other site 1249531002722 salt bridge; other site 1249531002723 sequence-specific DNA binding site [nucleotide binding]; other site 1249531002724 Phage-related protein, tail component [Function unknown]; Region: COG4723 1249531002725 NlpC/P60 family; Region: NLPC_P60; cl17555 1249531002726 tape measure domain; Region: tape_meas_nterm; TIGR02675 1249531002727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1249531002728 RelB antitoxin; Region: RelB; cl01171 1249531002729 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1249531002730 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1249531002731 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 1249531002732 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1249531002733 integrase; Provisional; Region: int; PHA02601 1249531002734 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 1249531002735 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531002736 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531002737 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531002738 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1249531002739 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 1249531002740 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1249531002741 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1249531002742 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 1249531002743 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 1249531002744 non-specific DNA binding site [nucleotide binding]; other site 1249531002745 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1249531002746 salt bridge; other site 1249531002747 sequence-specific DNA binding site [nucleotide binding]; other site 1249531002748 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 1249531002749 Catalytic site [active] 1249531002750 RNA polymerases N / 8 kDa subunit; Region: RNA_pol_N; cl00712 1249531002751 Abi-like protein; Region: Abi_2; pfam07751 1249531002752 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1249531002753 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 1249531002754 dimer interface [polypeptide binding]; other site 1249531002755 ssDNA binding site [nucleotide binding]; other site 1249531002756 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249531002757 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 1249531002758 active site 1249531002759 DNA binding site [nucleotide binding] 1249531002760 Int/Topo IB signature motif; other site 1249531002761 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1249531002762 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1249531002763 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1249531002764 homodimer interface [polypeptide binding]; other site 1249531002765 NADP binding site [chemical binding]; other site 1249531002766 substrate binding site [chemical binding]; other site 1249531002767 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1249531002768 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1249531002769 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 1249531002770 Ligand Binding Site [chemical binding]; other site 1249531002771 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 1249531002772 active site residue [active] 1249531002773 YwiC-like protein; Region: YwiC; pfam14256 1249531002774 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 1249531002775 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1249531002776 active site 1249531002777 ADP/pyrophosphate binding site [chemical binding]; other site 1249531002778 dimerization interface [polypeptide binding]; other site 1249531002779 allosteric effector site; other site 1249531002780 fructose-1,6-bisphosphate binding site; other site 1249531002781 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1249531002782 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 1249531002783 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249531002784 catalytic residue [active] 1249531002785 Cupin superfamily protein; Region: Cupin_4; pfam08007 1249531002786 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1249531002787 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531002788 Cupin-like domain; Region: Cupin_8; pfam13621 1249531002789 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1249531002790 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249531002791 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 1249531002792 putative active site [active] 1249531002793 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249531002794 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1249531002795 Walker A/P-loop; other site 1249531002796 ATP binding site [chemical binding]; other site 1249531002797 Q-loop/lid; other site 1249531002798 Staphylococcal nuclease homologues; Region: SNc; smart00318 1249531002799 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1249531002800 Catalytic site; other site 1249531002801 Excalibur calcium-binding domain; Region: Excalibur; cl05460 1249531002802 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1249531002803 amino acid carrier protein; Region: agcS; TIGR00835 1249531002804 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1249531002805 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1249531002806 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1249531002807 hypothetical protein; Validated; Region: PRK00228 1249531002808 RNA methyltransferase, RsmE family; Region: TIGR00046 1249531002809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1249531002810 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1249531002811 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1249531002812 BolA-like protein; Region: BolA; cl00386 1249531002813 NlpE N-terminal domain; Region: NlpE; pfam04170 1249531002814 Protein of unknown function (DUF721); Region: DUF721; cl02324 1249531002815 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 1249531002816 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1249531002817 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1249531002818 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1249531002819 nucleotide binding region [chemical binding]; other site 1249531002820 ATP-binding site [chemical binding]; other site 1249531002821 SEC-C motif; Region: SEC-C; pfam02810 1249531002822 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 1249531002823 active site 1249531002824 8-oxo-dGMP binding site [chemical binding]; other site 1249531002825 nudix motif; other site 1249531002826 metal binding site [ion binding]; metal-binding site 1249531002827 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531002828 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531002829 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531002830 Integrase core domain; Region: rve; pfam00665 1249531002831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531002832 Integrase core domain; Region: rve_3; pfam13683 1249531002833 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 1249531002834 oligomerisation interface [polypeptide binding]; other site 1249531002835 mobile loop; other site 1249531002836 roof hairpin; other site 1249531002837 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1249531002838 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 1249531002839 ring oligomerisation interface [polypeptide binding]; other site 1249531002840 ATP/Mg binding site [chemical binding]; other site 1249531002841 stacking interactions; other site 1249531002842 hinge regions; other site 1249531002843 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1249531002844 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1249531002845 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1249531002846 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1249531002847 cyd operon protein YbgE; Region: cyd_oper_ybgE; TIGR02112 1249531002848 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 1249531002849 active site 1249531002850 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1249531002851 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249531002852 colicin uptake protein TolR; Provisional; Region: PRK11024 1249531002853 TolA C-terminal; Region: TolA; pfam06519 1249531002854 translocation protein TolB; Provisional; Region: tolB; PRK01742 1249531002855 TolB amino-terminal domain; Region: TolB_N; pfam04052 1249531002856 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1249531002857 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1249531002858 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1249531002859 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249531002860 ligand binding site [chemical binding]; other site 1249531002861 EamA-like transporter family; Region: EamA; pfam00892 1249531002862 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1249531002863 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1249531002864 putative metal binding site [ion binding]; other site 1249531002865 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 1249531002866 HSP70 interaction site [polypeptide binding]; other site 1249531002867 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1249531002868 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 1249531002869 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1249531002870 FMN binding site [chemical binding]; other site 1249531002871 active site 1249531002872 catalytic residues [active] 1249531002873 substrate binding site [chemical binding]; other site 1249531002874 hypothetical protein; Provisional; Region: PRK05415 1249531002875 Domain of unknown function (DUF697); Region: DUF697; cl12064 1249531002876 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 1249531002877 catalytic core [active] 1249531002878 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1249531002879 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249531002880 active site 1249531002881 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249531002882 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1249531002883 putative C-terminal domain interface [polypeptide binding]; other site 1249531002884 putative GSH binding site (G-site) [chemical binding]; other site 1249531002885 putative dimer interface [polypeptide binding]; other site 1249531002886 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1249531002887 N-terminal domain interface [polypeptide binding]; other site 1249531002888 dimer interface [polypeptide binding]; other site 1249531002889 substrate binding pocket (H-site) [chemical binding]; other site 1249531002890 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 1249531002891 sequence-specific DNA binding site [nucleotide binding]; other site 1249531002892 salt bridge; other site 1249531002893 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1249531002894 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531002895 Walker A/P-loop; other site 1249531002896 ATP binding site [chemical binding]; other site 1249531002897 Q-loop/lid; other site 1249531002898 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249531002899 ABC transporter signature motif; other site 1249531002900 Walker B; other site 1249531002901 D-loop; other site 1249531002902 ABC transporter; Region: ABC_tran_2; pfam12848 1249531002903 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249531002904 AAA domain; Region: AAA_14; pfam13173 1249531002905 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1249531002906 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1249531002907 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1249531002908 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 1249531002909 dimer interface [polypeptide binding]; other site 1249531002910 putative functional site; other site 1249531002911 putative MPT binding site; other site 1249531002912 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1249531002913 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 1249531002914 ATP binding site [chemical binding]; other site 1249531002915 substrate interface [chemical binding]; other site 1249531002916 Protein of unknown function, DUF412; Region: DUF412; cl01183 1249531002917 intracellular septation protein A; Reviewed; Region: PRK00259 1249531002918 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 1249531002919 YciI-like protein; Reviewed; Region: PRK11370 1249531002920 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1249531002921 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1249531002922 metal binding triad; other site 1249531002923 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1249531002924 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1249531002925 metal binding triad; other site 1249531002926 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1249531002927 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1249531002928 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1249531002929 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 1249531002930 ATP binding site [chemical binding]; other site 1249531002931 putative Mg++ binding site [ion binding]; other site 1249531002932 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1249531002933 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249531002934 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249531002935 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249531002936 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1249531002937 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1249531002938 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1249531002939 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 1249531002940 Der GTPase activator; Provisional; Region: PRK05244 1249531002941 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1249531002942 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1249531002943 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 1249531002944 FeS/SAM binding site; other site 1249531002945 HemN C-terminal domain; Region: HemN_C; pfam06969 1249531002946 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1249531002947 OstA-like protein; Region: OstA; pfam03968 1249531002948 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1249531002949 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1249531002950 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1249531002951 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1249531002952 Na binding site [ion binding]; other site 1249531002953 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1249531002954 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 1249531002955 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 1249531002956 active site 1249531002957 DNA binding site [nucleotide binding] 1249531002958 Int/Topo IB signature motif; other site 1249531002959 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1249531002960 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1249531002961 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 1249531002962 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1249531002963 Prophage antirepressor [Transcription]; Region: COG3617 1249531002964 BRO family, N-terminal domain; Region: Bro-N; smart01040 1249531002965 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1249531002966 KilA-N domain; Region: KilA-N; pfam04383 1249531002967 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1249531002968 putative metal binding site [ion binding]; other site 1249531002969 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1249531002970 Uncharacterized conserved protein (DUF2303); Region: DUF2303; pfam10065 1249531002971 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1249531002972 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 1249531002973 dimer interface [polypeptide binding]; other site 1249531002974 ssDNA binding site [nucleotide binding]; other site 1249531002975 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249531002976 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 1249531002977 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249531002978 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 1249531002979 Catalytic site [active] 1249531002980 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1249531002981 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1249531002982 Helix-turn-helix domain; Region: HTH_36; pfam13730 1249531002983 Replication protein P; Region: Phage_lambda_P; pfam06992 1249531002984 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1249531002985 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1249531002986 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1249531002987 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1249531002988 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1249531002989 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 1249531002990 Predicted chitinase [General function prediction only]; Region: COG3179 1249531002991 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1249531002992 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 1249531002993 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1249531002994 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1249531002995 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1249531002996 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1249531002997 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1249531002998 oligomer interface [polypeptide binding]; other site 1249531002999 active site residues [active] 1249531003000 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1249531003001 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 1249531003002 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 1249531003003 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1249531003004 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1249531003005 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1249531003006 Phage-related minor tail protein [Function unknown]; Region: COG5281 1249531003007 tape measure domain; Region: tape_meas_nterm; TIGR02675 1249531003008 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 1249531003009 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1249531003010 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1249531003011 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1249531003012 Phage-related protein [Function unknown]; Region: gp18; COG4672 1249531003013 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1249531003014 MPN+ (JAMM) motif; other site 1249531003015 Zinc-binding site [ion binding]; other site 1249531003016 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1249531003017 NlpC/P60 family; Region: NLPC_P60; cl17555 1249531003018 Phage-related protein, tail component [Function unknown]; Region: COG4723 1249531003019 Phage-related protein, tail component [Function unknown]; Region: COG4733 1249531003020 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1249531003021 Protein of unknown function (DUF1664); Region: DUF1664; pfam07889 1249531003022 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1249531003023 exonuclease I; Provisional; Region: sbcB; PRK11779 1249531003024 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1249531003025 active site 1249531003026 catalytic site [active] 1249531003027 substrate binding site [chemical binding]; other site 1249531003028 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1249531003029 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1249531003030 putative active site [active] 1249531003031 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1249531003032 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1249531003033 active site 1249531003034 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1249531003035 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1249531003036 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1249531003037 Imelysin; Region: Peptidase_M75; pfam09375 1249531003038 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1249531003039 excinuclease ABC subunit B; Provisional; Region: PRK05298 1249531003040 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 1249531003041 ATP binding site [chemical binding]; other site 1249531003042 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 1249531003043 nucleotide binding region [chemical binding]; other site 1249531003044 ATP-binding site [chemical binding]; other site 1249531003045 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1249531003046 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1249531003047 ATP-grasp domain; Region: ATP-grasp; pfam02222 1249531003048 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1249531003049 active site 1249531003050 homotetramer interface [polypeptide binding]; other site 1249531003051 homodimer interface [polypeptide binding]; other site 1249531003052 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1249531003053 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249531003054 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 1249531003055 C-terminal domain interface [polypeptide binding]; other site 1249531003056 putative GSH binding site (G-site) [chemical binding]; other site 1249531003057 dimer interface [polypeptide binding]; other site 1249531003058 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1249531003059 dimer interface [polypeptide binding]; other site 1249531003060 N-terminal domain interface [polypeptide binding]; other site 1249531003061 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1249531003062 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1249531003063 zinc binding site [ion binding]; other site 1249531003064 putative ligand binding site [chemical binding]; other site 1249531003065 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249531003066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531003067 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1249531003068 putative effector binding pocket; other site 1249531003069 dimerization interface [polypeptide binding]; other site 1249531003070 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1249531003071 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 1249531003072 active site 1249531003073 interdomain interaction site; other site 1249531003074 putative metal-binding site [ion binding]; other site 1249531003075 nucleotide binding site [chemical binding]; other site 1249531003076 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 1249531003077 domain I; other site 1249531003078 DNA binding groove [nucleotide binding] 1249531003079 phosphate binding site [ion binding]; other site 1249531003080 domain II; other site 1249531003081 domain III; other site 1249531003082 nucleotide binding site [chemical binding]; other site 1249531003083 catalytic site [active] 1249531003084 domain IV; other site 1249531003085 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249531003086 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249531003087 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1249531003088 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1249531003089 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1249531003090 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1249531003091 putative substrate binding pocket [chemical binding]; other site 1249531003092 dimer interface [polypeptide binding]; other site 1249531003093 phosphate binding site [ion binding]; other site 1249531003094 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1249531003095 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1249531003096 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249531003097 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 1249531003098 S-adenosylmethionine binding site [chemical binding]; other site 1249531003099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1249531003100 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1249531003101 AAA domain; Region: AAA_26; pfam13500 1249531003102 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1249531003103 ribonuclease D; Provisional; Region: PRK10829 1249531003104 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1249531003105 catalytic site [active] 1249531003106 putative active site [active] 1249531003107 putative substrate binding site [chemical binding]; other site 1249531003108 HRDC domain; Region: HRDC; pfam00570 1249531003109 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1249531003110 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 1249531003111 dimerization interface [polypeptide binding]; other site 1249531003112 putative DNA binding site [nucleotide binding]; other site 1249531003113 putative Zn2+ binding site [ion binding]; other site 1249531003114 AsnC family; Region: AsnC_trans_reg; pfam01037 1249531003115 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1249531003116 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1249531003117 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1249531003118 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1249531003119 Predicted metalloprotease [General function prediction only]; Region: COG2321 1249531003120 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1249531003121 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1249531003122 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249531003123 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1249531003124 Glycoprotease family; Region: Peptidase_M22; pfam00814 1249531003125 Predicted permeases [General function prediction only]; Region: COG0730 1249531003126 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1249531003127 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 1249531003128 ligand binding site [chemical binding]; other site 1249531003129 flexible hinge region; other site 1249531003130 putative transporter; Provisional; Region: PRK10484 1249531003131 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1249531003132 Na binding site [ion binding]; other site 1249531003133 Sulfatase; Region: Sulfatase; cl17466 1249531003134 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1249531003135 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1249531003136 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 1249531003137 FeS/SAM binding site; other site 1249531003138 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1249531003139 thymidine kinase; Provisional; Region: PRK04296 1249531003140 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1249531003141 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 1249531003142 active site 1249531003143 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 1249531003144 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 1249531003145 proline aminopeptidase P II; Provisional; Region: PRK10879 1249531003146 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1249531003147 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 1249531003148 active site 1249531003149 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1249531003150 N-acetylglutamate synthase; Validated; Region: PRK05279 1249531003151 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1249531003152 putative feedback inhibition sensing region; other site 1249531003153 putative nucleotide binding site [chemical binding]; other site 1249531003154 putative substrate binding site [chemical binding]; other site 1249531003155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249531003156 Coenzyme A binding pocket [chemical binding]; other site 1249531003157 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531003158 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531003159 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531003160 Integrase core domain; Region: rve; pfam00665 1249531003161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531003162 Integrase core domain; Region: rve_3; pfam13683 1249531003163 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249531003164 EamA-like transporter family; Region: EamA; cl17759 1249531003165 EamA-like transporter family; Region: EamA; pfam00892 1249531003166 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1249531003167 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1249531003168 putative valine binding site [chemical binding]; other site 1249531003169 dimer interface [polypeptide binding]; other site 1249531003170 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1249531003171 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 1249531003172 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249531003173 PYR/PP interface [polypeptide binding]; other site 1249531003174 dimer interface [polypeptide binding]; other site 1249531003175 TPP binding site [chemical binding]; other site 1249531003176 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249531003177 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1249531003178 TPP-binding site [chemical binding]; other site 1249531003179 dimer interface [polypeptide binding]; other site 1249531003180 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 1249531003181 active site clefts [active] 1249531003182 zinc binding site [ion binding]; other site 1249531003183 dimer interface [polypeptide binding]; other site 1249531003184 phosphate acetyltransferase; Reviewed; Region: PRK05632 1249531003185 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1249531003186 DRTGG domain; Region: DRTGG; pfam07085 1249531003187 phosphate acetyltransferase; Region: pta; TIGR00651 1249531003188 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1249531003189 propionate/acetate kinase; Provisional; Region: PRK12379 1249531003190 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1249531003191 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1249531003192 active site 1249531003193 metal binding site [ion binding]; metal-binding site 1249531003194 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1249531003195 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1249531003196 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 1249531003197 active site 1249531003198 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531003199 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531003200 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531003201 Integrase core domain; Region: rve; pfam00665 1249531003202 Integrase core domain; Region: rve_3; pfam13683 1249531003203 Phage replication protein CRI; Region: Phage_CRI; pfam05144 1249531003204 Phage X family; Region: Phage_X; cl11585 1249531003205 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531003206 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531003207 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531003208 Integrase core domain; Region: rve; pfam00665 1249531003209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531003210 Integrase core domain; Region: rve_3; pfam13683 1249531003211 Zonular occludens toxin (Zot); Region: Zot; cl17485 1249531003212 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 1249531003213 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1249531003214 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249531003215 chloroplast protein import component Toc86/159, G and M domains; Region: 3a0901s04IAP86; TIGR00993 1249531003216 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1249531003217 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 1249531003218 homodimer interface [polypeptide binding]; other site 1249531003219 substrate-cofactor binding pocket; other site 1249531003220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531003221 catalytic residue [active] 1249531003222 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1249531003223 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1249531003224 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1249531003225 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1249531003226 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1249531003227 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1249531003228 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1249531003229 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 1249531003230 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1249531003231 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1249531003232 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249531003233 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 1249531003234 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1249531003235 molybdopterin cofactor binding site [chemical binding]; other site 1249531003236 substrate binding site [chemical binding]; other site 1249531003237 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 1249531003238 molybdopterin cofactor binding site; other site 1249531003239 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1249531003240 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1249531003241 substrate binding site [chemical binding]; other site 1249531003242 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1249531003243 substrate binding site [chemical binding]; other site 1249531003244 ligand binding site [chemical binding]; other site 1249531003245 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1249531003246 isocitrate dehydrogenase; Validated; Region: PRK07362 1249531003247 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1249531003248 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1249531003249 dimer interface [polypeptide binding]; other site 1249531003250 active site 1249531003251 citrylCoA binding site [chemical binding]; other site 1249531003252 NADH binding [chemical binding]; other site 1249531003253 cationic pore residues; other site 1249531003254 oxalacetate/citrate binding site [chemical binding]; other site 1249531003255 coenzyme A binding site [chemical binding]; other site 1249531003256 catalytic triad [active] 1249531003257 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1249531003258 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1249531003259 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 1249531003260 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1249531003261 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1249531003262 DNA methylase; Region: N6_N4_Mtase; cl17433 1249531003263 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 1249531003264 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1249531003265 molybdopterin cofactor binding site [chemical binding]; other site 1249531003266 substrate binding site [chemical binding]; other site 1249531003267 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 1249531003268 molybdopterin cofactor binding site; other site 1249531003269 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1249531003270 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1249531003271 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249531003272 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 1249531003273 DNA binding residues [nucleotide binding] 1249531003274 dimerization interface [polypeptide binding]; other site 1249531003275 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1249531003276 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1249531003277 ligand binding site [chemical binding]; other site 1249531003278 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1249531003279 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 1249531003280 FeS/SAM binding site; other site 1249531003281 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1249531003282 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 1249531003283 trimer interface [polypeptide binding]; other site 1249531003284 dimer interface [polypeptide binding]; other site 1249531003285 putative active site [active] 1249531003286 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1249531003287 MoaE interaction surface [polypeptide binding]; other site 1249531003288 MoeB interaction surface [polypeptide binding]; other site 1249531003289 thiocarboxylated glycine; other site 1249531003290 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 1249531003291 MoaE homodimer interface [polypeptide binding]; other site 1249531003292 MoaD interaction [polypeptide binding]; other site 1249531003293 active site residues [active] 1249531003294 metal-binding heat shock protein; Provisional; Region: PRK00016 1249531003295 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1249531003296 Helicase; Region: Helicase_RecD; pfam05127 1249531003297 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249531003298 Coenzyme A binding pocket [chemical binding]; other site 1249531003299 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1249531003300 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 1249531003301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531003302 homodimer interface [polypeptide binding]; other site 1249531003303 catalytic residue [active] 1249531003304 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1249531003305 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249531003306 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1249531003307 G4 box; other site 1249531003308 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1249531003309 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1249531003310 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1249531003311 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 1249531003312 metal binding site [ion binding]; metal-binding site 1249531003313 homodimer interface [polypeptide binding]; other site 1249531003314 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 1249531003315 homodimer interface [polypeptide binding]; other site 1249531003316 active site 1249531003317 putative chemical substrate binding site [chemical binding]; other site 1249531003318 metal binding site [ion binding]; metal-binding site 1249531003319 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1249531003320 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 1249531003321 active site 1249531003322 phosphorylation site [posttranslational modification] 1249531003323 intermolecular recognition site; other site 1249531003324 dimerization interface [polypeptide binding]; other site 1249531003325 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 1249531003326 DNA binding site [nucleotide binding] 1249531003327 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531003328 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531003329 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531003330 Integrase core domain; Region: rve; pfam00665 1249531003331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531003332 Integrase core domain; Region: rve_3; pfam13683 1249531003333 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1249531003334 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 1249531003335 dimerization interface [polypeptide binding]; other site 1249531003336 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 1249531003337 dimer interface [polypeptide binding]; other site 1249531003338 phosphorylation site [posttranslational modification] 1249531003339 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 1249531003340 ATP binding site [chemical binding]; other site 1249531003341 Mg2+ binding site [ion binding]; other site 1249531003342 G-X-G motif; other site 1249531003343 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1249531003344 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1249531003345 Walker A/P-loop; other site 1249531003346 ATP binding site [chemical binding]; other site 1249531003347 Q-loop/lid; other site 1249531003348 ABC transporter signature motif; other site 1249531003349 Walker B; other site 1249531003350 D-loop; other site 1249531003351 H-loop/switch region; other site 1249531003352 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249531003353 FtsX-like permease family; Region: FtsX; pfam02687 1249531003354 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1249531003355 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1249531003356 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1249531003357 dimer interface [polypeptide binding]; other site 1249531003358 putative radical transfer pathway; other site 1249531003359 diiron center [ion binding]; other site 1249531003360 tyrosyl radical; other site 1249531003361 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1249531003362 ATP cone domain; Region: ATP-cone; pfam03477 1249531003363 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1249531003364 active site 1249531003365 dimer interface [polypeptide binding]; other site 1249531003366 catalytic residues [active] 1249531003367 effector binding site; other site 1249531003368 R2 peptide binding site; other site 1249531003369 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1249531003370 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 1249531003371 TPR repeat; Region: TPR_11; pfam13414 1249531003372 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 1249531003373 binding surface 1249531003374 TPR motif; other site 1249531003375 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1249531003376 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1249531003377 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1249531003378 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1249531003379 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1249531003380 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1249531003381 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1249531003382 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1249531003383 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1249531003384 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1249531003385 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 1249531003386 protein-splicing catalytic site; other site 1249531003387 thioester formation/cholesterol transfer; other site 1249531003388 Pretoxin HINT domain; Region: PT-HINT; pfam07591 1249531003389 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 1249531003390 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1249531003391 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1249531003392 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1249531003393 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1249531003394 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1249531003395 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1249531003396 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1249531003397 Competence protein; Region: Competence; pfam03772 1249531003398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1249531003399 serine/threonine transporter SstT; Provisional; Region: PRK13628 1249531003400 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1249531003401 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1249531003402 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1249531003403 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1249531003404 active site 1249531003405 metal binding site [ion binding]; metal-binding site 1249531003406 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1249531003407 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249531003408 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249531003409 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 1249531003410 putative active site [active] 1249531003411 Domain of unknown function (DUF386); Region: DUF386; cl01047 1249531003412 exopolyphosphatase; Provisional; Region: PRK10854 1249531003413 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1249531003414 hypothetical protein; Provisional; Region: PRK05423 1249531003415 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1249531003416 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1249531003417 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 1249531003418 active site turn [active] 1249531003419 phosphorylation site [posttranslational modification] 1249531003420 aspartate kinase III; Validated; Region: PRK09084 1249531003421 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 1249531003422 nucleotide binding site [chemical binding]; other site 1249531003423 substrate binding site [chemical binding]; other site 1249531003424 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1249531003425 lysine allosteric regulatory site; other site 1249531003426 dimer interface [polypeptide binding]; other site 1249531003427 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1249531003428 dimer interface [polypeptide binding]; other site 1249531003429 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1249531003430 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 1249531003431 CAP-like domain; other site 1249531003432 active site 1249531003433 primary dimer interface [polypeptide binding]; other site 1249531003434 PBP superfamily domain; Region: PBP_like_2; cl17296 1249531003435 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 1249531003436 dimer interface [polypeptide binding]; other site 1249531003437 conserved gate region; other site 1249531003438 putative PBP binding loops; other site 1249531003439 ABC-ATPase subunit interface; other site 1249531003440 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1249531003441 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 1249531003442 dimer interface [polypeptide binding]; other site 1249531003443 conserved gate region; other site 1249531003444 putative PBP binding loops; other site 1249531003445 ABC-ATPase subunit interface; other site 1249531003446 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1249531003447 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1249531003448 Walker A/P-loop; other site 1249531003449 ATP binding site [chemical binding]; other site 1249531003450 Q-loop/lid; other site 1249531003451 ABC transporter signature motif; other site 1249531003452 Walker B; other site 1249531003453 D-loop; other site 1249531003454 H-loop/switch region; other site 1249531003455 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1249531003456 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 1249531003457 active site 1249531003458 phosphorylation site [posttranslational modification] 1249531003459 intermolecular recognition site; other site 1249531003460 dimerization interface [polypeptide binding]; other site 1249531003461 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 1249531003462 DNA binding site [nucleotide binding] 1249531003463 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1249531003464 PAS domain; Region: PAS; smart00091 1249531003465 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 1249531003466 dimer interface [polypeptide binding]; other site 1249531003467 phosphorylation site [posttranslational modification] 1249531003468 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 1249531003469 ATP binding site [chemical binding]; other site 1249531003470 Mg2+ binding site [ion binding]; other site 1249531003471 G-X-G motif; other site 1249531003472 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1249531003473 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1249531003474 RNase E interface [polypeptide binding]; other site 1249531003475 trimer interface [polypeptide binding]; other site 1249531003476 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1249531003477 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1249531003478 RNase E interface [polypeptide binding]; other site 1249531003479 trimer interface [polypeptide binding]; other site 1249531003480 active site 1249531003481 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 1249531003482 putative nucleic acid binding region [nucleotide binding]; other site 1249531003483 G-X-X-G motif; other site 1249531003484 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 1249531003485 RNA binding site [nucleotide binding]; other site 1249531003486 domain interface; other site 1249531003487 lipoprotein NlpI; Provisional; Region: PRK11189 1249531003488 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 1249531003489 binding surface 1249531003490 TPR motif; other site 1249531003491 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 1249531003492 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 1249531003493 ATP binding site [chemical binding]; other site 1249531003494 Mg++ binding site [ion binding]; other site 1249531003495 motif III; other site 1249531003496 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 1249531003497 nucleotide binding region [chemical binding]; other site 1249531003498 ATP-binding site [chemical binding]; other site 1249531003499 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1249531003500 putative RNA binding site [nucleotide binding]; other site 1249531003501 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 1249531003502 nucleoside/Zn binding site; other site 1249531003503 dimer interface [polypeptide binding]; other site 1249531003504 catalytic motif [active] 1249531003505 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1249531003506 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 1249531003507 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249531003508 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1249531003509 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1249531003510 RNA binding site [nucleotide binding]; other site 1249531003511 active site 1249531003512 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1249531003513 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1249531003514 translation initiation factor IF-2; Region: IF-2; TIGR00487 1249531003515 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1249531003516 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1249531003517 G1 box; other site 1249531003518 putative GEF interaction site [polypeptide binding]; other site 1249531003519 GTP/Mg2+ binding site [chemical binding]; other site 1249531003520 Switch I region; other site 1249531003521 G2 box; other site 1249531003522 G3 box; other site 1249531003523 Switch II region; other site 1249531003524 G4 box; other site 1249531003525 G5 box; other site 1249531003526 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 1249531003527 Translation-initiation factor 2; Region: IF-2; pfam11987 1249531003528 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 1249531003529 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1249531003530 NusA N-terminal domain; Region: NusA_N; pfam08529 1249531003531 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 1249531003532 RNA binding site [nucleotide binding]; other site 1249531003533 homodimer interface [polypeptide binding]; other site 1249531003534 NusA-like KH domain; Region: KH_5; pfam13184 1249531003535 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 1249531003536 G-X-X-G motif; other site 1249531003537 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1249531003538 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1249531003539 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1249531003540 Sm and related proteins; Region: Sm_like; cl00259 1249531003541 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1249531003542 putative oligomer interface [polypeptide binding]; other site 1249531003543 putative RNA binding site [nucleotide binding]; other site 1249531003544 lytic murein transglycosylase; Provisional; Region: PRK11619 1249531003545 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 1249531003546 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249531003547 catalytic residue [active] 1249531003548 translation initiation factor Sui1; Validated; Region: PRK06824 1249531003549 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1249531003550 putative rRNA binding site [nucleotide binding]; other site 1249531003551 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 1249531003552 active site 1249531003553 dimer interface [polypeptide binding]; other site 1249531003554 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1249531003555 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 1249531003556 binding surface 1249531003557 TPR motif; other site 1249531003558 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 1249531003559 TPR motif; other site 1249531003560 binding surface 1249531003561 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 1249531003562 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1249531003563 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 1249531003564 IHF dimer interface [polypeptide binding]; other site 1249531003565 IHF - DNA interface [nucleotide binding]; other site 1249531003566 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1249531003567 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 1249531003568 RNA binding site [nucleotide binding]; other site 1249531003569 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 1249531003570 RNA binding site [nucleotide binding]; other site 1249531003571 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 1249531003572 RNA binding site [nucleotide binding]; other site 1249531003573 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 1249531003574 RNA binding site [nucleotide binding]; other site 1249531003575 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 1249531003576 RNA binding site [nucleotide binding]; other site 1249531003577 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1249531003578 RNA binding site [nucleotide binding]; other site 1249531003579 cytidylate kinase; Provisional; Region: cmk; PRK00023 1249531003580 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 1249531003581 CMP-binding site; other site 1249531003582 The sites determining sugar specificity; other site 1249531003583 serine endoprotease; Provisional; Region: PRK10898 1249531003584 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1249531003585 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 1249531003586 protein binding site [polypeptide binding]; other site 1249531003587 NlpC/P60 family; Region: NLPC_P60; pfam00877 1249531003588 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 1249531003589 IHF dimer interface [polypeptide binding]; other site 1249531003590 IHF - DNA interface [nucleotide binding]; other site 1249531003591 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1249531003592 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 1249531003593 putative tRNA-binding site [nucleotide binding]; other site 1249531003594 B3/4 domain; Region: B3_4; pfam03483 1249531003595 tRNA synthetase B5 domain; Region: B5; smart00874 1249531003596 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 1249531003597 dimer interface [polypeptide binding]; other site 1249531003598 motif 1; other site 1249531003599 motif 3; other site 1249531003600 motif 2; other site 1249531003601 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1249531003602 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1249531003603 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1249531003604 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 1249531003605 dimer interface [polypeptide binding]; other site 1249531003606 motif 1; other site 1249531003607 active site 1249531003608 motif 2; other site 1249531003609 motif 3; other site 1249531003610 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 1249531003611 dimer interface [polypeptide binding]; other site 1249531003612 FMN binding site [chemical binding]; other site 1249531003613 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1249531003614 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1249531003615 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 1249531003616 Cation efflux family; Region: Cation_efflux; cl00316 1249531003617 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1249531003618 hypothetical protein; Validated; Region: PRK02101 1249531003619 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1249531003620 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1249531003621 active site 1249531003622 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1249531003623 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1249531003624 putative active site [active] 1249531003625 putative nucleic acid binding site [nucleotide binding]; other site 1249531003626 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1249531003627 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1249531003628 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1249531003629 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1249531003630 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 1249531003631 23S rRNA interface [nucleotide binding]; other site 1249531003632 L3 interface [polypeptide binding]; other site 1249531003633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1249531003634 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 1249531003635 GMP synthase; Reviewed; Region: guaA; PRK00074 1249531003636 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1249531003637 AMP/PPi binding site [chemical binding]; other site 1249531003638 candidate oxyanion hole; other site 1249531003639 catalytic triad [active] 1249531003640 potential glutamine specificity residues [chemical binding]; other site 1249531003641 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 1249531003642 ATP Binding subdomain [chemical binding]; other site 1249531003643 Ligand Binding sites [chemical binding]; other site 1249531003644 Dimerization subdomain; other site 1249531003645 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1249531003646 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 1249531003647 motif II; other site 1249531003648 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1249531003649 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 1249531003650 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 1249531003651 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 1249531003652 active site 1249531003653 multidrug efflux protein; Reviewed; Region: PRK09579 1249531003654 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1249531003655 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249531003656 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249531003657 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249531003658 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249531003659 hypothetical protein; Provisional; Region: PRK13689 1249531003660 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1249531003661 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1249531003662 Sulfatase; Region: Sulfatase; cl17466 1249531003663 putative arabinose transporter; Provisional; Region: PRK03545 1249531003664 putative arabinose transporter; Provisional; Region: PRK03545 1249531003665 cell division protein MukB; Provisional; Region: mukB; PRK04863 1249531003666 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1249531003667 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1249531003668 condesin subunit E; Provisional; Region: PRK05256 1249531003669 condesin subunit F; Provisional; Region: PRK05260 1249531003670 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1249531003671 tetramer interface; other site 1249531003672 active site 1249531003673 carbon storage regulator; Provisional; Region: PRK01712 1249531003674 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1249531003675 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 1249531003676 motif 1; other site 1249531003677 active site 1249531003678 motif 2; other site 1249531003679 motif 3; other site 1249531003680 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1249531003681 DHHA1 domain; Region: DHHA1; pfam02272 1249531003682 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 1249531003683 Ligand Binding Site [chemical binding]; other site 1249531003684 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1249531003685 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 1249531003686 ligand binding site [chemical binding]; other site 1249531003687 flexible hinge region; other site 1249531003688 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 1249531003689 putative switch regulator; other site 1249531003690 non-specific DNA interactions [nucleotide binding]; other site 1249531003691 DNA binding site [nucleotide binding] 1249531003692 sequence specific DNA binding site [nucleotide binding]; other site 1249531003693 putative cAMP binding site [chemical binding]; other site 1249531003694 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1249531003695 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1249531003696 NAD binding site [chemical binding]; other site 1249531003697 homotetramer interface [polypeptide binding]; other site 1249531003698 homodimer interface [polypeptide binding]; other site 1249531003699 substrate binding site [chemical binding]; other site 1249531003700 active site 1249531003701 Bor protein; Region: Lambda_Bor; pfam06291 1249531003702 Bor protein; Region: Lambda_Bor; pfam06291 1249531003703 exoribonuclease II; Provisional; Region: PRK05054 1249531003704 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1249531003705 RNB domain; Region: RNB; pfam00773 1249531003706 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 1249531003707 RNA binding site [nucleotide binding]; other site 1249531003708 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1249531003709 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1249531003710 active site 1249531003711 metal binding site [ion binding]; metal-binding site 1249531003712 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1249531003713 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 1249531003714 active site 1249531003715 DNA binding site [nucleotide binding] 1249531003716 Int/Topo IB signature motif; other site 1249531003717 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1249531003718 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 1249531003719 dimer interface [polypeptide binding]; other site 1249531003720 ssDNA binding site [nucleotide binding]; other site 1249531003721 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249531003722 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1249531003723 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1249531003724 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 1249531003725 non-specific DNA binding site [nucleotide binding]; other site 1249531003726 salt bridge; other site 1249531003727 sequence-specific DNA binding site [nucleotide binding]; other site 1249531003728 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249531003729 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 1249531003730 Catalytic site [active] 1249531003731 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 1249531003732 Dimer interface [polypeptide binding]; other site 1249531003733 BRCT sequence motif; other site 1249531003734 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1249531003735 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1249531003736 tail protein; Provisional; Region: D; PHA02561 1249531003737 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1249531003738 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1249531003739 major tail tube protein; Provisional; Region: FII; PHA02600 1249531003740 major tail sheath protein; Provisional; Region: FI; PHA02560 1249531003741 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1249531003742 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1249531003743 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1249531003744 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1249531003745 baseplate assembly protein; Provisional; Region: J; PHA02568 1249531003746 baseplate wedge subunit; Provisional; Region: W; PHA02516 1249531003747 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1249531003748 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1249531003749 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1249531003750 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1249531003751 Mu-like prophage protein [General function prediction only]; Region: COG3941 1249531003752 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1249531003753 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1249531003754 DksA-like zinc finger domain containing protein; Region: PHA00080 1249531003755 phage lambda Rz1-like protein; Region: PHA02047 1249531003756 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1249531003757 catalytic residues [active] 1249531003758 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1249531003759 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1249531003760 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1249531003761 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1249531003762 capsid protein; Provisional; Region: N; PHA02538 1249531003763 capsid-scaffolding protein; Provisional; Region: O; PHA02529 1249531003764 terminase ATPase subunit; Provisional; Region: P; PHA02535 1249531003765 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1249531003766 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1249531003767 portal vertex protein; Provisional; Region: Q; PHA02536 1249531003768 Phage portal protein; Region: Phage_portal; pfam04860 1249531003769 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1249531003770 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1249531003771 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1249531003772 SelR domain; Region: SelR; pfam01641 1249531003773 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1249531003774 tartrate dehydrogenase; Region: TTC; TIGR02089 1249531003775 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1249531003776 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1249531003777 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1249531003778 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531003779 Walker A/P-loop; other site 1249531003780 ATP binding site [chemical binding]; other site 1249531003781 Q-loop/lid; other site 1249531003782 ABC transporter signature motif; other site 1249531003783 Walker B; other site 1249531003784 D-loop; other site 1249531003785 H-loop/switch region; other site 1249531003786 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1249531003787 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 1249531003788 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 1249531003789 dimer interface [polypeptide binding]; other site 1249531003790 conserved gate region; other site 1249531003791 putative PBP binding loops; other site 1249531003792 ABC-ATPase subunit interface; other site 1249531003793 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 1249531003794 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 1249531003795 dimer interface [polypeptide binding]; other site 1249531003796 conserved gate region; other site 1249531003797 putative PBP binding loops; other site 1249531003798 ABC-ATPase subunit interface; other site 1249531003799 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249531003800 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249531003801 peptide binding site [polypeptide binding]; other site 1249531003802 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1249531003803 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 1249531003804 Walker A motif; other site 1249531003805 ATP binding site [chemical binding]; other site 1249531003806 Walker B motif; other site 1249531003807 arginine finger; other site 1249531003808 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 1249531003809 dimer interface [polypeptide binding]; other site 1249531003810 active site 1249531003811 hypothetical protein; Provisional; Region: PRK05170 1249531003812 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1249531003813 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 1249531003814 active site 1249531003815 dimerization interface [polypeptide binding]; other site 1249531003816 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1249531003817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249531003818 Coenzyme A binding pocket [chemical binding]; other site 1249531003819 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 1249531003820 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1249531003821 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 1249531003822 dimerization interface [polypeptide binding]; other site 1249531003823 Histidine kinase; Region: HisKA_3; pfam07730 1249531003824 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 1249531003825 ATP binding site [chemical binding]; other site 1249531003826 Mg2+ binding site [ion binding]; other site 1249531003827 G-X-G motif; other site 1249531003828 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1249531003829 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 1249531003830 active site 1249531003831 motif I; other site 1249531003832 motif II; other site 1249531003833 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249531003834 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249531003835 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1249531003836 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1249531003837 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1249531003838 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249531003839 ligand binding site [chemical binding]; other site 1249531003840 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1249531003841 DHH family; Region: DHH; pfam01368 1249531003842 DHHA1 domain; Region: DHHA1; pfam02272 1249531003843 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1249531003844 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 1249531003845 dimerization domain [polypeptide binding]; other site 1249531003846 dimer interface [polypeptide binding]; other site 1249531003847 catalytic residues [active] 1249531003848 putative peptidase; Provisional; Region: PRK11649 1249531003849 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249531003850 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1249531003851 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1249531003852 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1249531003853 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 1249531003854 TPP-binding site [chemical binding]; other site 1249531003855 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1249531003856 dimer interface [polypeptide binding]; other site 1249531003857 PYR/PP interface [polypeptide binding]; other site 1249531003858 TPP binding site [chemical binding]; other site 1249531003859 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1249531003860 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 1249531003861 E3 interaction surface; other site 1249531003862 lipoyl attachment site [posttranslational modification]; other site 1249531003863 e3 binding domain; Region: E3_binding; pfam02817 1249531003864 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1249531003865 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1249531003866 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1249531003867 CoA-ligase; Region: Ligase_CoA; pfam00549 1249531003868 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1249531003869 CoA binding domain; Region: CoA_binding; pfam02629 1249531003870 CoA-ligase; Region: Ligase_CoA; pfam00549 1249531003871 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1249531003872 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1249531003873 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1249531003874 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1249531003875 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1249531003876 5S rRNA interface [nucleotide binding]; other site 1249531003877 CTC domain interface [polypeptide binding]; other site 1249531003878 L16 interface [polypeptide binding]; other site 1249531003879 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1249531003880 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1249531003881 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1249531003882 putative NAD(P) binding site [chemical binding]; other site 1249531003883 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 1249531003884 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249531003885 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 1249531003886 dimer interface [polypeptide binding]; other site 1249531003887 FMN binding site [chemical binding]; other site 1249531003888 NADPH bind site [chemical binding]; other site 1249531003889 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1249531003890 Transglycosylase; Region: Transgly; cl17702 1249531003891 Trp operon repressor; Provisional; Region: PRK01381 1249531003892 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1249531003893 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1249531003894 DNA polymerase I; Provisional; Region: PRK05755 1249531003895 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1249531003896 active site 1249531003897 metal binding site 1 [ion binding]; metal-binding site 1249531003898 putative 5' ssDNA interaction site; other site 1249531003899 metal binding site 3; metal-binding site 1249531003900 metal binding site 2 [ion binding]; metal-binding site 1249531003901 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1249531003902 putative DNA binding site [nucleotide binding]; other site 1249531003903 putative metal binding site [ion binding]; other site 1249531003904 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 1249531003905 active site 1249531003906 catalytic site [active] 1249531003907 substrate binding site [chemical binding]; other site 1249531003908 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1249531003909 active site 1249531003910 DNA binding site [nucleotide binding] 1249531003911 catalytic site [active] 1249531003912 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1249531003913 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 1249531003914 non-specific DNA binding site [nucleotide binding]; other site 1249531003915 salt bridge; other site 1249531003916 sequence-specific DNA binding site [nucleotide binding]; other site 1249531003917 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1249531003918 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249531003919 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 1249531003920 Catalytic site [active] 1249531003921 Haemolysin XhlA; Region: XhlA; pfam10779 1249531003922 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1249531003923 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 1249531003924 active site 1249531003925 DNA binding site [nucleotide binding] 1249531003926 Int/Topo IB signature motif; other site 1249531003927 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531003928 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531003929 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531003930 Integrase core domain; Region: rve; pfam00665 1249531003931 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531003932 Integrase core domain; Region: rve_3; pfam13683 1249531003933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1249531003934 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1249531003935 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1249531003936 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 1249531003937 substrate binding site [chemical binding]; other site 1249531003938 active site 1249531003939 catalytic residues [active] 1249531003940 heterodimer interface [polypeptide binding]; other site 1249531003941 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1249531003942 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 1249531003943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531003944 catalytic residue [active] 1249531003945 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1249531003946 malonic semialdehyde reductase; Provisional; Region: PRK10538 1249531003947 putative NAD(P) binding site [chemical binding]; other site 1249531003948 homotetramer interface [polypeptide binding]; other site 1249531003949 homodimer interface [polypeptide binding]; other site 1249531003950 active site 1249531003951 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1249531003952 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1249531003953 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1249531003954 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1249531003955 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1249531003956 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1249531003957 putative active site [active] 1249531003958 putative substrate binding site [chemical binding]; other site 1249531003959 putative cosubstrate binding site; other site 1249531003960 catalytic site [active] 1249531003961 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 1249531003962 putative active site [active] 1249531003963 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1249531003964 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1249531003965 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1249531003966 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 1249531003967 dimer interface [polypeptide binding]; other site 1249531003968 putative anticodon binding site; other site 1249531003969 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 1249531003970 motif 1; other site 1249531003971 active site 1249531003972 motif 2; other site 1249531003973 motif 3; other site 1249531003974 ribonuclease G; Provisional; Region: PRK11712 1249531003975 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 1249531003976 homodimer interface [polypeptide binding]; other site 1249531003977 oligonucleotide binding site [chemical binding]; other site 1249531003978 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1249531003979 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1249531003980 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 1249531003981 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1249531003982 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 1249531003983 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 1249531003984 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1249531003985 Domain of unknown function DUF87; Region: DUF87; pfam01935 1249531003986 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1249531003987 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1249531003988 Domain of unknown function DUF87; Region: DUF87; pfam01935 1249531003989 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1249531003990 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1249531003991 Probable transposase; Region: OrfB_IS605; pfam01385 1249531003992 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1249531003993 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1249531003994 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 1249531003995 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1249531003996 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 1249531003997 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1249531003998 uncharacterized domain; Region: TIGR00702 1249531003999 YcaO-like family; Region: YcaO; pfam02624 1249531004000 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249531004001 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 1249531004002 S-adenosylmethionine binding site [chemical binding]; other site 1249531004003 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1249531004004 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 1249531004005 Mg2+ binding site [ion binding]; other site 1249531004006 G-X-G motif; other site 1249531004007 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 1249531004008 anchoring element; other site 1249531004009 dimer interface [polypeptide binding]; other site 1249531004010 ATP binding site [chemical binding]; other site 1249531004011 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 1249531004012 active site 1249531004013 putative metal-binding site [ion binding]; other site 1249531004014 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1249531004015 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1249531004016 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 1249531004017 ATP binding site [chemical binding]; other site 1249531004018 putative Mg++ binding site [ion binding]; other site 1249531004019 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1249531004020 DNA methylase; Region: N6_N4_Mtase; pfam01555 1249531004021 DNA methylase; Region: N6_N4_Mtase; cl17433 1249531004022 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1249531004023 UbiA prenyltransferase family; Region: UbiA; pfam01040 1249531004024 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1249531004025 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1249531004026 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249531004027 adenylosuccinate lyase; Provisional; Region: PRK09285 1249531004028 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1249531004029 tetramer interface [polypeptide binding]; other site 1249531004030 active site 1249531004031 putative lysogenization regulator; Reviewed; Region: PRK00218 1249531004032 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1249531004033 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249531004034 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531004035 Walker A/P-loop; other site 1249531004036 ATP binding site [chemical binding]; other site 1249531004037 Q-loop/lid; other site 1249531004038 ABC transporter signature motif; other site 1249531004039 Walker B; other site 1249531004040 D-loop; other site 1249531004041 H-loop/switch region; other site 1249531004042 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1249531004043 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249531004044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531004045 Walker A/P-loop; other site 1249531004046 ATP binding site [chemical binding]; other site 1249531004047 Q-loop/lid; other site 1249531004048 ABC transporter signature motif; other site 1249531004049 Walker B; other site 1249531004050 D-loop; other site 1249531004051 H-loop/switch region; other site 1249531004052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1249531004053 Family of unknown function (DUF490); Region: DUF490; pfam04357 1249531004054 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1249531004055 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249531004056 Surface antigen; Region: Bac_surface_Ag; pfam01103 1249531004057 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1249531004058 NodB motif; other site 1249531004059 putative active site [active] 1249531004060 putative catalytic site [active] 1249531004061 Zn binding site [ion binding]; other site 1249531004062 AmiB activator; Provisional; Region: PRK11637 1249531004063 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; cl00240 1249531004064 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249531004065 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 1249531004066 catalytic core [active] 1249531004067 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 1249531004068 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1249531004069 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 1249531004070 hinge region; other site 1249531004071 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 1249531004072 putative nucleotide binding site [chemical binding]; other site 1249531004073 uridine monophosphate binding site [chemical binding]; other site 1249531004074 homohexameric interface [polypeptide binding]; other site 1249531004075 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1249531004076 Sulfatase; Region: Sulfatase; cl17466 1249531004077 elongation factor Ts; Provisional; Region: tsf; PRK09377 1249531004078 UBA/TS-N domain; Region: UBA; pfam00627 1249531004079 Elongation factor TS; Region: EF_TS; pfam00889 1249531004080 Elongation factor TS; Region: EF_TS; pfam00889 1249531004081 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 1249531004082 rRNA interaction site [nucleotide binding]; other site 1249531004083 S8 interaction site; other site 1249531004084 putative laminin-1 binding site; other site 1249531004085 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249531004086 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1249531004087 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249531004088 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 1249531004089 dimer interface [polypeptide binding]; other site 1249531004090 conserved gate region; other site 1249531004091 putative PBP binding loops; other site 1249531004092 ABC-ATPase subunit interface; other site 1249531004093 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 1249531004094 dimer interface [polypeptide binding]; other site 1249531004095 conserved gate region; other site 1249531004096 putative PBP binding loops; other site 1249531004097 ABC-ATPase subunit interface; other site 1249531004098 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249531004099 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1249531004100 Walker A/P-loop; other site 1249531004101 ATP binding site [chemical binding]; other site 1249531004102 Q-loop/lid; other site 1249531004103 ABC transporter signature motif; other site 1249531004104 Walker B; other site 1249531004105 D-loop; other site 1249531004106 H-loop/switch region; other site 1249531004107 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1249531004108 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1249531004109 catalytic residues [active] 1249531004110 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1249531004111 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1249531004112 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1249531004113 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 1249531004114 ATP binding site [chemical binding]; other site 1249531004115 Mg++ binding site [ion binding]; other site 1249531004116 motif III; other site 1249531004117 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 1249531004118 nucleotide binding region [chemical binding]; other site 1249531004119 ATP-binding site [chemical binding]; other site 1249531004120 Recombination protein O N terminal; Region: RecO_N; pfam11967 1249531004121 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1249531004122 Recombination protein O C terminal; Region: RecO_C; pfam02565 1249531004123 GTPase Era; Reviewed; Region: era; PRK00089 1249531004124 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1249531004125 G1 box; other site 1249531004126 GTP/Mg2+ binding site [chemical binding]; other site 1249531004127 Switch I region; other site 1249531004128 G2 box; other site 1249531004129 Switch II region; other site 1249531004130 G3 box; other site 1249531004131 G4 box; other site 1249531004132 G5 box; other site 1249531004133 KH domain; Region: KH_2; pfam07650 1249531004134 ribonuclease III; Reviewed; Region: rnc; PRK00102 1249531004135 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 1249531004136 dimerization interface [polypeptide binding]; other site 1249531004137 active site 1249531004138 metal binding site [ion binding]; metal-binding site 1249531004139 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 1249531004140 dsRNA binding site [nucleotide binding]; other site 1249531004141 signal peptidase I; Provisional; Region: PRK10861 1249531004142 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 1249531004143 Catalytic site [active] 1249531004144 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 1249531004145 GTP-binding protein LepA; Provisional; Region: PRK05433 1249531004146 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1249531004147 G1 box; other site 1249531004148 putative GEF interaction site [polypeptide binding]; other site 1249531004149 GTP/Mg2+ binding site [chemical binding]; other site 1249531004150 Switch I region; other site 1249531004151 G2 box; other site 1249531004152 G3 box; other site 1249531004153 Switch II region; other site 1249531004154 G4 box; other site 1249531004155 G5 box; other site 1249531004156 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 1249531004157 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 1249531004158 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1249531004159 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1249531004160 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249531004161 catalytic residue [active] 1249531004162 Hep_Hag; Region: Hep_Hag; pfam05658 1249531004163 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249531004164 trimer interface [polypeptide binding]; other site 1249531004165 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531004166 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531004167 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531004168 Integrase core domain; Region: rve; pfam00665 1249531004169 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531004170 Integrase core domain; Region: rve_3; pfam13683 1249531004171 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531004172 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531004173 Integrase core domain; Region: rve; pfam00665 1249531004174 Predicted membrane protein [Function unknown]; Region: COG2259 1249531004175 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 1249531004176 Protein of unknown function (DUF692); Region: DUF692; pfam05114 1249531004177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 1249531004178 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249531004179 RNA polymerase sigma factor; Provisional; Region: PRK12530 1249531004180 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; cl17257 1249531004181 DNA binding residues [nucleotide binding] 1249531004182 Putative zinc-finger; Region: zf-HC2; pfam13490 1249531004183 Protein of unknown function (DUF1664); Region: DUF1664; pfam07889 1249531004184 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1249531004185 Phage-related protein, tail component [Function unknown]; Region: COG4733 1249531004186 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1249531004187 Phage-related protein, tail component [Function unknown]; Region: COG4723 1249531004188 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1249531004189 MPN+ (JAMM) motif; other site 1249531004190 Zinc-binding site [ion binding]; other site 1249531004191 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1249531004192 NlpC/P60 family; Region: NLPC_P60; cl17555 1249531004193 Phage-related protein [Function unknown]; Region: gp18; COG4672 1249531004194 Phage minor tail protein L; Region: Phage_tail_L; cl01908 1249531004195 Phage minor tail protein; Region: Phage_min_tail; cl01940 1249531004196 YcfA-like protein; Region: YcfA; pfam07927 1249531004197 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1249531004198 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 1249531004199 Phage major tail protein 2; Region: Phage_tail_2; cl11463 1249531004200 Encapsulating protein for peroxidase; Region: Linocin_M18; cl17804 1249531004201 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1249531004202 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1249531004203 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1249531004204 Phage terminase large subunit; Region: Terminase_3; cl12054 1249531004205 Terminase-like family; Region: Terminase_6; pfam03237 1249531004206 Terminase small subunit; Region: Terminase_2; pfam03592 1249531004207 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1249531004208 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1249531004209 catalytic residues [active] 1249531004210 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1249531004211 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1249531004212 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 1249531004213 MT-A70; Region: MT-A70; cl01947 1249531004214 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1249531004215 replicative DNA helicase; Region: DnaB; TIGR00665 1249531004216 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 1249531004217 Walker A motif; other site 1249531004218 ATP binding site [chemical binding]; other site 1249531004219 Walker B motif; other site 1249531004220 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1249531004221 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 1249531004222 non-specific DNA binding site [nucleotide binding]; other site 1249531004223 salt bridge; other site 1249531004224 sequence-specific DNA binding site [nucleotide binding]; other site 1249531004225 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 1249531004226 Catalytic site [active] 1249531004227 Haemolysin XhlA; Region: XhlA; pfam10779 1249531004228 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531004229 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531004230 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531004231 Integrase core domain; Region: rve; pfam00665 1249531004232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531004233 Integrase core domain; Region: rve_3; pfam13683 1249531004234 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 1249531004235 sequence-specific DNA binding site [nucleotide binding]; other site 1249531004236 salt bridge; other site 1249531004237 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1249531004238 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1249531004239 metal binding site [ion binding]; metal-binding site 1249531004240 RecT family; Region: RecT; pfam03837 1249531004241 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1249531004242 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1249531004243 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1249531004244 putative metal binding site [ion binding]; other site 1249531004245 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1249531004246 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1249531004247 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 1249531004248 active site 1249531004249 DNA binding site [nucleotide binding] 1249531004250 Int/Topo IB signature motif; other site 1249531004251 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1249531004252 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 1249531004253 putative dimer interface [polypeptide binding]; other site 1249531004254 putative anticodon binding site; other site 1249531004255 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 1249531004256 homodimer interface [polypeptide binding]; other site 1249531004257 motif 1; other site 1249531004258 motif 2; other site 1249531004259 active site 1249531004260 motif 3; other site 1249531004261 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 1249531004262 FeS/SAM binding site; other site 1249531004263 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1249531004264 elongation factor P; Validated; Region: PRK00529 1249531004265 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1249531004266 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 1249531004267 RNA binding site [nucleotide binding]; other site 1249531004268 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 1249531004269 RNA binding site [nucleotide binding]; other site 1249531004270 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249531004271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531004272 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 1249531004273 putative effector binding pocket; other site 1249531004274 putative dimerization interface [polypeptide binding]; other site 1249531004275 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249531004276 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1249531004277 NAD(P) binding site [chemical binding]; other site 1249531004278 active site 1249531004279 SnoaL-like domain; Region: SnoaL_4; pfam13577 1249531004280 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1249531004281 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249531004282 active site 1249531004283 HIGH motif; other site 1249531004284 nucleotide binding site [chemical binding]; other site 1249531004285 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1249531004286 KMSKS motif; other site 1249531004287 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1249531004288 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249531004289 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249531004290 DNA binding site [nucleotide binding] 1249531004291 domain linker motif; other site 1249531004292 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249531004293 glutamate dehydrogenase; Provisional; Region: PRK09414 1249531004294 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1249531004295 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1249531004296 NAD(P) binding site [chemical binding]; other site 1249531004297 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1249531004298 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1249531004299 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1249531004300 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1249531004301 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 1249531004302 homotrimer interaction site [polypeptide binding]; other site 1249531004303 putative active site [active] 1249531004304 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1249531004305 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1249531004306 integrase; Provisional; Region: PRK09692 1249531004307 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1249531004308 active site 1249531004309 Int/Topo IB signature motif; other site 1249531004310 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1249531004311 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 1249531004312 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1249531004313 Ash protein family; Region: Phage_ASH; pfam10554 1249531004314 Ash protein family; Region: Phage_ASH; pfam10554 1249531004315 silicon transporter; Region: sit; TIGR00811 1249531004316 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1249531004317 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1249531004318 active site 1249531004319 Int/Topo IB signature motif; other site 1249531004320 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1249531004321 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1249531004322 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1249531004323 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1249531004324 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 1249531004325 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1249531004326 catalytic site [active] 1249531004327 Asp-box motif; other site 1249531004328 Autotransporter beta-domain; Region: Autotransporter; cl17461 1249531004329 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249531004330 active site 1249531004331 peptidase PmbA; Provisional; Region: PRK11040 1249531004332 hypothetical protein; Provisional; Region: PRK05255 1249531004333 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1249531004334 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1249531004335 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1249531004336 Flavoprotein; Region: Flavoprotein; pfam02441 1249531004337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 1249531004338 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249531004339 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531004340 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1249531004341 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 1249531004342 N-terminal plug; other site 1249531004343 ligand-binding site [chemical binding]; other site 1249531004344 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1249531004345 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1249531004346 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531004347 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531004348 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1249531004349 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249531004350 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 1249531004351 Catalytic site [active] 1249531004352 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1249531004353 CPxP motif; other site 1249531004354 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1249531004355 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1249531004356 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1249531004357 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 1249531004358 DNA-binding site [nucleotide binding]; DNA binding site 1249531004359 RNA-binding motif; other site 1249531004360 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 1249531004361 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1249531004362 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531004363 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531004364 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249531004365 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249531004366 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249531004367 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249531004368 Walker A/P-loop; other site 1249531004369 ATP binding site [chemical binding]; other site 1249531004370 Q-loop/lid; other site 1249531004371 ABC transporter signature motif; other site 1249531004372 Walker B; other site 1249531004373 D-loop; other site 1249531004374 H-loop/switch region; other site 1249531004375 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249531004376 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 1249531004377 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249531004378 TM-ABC transporter signature motif; other site 1249531004379 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249531004380 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 1249531004381 TM-ABC transporter signature motif; other site 1249531004382 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1249531004383 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1249531004384 putative N- and C-terminal domain interface [polypeptide binding]; other site 1249531004385 putative active site [active] 1249531004386 MgATP binding site [chemical binding]; other site 1249531004387 catalytic site [active] 1249531004388 metal binding site [ion binding]; metal-binding site 1249531004389 putative carbohydrate binding site [chemical binding]; other site 1249531004390 putative inner membrane protein; Provisional; Region: PRK11099 1249531004391 putative inner membrane protein; Provisional; Region: PRK11099 1249531004392 hypothetical protein; Provisional; Region: PRK11018 1249531004393 CPxP motif; other site 1249531004394 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1249531004395 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1249531004396 FMN binding site [chemical binding]; other site 1249531004397 substrate binding site [chemical binding]; other site 1249531004398 putative catalytic residue [active] 1249531004399 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249531004400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531004401 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 1249531004402 dimerization interface [polypeptide binding]; other site 1249531004403 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 1249531004404 transcriptional regulator NrdR; Region: TIGR00244 1249531004405 ATP cone domain; Region: ATP-cone; pfam03477 1249531004406 YcgL domain; Region: YcgL; pfam05166 1249531004407 replicative DNA helicase; Validated; Region: PRK06904 1249531004408 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1249531004409 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 1249531004410 Walker A motif; other site 1249531004411 ATP binding site [chemical binding]; other site 1249531004412 Walker B motif; other site 1249531004413 DNA binding loops [nucleotide binding] 1249531004414 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 1249531004415 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1249531004416 putative ligand binding residues [chemical binding]; other site 1249531004417 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249531004418 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 1249531004419 ABC-ATPase subunit interface; other site 1249531004420 dimer interface [polypeptide binding]; other site 1249531004421 putative PBP binding regions; other site 1249531004422 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; cl00462 1249531004423 dimer interface [polypeptide binding]; other site 1249531004424 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; cl00462 1249531004425 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1249531004426 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249531004427 Walker A/P-loop; other site 1249531004428 ATP binding site [chemical binding]; other site 1249531004429 Q-loop/lid; other site 1249531004430 ABC transporter signature motif; other site 1249531004431 Walker B; other site 1249531004432 D-loop; other site 1249531004433 H-loop/switch region; other site 1249531004434 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 1249531004435 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1249531004436 metal binding triad; other site 1249531004437 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1249531004438 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249531004439 Zn2+ binding site [ion binding]; other site 1249531004440 Mg2+ binding site [ion binding]; other site 1249531004441 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 1249531004442 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 1249531004443 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1249531004444 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1249531004445 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1249531004446 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 1249531004447 homodimer interface [polypeptide binding]; other site 1249531004448 substrate-cofactor binding pocket; other site 1249531004449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531004450 catalytic residue [active] 1249531004451 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 1249531004452 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1249531004453 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1249531004454 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1249531004455 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1249531004456 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1249531004457 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 1249531004458 hinge; other site 1249531004459 active site 1249531004460 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1249531004461 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 1249531004462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531004463 homodimer interface [polypeptide binding]; other site 1249531004464 catalytic residue [active] 1249531004465 xanthine permease; Region: pbuX; TIGR03173 1249531004466 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1249531004467 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 1249531004468 Walker A motif; other site 1249531004469 ATP binding site [chemical binding]; other site 1249531004470 Walker B motif; other site 1249531004471 arginine finger; other site 1249531004472 Peptidase family M41; Region: Peptidase_M41; pfam01434 1249531004473 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1249531004474 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 1249531004475 S-adenosylmethionine binding site [chemical binding]; other site 1249531004476 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531004477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531004478 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1249531004479 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1249531004480 Substrate binding site; other site 1249531004481 Mg++ binding site; other site 1249531004482 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 1249531004483 active site 1249531004484 substrate binding site [chemical binding]; other site 1249531004485 CoA binding site [chemical binding]; other site 1249531004486 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249531004487 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 1249531004488 trimer interface [polypeptide binding]; other site 1249531004489 eyelet of channel; other site 1249531004490 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1249531004491 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1249531004492 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249531004493 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249531004494 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1249531004495 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1249531004496 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 1249531004497 E3 interaction surface; other site 1249531004498 lipoyl attachment site [posttranslational modification]; other site 1249531004499 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 1249531004500 E3 interaction surface; other site 1249531004501 lipoyl attachment site [posttranslational modification]; other site 1249531004502 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 1249531004503 E3 interaction surface; other site 1249531004504 lipoyl attachment site [posttranslational modification]; other site 1249531004505 e3 binding domain; Region: E3_binding; pfam02817 1249531004506 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1249531004507 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1249531004508 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 1249531004509 dimer interface [polypeptide binding]; other site 1249531004510 TPP-binding site [chemical binding]; other site 1249531004511 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1249531004512 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 1249531004513 quinone interaction residues [chemical binding]; other site 1249531004514 active site 1249531004515 catalytic residues [active] 1249531004516 FMN binding site [chemical binding]; other site 1249531004517 substrate binding site [chemical binding]; other site 1249531004518 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1249531004519 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1249531004520 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249531004521 active site 1249531004522 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1249531004523 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1249531004524 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1249531004525 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1249531004526 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1249531004527 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1249531004528 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249531004529 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1249531004530 Walker A/P-loop; other site 1249531004531 ATP binding site [chemical binding]; other site 1249531004532 Q-loop/lid; other site 1249531004533 ABC transporter signature motif; other site 1249531004534 Walker B; other site 1249531004535 D-loop; other site 1249531004536 H-loop/switch region; other site 1249531004537 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1249531004538 LrgA family; Region: LrgA; cl00608 1249531004539 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1249531004540 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 1249531004541 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1249531004542 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1249531004543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531004544 Walker A/P-loop; other site 1249531004545 ATP binding site [chemical binding]; other site 1249531004546 Q-loop/lid; other site 1249531004547 ABC transporter signature motif; other site 1249531004548 Walker B; other site 1249531004549 D-loop; other site 1249531004550 H-loop/switch region; other site 1249531004551 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249531004552 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1249531004553 TM-ABC transporter signature motif; other site 1249531004554 putative transporter; Provisional; Region: PRK11660 1249531004555 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1249531004556 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249531004557 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 1249531004558 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1249531004559 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1249531004560 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1249531004561 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1249531004562 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1249531004563 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 1249531004564 dimer interface [polypeptide binding]; other site 1249531004565 ssDNA binding site [nucleotide binding]; other site 1249531004566 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249531004567 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1249531004568 DNA binding site [nucleotide binding] 1249531004569 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1249531004570 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1249531004571 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531004572 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531004573 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531004574 Integrase core domain; Region: rve; pfam00665 1249531004575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531004576 Integrase core domain; Region: rve_3; pfam13683 1249531004577 D-lactate dehydrogenase; Provisional; Region: PRK11183 1249531004578 FAD binding domain; Region: FAD_binding_4; pfam01565 1249531004579 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1249531004580 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531004581 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531004582 Integrase core domain; Region: rve; pfam00665 1249531004583 Integrase core domain; Region: rve_3; pfam13683 1249531004584 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1249531004585 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1249531004586 active site 1249531004587 catalytic residues [active] 1249531004588 DNA binding site [nucleotide binding] 1249531004589 Int/Topo IB signature motif; other site 1249531004590 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1249531004591 Putative helicase; Region: TraI_2; pfam07514 1249531004592 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1249531004593 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1249531004594 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1249531004595 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 1249531004596 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1249531004597 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1249531004598 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1249531004599 catalytic residue [active] 1249531004600 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1249531004601 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1249531004602 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1249531004603 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1249531004604 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1249531004605 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1249531004606 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1249531004607 Protein of unknown function (DUF2895); Region: DUF2895; pfam11444 1249531004608 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1249531004609 Protein of unknown function (DUF2976); Region: DUF2976; pfam11190 1249531004610 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1249531004611 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1249531004612 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1249531004613 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1249531004614 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1249531004615 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1249531004616 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 1249531004617 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249531004618 catalytic residue [active] 1249531004619 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1249531004620 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1249531004621 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1249531004622 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1249531004623 DNA topoisomerase III; Provisional; Region: PRK07726 1249531004624 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 1249531004625 active site 1249531004626 putative interdomain interaction site [polypeptide binding]; other site 1249531004627 putative metal-binding site [ion binding]; other site 1249531004628 putative nucleotide binding site [chemical binding]; other site 1249531004629 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 1249531004630 domain I; other site 1249531004631 DNA binding groove [nucleotide binding] 1249531004632 phosphate binding site [ion binding]; other site 1249531004633 domain II; other site 1249531004634 domain III; other site 1249531004635 nucleotide binding site [chemical binding]; other site 1249531004636 catalytic site [active] 1249531004637 domain IV; other site 1249531004638 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249531004639 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1249531004640 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1249531004641 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1249531004642 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1249531004643 ParB-like nuclease domain; Region: ParBc; pfam02195 1249531004644 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1249531004645 replicative DNA helicase; Region: DnaB; TIGR00665 1249531004646 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 1249531004647 Walker A motif; other site 1249531004648 ATP binding site [chemical binding]; other site 1249531004649 Walker B motif; other site 1249531004650 DNA binding loops [nucleotide binding] 1249531004651 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1249531004652 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 1249531004653 P-loop; other site 1249531004654 Magnesium ion binding site [ion binding]; other site 1249531004655 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1249531004656 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 1249531004657 generic binding surface II; other site 1249531004658 generic binding surface I; other site 1249531004659 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1249531004660 MltA specific insert domain; Region: MltA; smart00925 1249531004661 3D domain; Region: 3D; pfam06725 1249531004662 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1249531004663 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1249531004664 active site 1249531004665 tetramer interface [polypeptide binding]; other site 1249531004666 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249531004667 active site 1249531004668 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1249531004669 Colicin V production protein; Region: Colicin_V; cl00567 1249531004670 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1249531004671 RNA/DNA hybrid binding site [nucleotide binding]; other site 1249531004672 active site 1249531004673 argininosuccinate synthase; Validated; Region: PRK05370 1249531004674 argininosuccinate synthase; Provisional; Region: PRK13820 1249531004675 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249531004676 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 1249531004677 putative active site [active] 1249531004678 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249531004679 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1249531004680 putative metal binding site; other site 1249531004681 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1249531004682 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 1249531004683 active site 1249531004684 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1249531004685 fructokinase; Reviewed; Region: PRK09557 1249531004686 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249531004687 nucleotide binding site [chemical binding]; other site 1249531004688 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1249531004689 Sulfatase; Region: Sulfatase; pfam00884 1249531004690 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1249531004691 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1249531004692 MOSC domain; Region: MOSC; pfam03473 1249531004693 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1249531004694 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1249531004695 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1249531004696 substrate binding pocket [chemical binding]; other site 1249531004697 chain length determination region; other site 1249531004698 substrate-Mg2+ binding site; other site 1249531004699 catalytic residues [active] 1249531004700 aspartate-rich region 1; other site 1249531004701 active site lid residues [active] 1249531004702 aspartate-rich region 2; other site 1249531004703 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1249531004704 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1249531004705 putative dimer interface [polypeptide binding]; other site 1249531004706 putative active site [active] 1249531004707 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1249531004708 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 1249531004709 ABC-ATPase subunit interface; other site 1249531004710 dimer interface [polypeptide binding]; other site 1249531004711 putative PBP binding regions; other site 1249531004712 recombination factor protein RarA; Reviewed; Region: PRK13342 1249531004713 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 1249531004714 Walker A motif; other site 1249531004715 ATP binding site [chemical binding]; other site 1249531004716 Walker B motif; other site 1249531004717 arginine finger; other site 1249531004718 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1249531004719 rod shape-determining protein MreD; Region: MreD; cl01087 1249531004720 rod shape-determining protein MreC; Region: mreC; TIGR00219 1249531004721 rod shape-determining protein MreC; Region: MreC; pfam04085 1249531004722 rod shape-determining protein MreB; Provisional; Region: PRK13927 1249531004723 MreB and similar proteins; Region: MreB_like; cd10225 1249531004724 nucleotide binding site [chemical binding]; other site 1249531004725 Mg binding site [ion binding]; other site 1249531004726 putative protofilament interaction site [polypeptide binding]; other site 1249531004727 RodZ interaction site [polypeptide binding]; other site 1249531004728 Lysine efflux permease [General function prediction only]; Region: COG1279 1249531004729 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1249531004730 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 1249531004731 Sugar specificity; other site 1249531004732 Pyrimidine base specificity; other site 1249531004733 ATP-binding site [chemical binding]; other site 1249531004734 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1249531004735 trimer interface [polypeptide binding]; other site 1249531004736 active site 1249531004737 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1249531004738 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1249531004739 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1249531004740 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 1249531004741 dimerization interface [polypeptide binding]; other site 1249531004742 ligand binding site [chemical binding]; other site 1249531004743 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 1249531004744 S-adenosylmethionine binding site [chemical binding]; other site 1249531004745 acyl-CoA esterase; Provisional; Region: PRK10673 1249531004746 PGAP1-like protein; Region: PGAP1; pfam07819 1249531004747 SeqA protein; Region: SeqA; pfam03925 1249531004748 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1249531004749 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1249531004750 acyl-activating enzyme (AAE) consensus motif; other site 1249531004751 putative AMP binding site [chemical binding]; other site 1249531004752 putative active site [active] 1249531004753 putative CoA binding site [chemical binding]; other site 1249531004754 hypothetical protein; Provisional; Region: PRK11281 1249531004755 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1249531004756 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1249531004757 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1249531004758 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1249531004759 Tetramer interface [polypeptide binding]; other site 1249531004760 active site 1249531004761 FMN-binding site [chemical binding]; other site 1249531004762 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1249531004763 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1249531004764 DNA topoisomerase III; Provisional; Region: PRK07726 1249531004765 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 1249531004766 active site 1249531004767 putative interdomain interaction site [polypeptide binding]; other site 1249531004768 putative metal-binding site [ion binding]; other site 1249531004769 putative nucleotide binding site [chemical binding]; other site 1249531004770 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 1249531004771 domain I; other site 1249531004772 DNA binding groove [nucleotide binding] 1249531004773 phosphate binding site [ion binding]; other site 1249531004774 domain II; other site 1249531004775 domain III; other site 1249531004776 nucleotide binding site [chemical binding]; other site 1249531004777 catalytic site [active] 1249531004778 domain IV; other site 1249531004779 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1249531004780 integrase; Provisional; Region: PRK09692 1249531004781 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1249531004782 active site 1249531004783 Int/Topo IB signature motif; other site 1249531004784 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 1249531004785 Phage capsid family; Region: Phage_capsid; pfam05065 1249531004786 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1249531004787 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1249531004788 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1249531004789 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1249531004790 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1249531004791 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1249531004792 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1249531004793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531004794 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 1249531004795 putative dimerization interface [polypeptide binding]; other site 1249531004796 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1249531004797 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1249531004798 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1249531004799 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1249531004800 ligand binding site [chemical binding]; other site 1249531004801 homodimer interface [polypeptide binding]; other site 1249531004802 NAD(P) binding site [chemical binding]; other site 1249531004803 trimer interface B [polypeptide binding]; other site 1249531004804 trimer interface A [polypeptide binding]; other site 1249531004805 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1249531004806 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1249531004807 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1249531004808 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 1249531004809 active site pocket [active] 1249531004810 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 1249531004811 glycogen synthase; Provisional; Region: glgA; PRK00654 1249531004812 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 1249531004813 ADP-binding pocket [chemical binding]; other site 1249531004814 homodimer interface [polypeptide binding]; other site 1249531004815 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1249531004816 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1249531004817 ligand binding site; other site 1249531004818 oligomer interface; other site 1249531004819 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 1249531004820 dimer interface [polypeptide binding]; other site 1249531004821 N-terminal domain interface [polypeptide binding]; other site 1249531004822 sulfate 1 binding site; other site 1249531004823 glycogen debranching enzyme; Provisional; Region: PRK03705 1249531004824 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 1249531004825 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1249531004826 active site 1249531004827 catalytic site [active] 1249531004828 glycogen branching enzyme; Provisional; Region: PRK05402 1249531004829 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1249531004830 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1249531004831 active site 1249531004832 catalytic site [active] 1249531004833 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1249531004834 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 1249531004835 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 1249531004836 active site 1249531004837 phosphorylation site [posttranslational modification] 1249531004838 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 1249531004839 dimerization domain swap beta strand [polypeptide binding]; other site 1249531004840 regulatory protein interface [polypeptide binding]; other site 1249531004841 active site 1249531004842 regulatory phosphorylation site [posttranslational modification]; other site 1249531004843 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 1249531004844 dimerization domain swap beta strand [polypeptide binding]; other site 1249531004845 regulatory protein interface [polypeptide binding]; other site 1249531004846 active site 1249531004847 regulatory phosphorylation site [posttranslational modification]; other site 1249531004848 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1249531004849 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 1249531004850 putative substrate binding site [chemical binding]; other site 1249531004851 putative ATP binding site [chemical binding]; other site 1249531004852 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1249531004853 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1249531004854 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 1249531004855 active site 1249531004856 P-loop; other site 1249531004857 phosphorylation site [posttranslational modification] 1249531004858 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1249531004859 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1249531004860 LemA family; Region: LemA; pfam04011 1249531004861 Repair protein; Region: Repair_PSII; cl01535 1249531004862 Repair protein; Region: Repair_PSII; pfam04536 1249531004863 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 1249531004864 homotrimer interaction site [polypeptide binding]; other site 1249531004865 zinc binding site [ion binding]; other site 1249531004866 CDP-binding sites; other site 1249531004867 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1249531004868 substrate binding site; other site 1249531004869 dimer interface; other site 1249531004870 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1249531004871 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1249531004872 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1249531004873 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 1249531004874 active site 1249531004875 substrate-binding site [chemical binding]; other site 1249531004876 metal-binding site [ion binding] 1249531004877 ATP binding site [chemical binding]; other site 1249531004878 biotin synthase; Region: bioB; TIGR00433 1249531004879 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 1249531004880 FeS/SAM binding site; other site 1249531004881 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1249531004882 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1249531004883 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1249531004884 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1249531004885 catalytic residue [active] 1249531004886 putative FPP diphosphate binding site; other site 1249531004887 putative FPP binding hydrophobic cleft; other site 1249531004888 dimer interface [polypeptide binding]; other site 1249531004889 putative IPP diphosphate binding site; other site 1249531004890 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1249531004891 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1249531004892 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1249531004893 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 1249531004894 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 1249531004895 protein binding site [polypeptide binding]; other site 1249531004896 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 1249531004897 protein binding site [polypeptide binding]; other site 1249531004898 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1249531004899 putative substrate binding region [chemical binding]; other site 1249531004900 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1249531004901 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249531004902 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249531004903 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249531004904 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249531004905 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249531004906 Surface antigen; Region: Bac_surface_Ag; pfam01103 1249531004907 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1249531004908 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1249531004909 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1249531004910 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 1249531004911 trimer interface [polypeptide binding]; other site 1249531004912 active site 1249531004913 UDP-GlcNAc binding site [chemical binding]; other site 1249531004914 lipid binding site [chemical binding]; lipid-binding site 1249531004915 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 1249531004916 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1249531004917 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 1249531004918 active site 1249531004919 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1249531004920 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1249531004921 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1249531004922 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 1249531004923 active site 1249531004924 ribulose/triose binding site [chemical binding]; other site 1249531004925 phosphate binding site [ion binding]; other site 1249531004926 substrate (anthranilate) binding pocket [chemical binding]; other site 1249531004927 product (indole) binding pocket [chemical binding]; other site 1249531004928 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 1249531004929 active site 1249531004930 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1249531004931 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1249531004932 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1249531004933 probable active site [active] 1249531004934 hypothetical protein; Provisional; Region: PRK05114 1249531004935 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1249531004936 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1249531004937 putative active site [active] 1249531004938 putative metal binding residues [ion binding]; other site 1249531004939 signature motif; other site 1249531004940 putative triphosphate binding site [ion binding]; other site 1249531004941 YcjX-like family, DUF463; Region: DUF463; pfam04317 1249531004942 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1249531004943 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 1249531004944 salt bridge; other site 1249531004945 non-specific DNA binding site [nucleotide binding]; other site 1249531004946 sequence-specific DNA binding site [nucleotide binding]; other site 1249531004947 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 1249531004948 SmpB-tmRNA interface; other site 1249531004949 seryl-tRNA synthetase; Provisional; Region: PRK05431 1249531004950 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1249531004951 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 1249531004952 dimer interface [polypeptide binding]; other site 1249531004953 active site 1249531004954 motif 1; other site 1249531004955 motif 2; other site 1249531004956 motif 3; other site 1249531004957 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1249531004958 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1249531004959 HIGH motif; other site 1249531004960 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1249531004961 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249531004962 active site 1249531004963 KMSKS motif; other site 1249531004964 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1249531004965 tRNA binding surface [nucleotide binding]; other site 1249531004966 Lipopolysaccharide-assembly; Region: LptE; cl01125 1249531004967 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1249531004968 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1249531004969 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1249531004970 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1249531004971 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 1249531004972 CoA-binding site [chemical binding]; other site 1249531004973 ATP-binding [chemical binding]; other site 1249531004974 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1249531004975 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249531004976 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249531004977 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1249531004978 putative major pilin subunit; Provisional; Region: PRK10574 1249531004979 DNA repair protein RadA; Provisional; Region: PRK11823 1249531004980 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1249531004981 Walker A motif/ATP binding site; other site 1249531004982 ATP binding site [chemical binding]; other site 1249531004983 Walker B motif; other site 1249531004984 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1249531004985 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1249531004986 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 1249531004987 folate binding site [chemical binding]; other site 1249531004988 NADP+ binding site [chemical binding]; other site 1249531004989 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 1249531004990 nucleotide binding site [chemical binding]; other site 1249531004991 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 1249531004992 gamma-glutamyl kinase; Provisional; Region: PRK05429 1249531004993 putative phosphate binding site [ion binding]; other site 1249531004994 putative allosteric binding site; other site 1249531004995 homotetrameric interface [polypeptide binding]; other site 1249531004996 nucleotide binding site [chemical binding]; other site 1249531004997 PUA domain; Region: PUA; pfam01472 1249531004998 hypothetical protein; Provisional; Region: PRK10621 1249531004999 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1249531005000 endonuclease III; Provisional; Region: PRK10702 1249531005001 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1249531005002 minor groove reading motif; other site 1249531005003 helix-hairpin-helix signature motif; other site 1249531005004 substrate binding pocket [chemical binding]; other site 1249531005005 active site 1249531005006 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1249531005007 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1249531005008 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 1249531005009 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1249531005010 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249531005011 Zn2+ binding site [ion binding]; other site 1249531005012 Mg2+ binding site [ion binding]; other site 1249531005013 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1249531005014 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 1249531005015 gating phenylalanine in ion channel; other site 1249531005016 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1249531005017 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1249531005018 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 1249531005019 catalytic loop [active] 1249531005020 iron binding site [ion binding]; other site 1249531005021 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1249531005022 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1249531005023 nucleotide binding site [chemical binding]; other site 1249531005024 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1249531005025 SBD interface [polypeptide binding]; other site 1249531005026 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1249531005027 putative active site [active] 1249531005028 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 1249531005029 co-chaperone HscB; Provisional; Region: hscB; PRK01773 1249531005030 DnaJ domain; Region: DnaJ; pfam00226 1249531005031 HSP70 interaction site [polypeptide binding]; other site 1249531005032 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1249531005033 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1249531005034 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1249531005035 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1249531005036 trimerization site [polypeptide binding]; other site 1249531005037 active site 1249531005038 cysteine desulfurase; Provisional; Region: PRK14012 1249531005039 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1249531005040 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249531005041 catalytic residue [active] 1249531005042 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1249531005043 Rrf2 family protein; Region: rrf2_super; TIGR00738 1249531005044 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1249531005045 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1249531005046 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1249531005047 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1249531005048 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 1249531005049 DNA binding site [nucleotide binding] 1249531005050 active site 1249531005051 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249531005052 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 1249531005053 dimer interface [polypeptide binding]; other site 1249531005054 phosphorylation site [posttranslational modification] 1249531005055 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 1249531005056 ATP binding site [chemical binding]; other site 1249531005057 Mg2+ binding site [ion binding]; other site 1249531005058 G-X-G motif; other site 1249531005059 Response regulator receiver domain; Region: Response_reg; pfam00072 1249531005060 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 1249531005061 active site 1249531005062 phosphorylation site [posttranslational modification] 1249531005063 intermolecular recognition site; other site 1249531005064 dimerization interface [polypeptide binding]; other site 1249531005065 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; cl00086 1249531005066 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 1249531005067 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249531005068 putative substrate translocation pore; other site 1249531005069 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1249531005070 Walker A/P-loop; other site 1249531005071 ATP binding site [chemical binding]; other site 1249531005072 Q-loop/lid; other site 1249531005073 ABC transporter signature motif; other site 1249531005074 Walker B; other site 1249531005075 D-loop; other site 1249531005076 H-loop/switch region; other site 1249531005077 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1249531005078 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 1249531005079 ATP binding site [chemical binding]; other site 1249531005080 substrate interface [chemical binding]; other site 1249531005081 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1249531005082 active site 1249531005083 catalytic residues [active] 1249531005084 DNA binding site [nucleotide binding] 1249531005085 Int/Topo IB signature motif; other site 1249531005086 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1249531005087 Putative helicase; Region: TraI_2; pfam07514 1249531005088 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1249531005089 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1249531005090 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1249531005091 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531005092 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531005093 Integrase core domain; Region: rve; pfam00665 1249531005094 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531005095 Integrase core domain; Region: rve_3; pfam13683 1249531005096 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1249531005097 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1249531005098 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1249531005099 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1249531005100 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531005101 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1249531005102 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1249531005103 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1249531005104 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1249531005105 Putative helicase; Region: TraI_2; pfam07514 1249531005106 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1249531005107 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1249531005108 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1249531005109 gamma-glutamyl kinase; Provisional; Region: PRK05429 1249531005110 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 1249531005111 homotetrameric interface [polypeptide binding]; other site 1249531005112 putative phosphate binding site [ion binding]; other site 1249531005113 putative allosteric binding site; other site 1249531005114 nucleotide binding site [chemical binding]; other site 1249531005115 PUA domain; Region: PUA; pfam01472 1249531005116 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1249531005117 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249531005118 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1249531005119 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 1249531005120 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 1249531005121 inhibitor-cofactor binding pocket; inhibition site 1249531005122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531005123 catalytic residue [active] 1249531005124 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1249531005125 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 1249531005126 substrate-cofactor binding pocket; other site 1249531005127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531005128 catalytic residue [active] 1249531005129 Protein of unknown function (DUF452); Region: DUF452; pfam04301 1249531005130 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1249531005131 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 1249531005132 S-adenosylmethionine binding site [chemical binding]; other site 1249531005133 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1249531005134 AAA domain; Region: AAA_26; pfam13500 1249531005135 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1249531005136 active site 1249531005137 zinc binding site [ion binding]; other site 1249531005138 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1249531005139 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1249531005140 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531005141 Walker A/P-loop; other site 1249531005142 ATP binding site [chemical binding]; other site 1249531005143 Q-loop/lid; other site 1249531005144 ABC transporter signature motif; other site 1249531005145 Walker B; other site 1249531005146 D-loop; other site 1249531005147 H-loop/switch region; other site 1249531005148 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249531005149 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1249531005150 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531005151 Walker A/P-loop; other site 1249531005152 ATP binding site [chemical binding]; other site 1249531005153 Q-loop/lid; other site 1249531005154 ABC transporter signature motif; other site 1249531005155 Walker B; other site 1249531005156 D-loop; other site 1249531005157 H-loop/switch region; other site 1249531005158 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1249531005159 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1249531005160 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1249531005161 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1249531005162 catalytic residue [active] 1249531005163 AAA domain; Region: AAA_31; pfam13614 1249531005164 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 1249531005165 P-loop; other site 1249531005166 Magnesium ion binding site [ion binding]; other site 1249531005167 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 1249531005168 Magnesium ion binding site [ion binding]; other site 1249531005169 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1249531005170 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 1249531005171 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531005172 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531005173 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531005174 Integrase core domain; Region: rve; pfam00665 1249531005175 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531005176 Integrase core domain; Region: rve_3; pfam13683 1249531005177 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1249531005178 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1249531005179 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1249531005180 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1249531005181 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 1249531005182 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1249531005183 catalytic residues [active] 1249531005184 hinge region; other site 1249531005185 alpha helical domain; other site 1249531005186 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1249531005187 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1249531005188 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1249531005189 GTP binding site; other site 1249531005190 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 1249531005191 Walker A motif; other site 1249531005192 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1249531005193 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1249531005194 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249531005195 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1249531005196 active site 1249531005197 phosphate binding residues; other site 1249531005198 catalytic residues [active] 1249531005199 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531005200 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531005201 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531005202 Integrase core domain; Region: rve; pfam00665 1249531005203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531005204 Integrase core domain; Region: rve_3; pfam13683 1249531005205 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1249531005206 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1249531005207 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1249531005208 DNA binding site [nucleotide binding] 1249531005209 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249531005210 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1249531005211 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 1249531005212 putative deacylase active site [active] 1249531005213 hypothetical protein; Provisional; Region: PRK04946 1249531005214 Smr domain; Region: Smr; pfam01713 1249531005215 HemK family putative methylases; Region: hemK_fam; TIGR00536 1249531005216 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 1249531005217 S-adenosylmethionine binding site [chemical binding]; other site 1249531005218 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1249531005219 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 1249531005220 putative active site [active] 1249531005221 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1249531005222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1249531005223 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1249531005224 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1249531005225 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1249531005226 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 1249531005227 active site 1249531005228 motif I; other site 1249531005229 motif II; other site 1249531005230 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1249531005231 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 1249531005232 catalytic triad [active] 1249531005233 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249531005234 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249531005235 HemN family oxidoreductase; Provisional; Region: PRK05660 1249531005236 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 1249531005237 FeS/SAM binding site; other site 1249531005238 HemN C-terminal domain; Region: HemN_C; pfam06969 1249531005239 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249531005240 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1249531005241 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1249531005242 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 1249531005243 dimer interface [polypeptide binding]; other site 1249531005244 conserved gate region; other site 1249531005245 putative PBP binding loops; other site 1249531005246 ABC-ATPase subunit interface; other site 1249531005247 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1249531005248 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1249531005249 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 1249531005250 dimer interface [polypeptide binding]; other site 1249531005251 conserved gate region; other site 1249531005252 putative PBP binding loops; other site 1249531005253 ABC-ATPase subunit interface; other site 1249531005254 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1249531005255 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531005256 Walker A/P-loop; other site 1249531005257 ATP binding site [chemical binding]; other site 1249531005258 Q-loop/lid; other site 1249531005259 ABC transporter signature motif; other site 1249531005260 Walker B; other site 1249531005261 D-loop; other site 1249531005262 H-loop/switch region; other site 1249531005263 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249531005264 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1249531005265 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531005266 Walker A/P-loop; other site 1249531005267 ATP binding site [chemical binding]; other site 1249531005268 Q-loop/lid; other site 1249531005269 ABC transporter signature motif; other site 1249531005270 Walker B; other site 1249531005271 D-loop; other site 1249531005272 H-loop/switch region; other site 1249531005273 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249531005274 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1249531005275 L-aspartate oxidase; Provisional; Region: PRK06175 1249531005276 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1249531005277 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1249531005278 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1249531005279 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1249531005280 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1249531005281 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1249531005282 HD domain; Region: HD_4; pfam13328 1249531005283 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1249531005284 synthetase active site [active] 1249531005285 NTP binding site [chemical binding]; other site 1249531005286 metal binding site [ion binding]; metal-binding site 1249531005287 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 1249531005288 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1249531005289 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1249531005290 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1249531005291 tRNA; other site 1249531005292 putative tRNA binding site [nucleotide binding]; other site 1249531005293 putative NADP binding site [chemical binding]; other site 1249531005294 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1249531005295 GTP-binding protein Der; Reviewed; Region: PRK00093 1249531005296 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1249531005297 G1 box; other site 1249531005298 GTP/Mg2+ binding site [chemical binding]; other site 1249531005299 Switch I region; other site 1249531005300 G2 box; other site 1249531005301 Switch II region; other site 1249531005302 G3 box; other site 1249531005303 G4 box; other site 1249531005304 G5 box; other site 1249531005305 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1249531005306 G1 box; other site 1249531005307 GTP/Mg2+ binding site [chemical binding]; other site 1249531005308 Switch I region; other site 1249531005309 G2 box; other site 1249531005310 G3 box; other site 1249531005311 Switch II region; other site 1249531005312 G4 box; other site 1249531005313 G5 box; other site 1249531005314 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1249531005315 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 1249531005316 putative ribose interaction site [chemical binding]; other site 1249531005317 putative ADP binding site [chemical binding]; other site 1249531005318 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1249531005319 active site 1249531005320 nucleotide binding site [chemical binding]; other site 1249531005321 HIGH motif; other site 1249531005322 KMSKS motif; other site 1249531005323 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1249531005324 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249531005325 active site 1249531005326 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1249531005327 SurA N-terminal domain; Region: SurA_N; pfam09312 1249531005328 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249531005329 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1249531005330 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 1249531005331 S-adenosylmethionine binding site [chemical binding]; other site 1249531005332 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249531005333 active site 1249531005334 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1249531005335 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1249531005336 acyl-activating enzyme (AAE) consensus motif; other site 1249531005337 putative AMP binding site [chemical binding]; other site 1249531005338 putative active site [active] 1249531005339 putative CoA binding site [chemical binding]; other site 1249531005340 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1249531005341 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1249531005342 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1249531005343 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1249531005344 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1249531005345 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1249531005346 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1249531005347 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249531005348 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 1249531005349 DNA binding residues [nucleotide binding] 1249531005350 2-isopropylmalate synthase; Validated; Region: PRK00915 1249531005351 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1249531005352 active site 1249531005353 catalytic residues [active] 1249531005354 metal binding site [ion binding]; metal-binding site 1249531005355 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1249531005356 putative hydrolase; Provisional; Region: PRK10976 1249531005357 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 1249531005358 active site 1249531005359 motif I; other site 1249531005360 motif II; other site 1249531005361 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249531005362 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1249531005363 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249531005364 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249531005365 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1249531005366 Sodium Bile acid symporter family; Region: SBF; cl17470 1249531005367 Sodium Bile acid symporter family; Region: SBF; cl17470 1249531005368 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 1249531005369 aminopeptidase B; Provisional; Region: PRK05015 1249531005370 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 1249531005371 interface (dimer of trimers) [polypeptide binding]; other site 1249531005372 Substrate-binding/catalytic site; other site 1249531005373 Zn-binding sites [ion binding]; other site 1249531005374 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1249531005375 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1249531005376 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1249531005377 Part of AAA domain; Region: AAA_19; pfam13245 1249531005378 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1249531005379 multidrug efflux protein; Reviewed; Region: PRK01766 1249531005380 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1249531005381 cation binding site [ion binding]; other site 1249531005382 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1249531005383 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1249531005384 GrpE; Region: GrpE; pfam01025 1249531005385 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 1249531005386 dimer interface [polypeptide binding]; other site 1249531005387 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1249531005388 Predicted membrane protein [Function unknown]; Region: COG2707 1249531005389 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1249531005390 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 1249531005391 ATP binding site [chemical binding]; other site 1249531005392 putative Mg++ binding site [ion binding]; other site 1249531005393 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 1249531005394 nucleotide binding region [chemical binding]; other site 1249531005395 ATP-binding site [chemical binding]; other site 1249531005396 Helicase associated domain (HA2); Region: HA2; pfam04408 1249531005397 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1249531005398 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1249531005399 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1249531005400 catalytic triad [active] 1249531005401 putative active site [active] 1249531005402 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249531005403 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1249531005404 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1249531005405 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 1249531005406 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1249531005407 ligand binding site [chemical binding]; other site 1249531005408 active site 1249531005409 UGI interface [polypeptide binding]; other site 1249531005410 catalytic site [active] 1249531005411 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1249531005412 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1249531005413 NlpC/P60 family; Region: NLPC_P60; pfam00877 1249531005414 endonuclease IV; Provisional; Region: PRK01060 1249531005415 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 1249531005416 AP (apurinic/apyrimidinic) site pocket; other site 1249531005417 DNA interaction; other site 1249531005418 Metal-binding active site; metal-binding site 1249531005419 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1249531005420 polysaccharide export protein Wza; Provisional; Region: PRK15078 1249531005421 methionine aminopeptidase; Provisional; Region: PLN03158 1249531005422 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531005423 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531005424 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531005425 Integrase core domain; Region: rve; pfam00665 1249531005426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531005427 Integrase core domain; Region: rve_3; pfam13683 1249531005428 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 1249531005429 hypothetical protein; Provisional; Region: PRK03641 1249531005430 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1249531005431 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 1249531005432 Transporter associated domain; Region: CorC_HlyC; smart01091 1249531005433 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1249531005434 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1249531005435 putative active site [active] 1249531005436 catalytic triad [active] 1249531005437 putative dimer interface [polypeptide binding]; other site 1249531005438 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 1249531005439 homopentamer interface [polypeptide binding]; other site 1249531005440 active site 1249531005441 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1249531005442 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1249531005443 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 1249531005444 dimerization interface [polypeptide binding]; other site 1249531005445 active site 1249531005446 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1249531005447 Lumazine binding domain; Region: Lum_binding; pfam00677 1249531005448 Lumazine binding domain; Region: Lum_binding; pfam00677 1249531005449 Lumazine binding domain; Region: Lum_binding; pfam00677 1249531005450 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1249531005451 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 1249531005452 catalytic motif [active] 1249531005453 Zn binding site [ion binding]; other site 1249531005454 RibD C-terminal domain; Region: RibD_C; cl17279 1249531005455 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1249531005456 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1249531005457 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 1249531005458 Walker A motif; other site 1249531005459 ATP binding site [chemical binding]; other site 1249531005460 Walker B motif; other site 1249531005461 arginine finger; other site 1249531005462 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1249531005463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531005464 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1249531005465 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1249531005466 putative dimerization interface [polypeptide binding]; other site 1249531005467 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249531005468 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 1249531005469 putative active site [active] 1249531005470 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249531005471 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 1249531005472 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1249531005473 transketolase; Reviewed; Region: PRK12753 1249531005474 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 1249531005475 TPP-binding site [chemical binding]; other site 1249531005476 dimer interface [polypeptide binding]; other site 1249531005477 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 1249531005478 PYR/PP interface [polypeptide binding]; other site 1249531005479 dimer interface [polypeptide binding]; other site 1249531005480 TPP binding site [chemical binding]; other site 1249531005481 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1249531005482 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1249531005483 PhoH-like protein; Region: PhoH; pfam02562 1249531005484 fatty acid metabolism regulator; Provisional; Region: PRK04984 1249531005485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249531005486 DNA-binding site [nucleotide binding]; DNA binding site 1249531005487 FadR C-terminal domain; Region: FadR_C; pfam07840 1249531005488 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1249531005489 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1249531005490 cystathionine beta-lyase; Provisional; Region: PRK08114 1249531005491 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 1249531005492 homodimer interface [polypeptide binding]; other site 1249531005493 substrate-cofactor binding pocket; other site 1249531005494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531005495 catalytic residue [active] 1249531005496 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 1249531005497 THF binding site; other site 1249531005498 substrate binding site [chemical binding]; other site 1249531005499 zinc-binding site [ion binding]; other site 1249531005500 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1249531005501 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249531005502 active site 1249531005503 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1249531005504 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1249531005505 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 1249531005506 amidase catalytic site [active] 1249531005507 Zn binding residues [ion binding]; other site 1249531005508 substrate binding site [chemical binding]; other site 1249531005509 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1249531005510 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249531005511 active site 1249531005512 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1249531005513 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1249531005514 ATP-dependent helicase HepA; Validated; Region: PRK04914 1249531005515 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 1249531005516 ATP binding site [chemical binding]; other site 1249531005517 putative Mg++ binding site [ion binding]; other site 1249531005518 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 1249531005519 nucleotide binding region [chemical binding]; other site 1249531005520 ATP-binding site [chemical binding]; other site 1249531005521 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1249531005522 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1249531005523 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1249531005524 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1249531005525 TRAM domain; Region: TRAM; pfam01938 1249531005526 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 1249531005527 S-adenosylmethionine binding site [chemical binding]; other site 1249531005528 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 1249531005529 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1249531005530 putative substrate translocation pore; other site 1249531005531 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1249531005532 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 1249531005533 RNA binding surface [nucleotide binding]; other site 1249531005534 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1249531005535 active site 1249531005536 uracil binding [chemical binding]; other site 1249531005537 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1249531005538 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 1249531005539 active site 1249531005540 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1249531005541 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1249531005542 active site 1249531005543 HIGH motif; other site 1249531005544 KMSKS motif; other site 1249531005545 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1249531005546 tRNA binding surface [nucleotide binding]; other site 1249531005547 anticodon binding site; other site 1249531005548 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 1249531005549 dimer interface [polypeptide binding]; other site 1249531005550 putative tRNA-binding site [nucleotide binding]; other site 1249531005551 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 1249531005552 active site 1249531005553 multimer interface [polypeptide binding]; other site 1249531005554 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1249531005555 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1249531005556 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1249531005557 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1249531005558 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1249531005559 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1249531005560 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1249531005561 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1249531005562 purine monophosphate binding site [chemical binding]; other site 1249531005563 dimer interface [polypeptide binding]; other site 1249531005564 putative catalytic residues [active] 1249531005565 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1249531005566 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1249531005567 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1249531005568 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1249531005569 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1249531005570 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1249531005571 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1249531005572 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1249531005573 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1249531005574 dimer interface [polypeptide binding]; other site 1249531005575 active site 1249531005576 catalytic residue [active] 1249531005577 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1249531005578 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1249531005579 putative acyl-acceptor binding pocket; other site 1249531005580 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 1249531005581 30S subunit binding site; other site 1249531005582 Entericidin EcnA/B family; Region: Entericidin; cl02322 1249531005583 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1249531005584 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 1249531005585 RNA binding surface [nucleotide binding]; other site 1249531005586 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249531005587 active site 1249531005588 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1249531005589 UGMP family protein; Validated; Region: PRK09604 1249531005590 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1249531005591 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 1249531005592 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1249531005593 putative iron binding site [ion binding]; other site 1249531005594 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1249531005595 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 1249531005596 ATP binding site [chemical binding]; other site 1249531005597 putative Mg++ binding site [ion binding]; other site 1249531005598 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 1249531005599 nucleotide binding region [chemical binding]; other site 1249531005600 ATP-binding site [chemical binding]; other site 1249531005601 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1249531005602 HRDC domain; Region: HRDC; pfam00570 1249531005603 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1249531005604 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1249531005605 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1249531005606 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1249531005607 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1249531005608 23S rRNA binding site [nucleotide binding]; other site 1249531005609 L21 binding site [polypeptide binding]; other site 1249531005610 L13 binding site [polypeptide binding]; other site 1249531005611 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1249531005612 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1249531005613 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1249531005614 GIY-YIG motif/motif A; other site 1249531005615 active site 1249531005616 catalytic site [active] 1249531005617 putative DNA binding site [nucleotide binding]; other site 1249531005618 metal binding site [ion binding]; metal-binding site 1249531005619 UvrB/uvrC motif; Region: UVR; pfam02151 1249531005620 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1249531005621 Helix-hairpin-helix motif; Region: HHH; pfam00633 1249531005622 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1249531005623 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1249531005624 YccA-like proteins; Region: YccA_like; cd10433 1249531005625 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1249531005626 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1249531005627 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1249531005628 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1249531005629 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1249531005630 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 1249531005631 active site turn [active] 1249531005632 phosphorylation site [posttranslational modification] 1249531005633 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1249531005634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249531005635 ATP-grasp domain; Region: ATP-grasp; pfam02222 1249531005636 Predicted membrane protein [Function unknown]; Region: COG3059 1249531005637 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 1249531005638 active site residue [active] 1249531005639 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1249531005640 Cupin; Region: Cupin_6; pfam12852 1249531005641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531005642 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249531005643 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531005644 Predicted membrane protein [Function unknown]; Region: COG1584 1249531005645 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1249531005646 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1249531005647 putative acyl-acceptor binding pocket; other site 1249531005648 LexA repressor; Validated; Region: PRK00215 1249531005649 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1249531005650 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 1249531005651 Catalytic site [active] 1249531005652 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 1249531005653 putative DNA-binding cleft [nucleotide binding]; other site 1249531005654 putative DNA clevage site; other site 1249531005655 molecular lever; other site 1249531005656 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1249531005657 beta-hexosaminidase; Provisional; Region: PRK05337 1249531005658 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1249531005659 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 1249531005660 enolase; Provisional; Region: eno; PRK00077 1249531005661 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 1249531005662 dimer interface [polypeptide binding]; other site 1249531005663 metal binding site [ion binding]; metal-binding site 1249531005664 substrate binding pocket [chemical binding]; other site 1249531005665 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 1249531005666 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. 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...; Region: DHOD_1A_like; cd04741 1249531005667 active site 1249531005668 FMN binding site [chemical binding]; other site 1249531005669 substrate binding site [chemical binding]; other site 1249531005670 catalytic residues [active] 1249531005671 homodimer interface [polypeptide binding]; other site 1249531005672 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1249531005673 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1249531005674 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1249531005675 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1249531005676 nudix motif; other site 1249531005677 selenophosphate synthetase; Provisional; Region: PRK00943 1249531005678 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 1249531005679 dimerization interface [polypeptide binding]; other site 1249531005680 putative ATP binding site [chemical binding]; other site 1249531005681 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531005682 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531005683 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531005684 Integrase core domain; Region: rve; pfam00665 1249531005685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531005686 Integrase core domain; Region: rve_3; pfam13683 1249531005687 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 1249531005688 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1249531005689 active site 1249531005690 WYL domain; Region: WYL; pfam13280 1249531005691 peptide chain release factor 2; Provisional; Region: PRK08787 1249531005692 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1249531005693 RF-1 domain; Region: RF-1; pfam00472 1249531005694 Predicted permeases [General function prediction only]; Region: COG0679 1249531005695 phosphodiesterase YaeI; Provisional; Region: PRK11340 1249531005696 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1249531005697 putative active site [active] 1249531005698 putative metal binding site [ion binding]; other site 1249531005699 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 1249531005700 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1249531005701 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 1249531005702 dimer interface [polypeptide binding]; other site 1249531005703 active site 1249531005704 galactokinase; Provisional; Region: PRK05101 1249531005705 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1249531005706 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1249531005707 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1249531005708 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1249531005709 active site 1249531005710 catalytic residues [active] 1249531005711 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1249531005712 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1249531005713 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1249531005714 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1249531005715 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1249531005716 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1249531005717 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1249531005718 Protein export membrane protein; Region: SecD_SecF; pfam02355 1249531005719 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1249531005720 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249531005721 AzlC protein; Region: AzlC; pfam03591 1249531005722 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1249531005723 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249531005724 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1249531005725 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249531005726 hypothetical protein; Provisional; Region: PRK04860 1249531005727 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1249531005728 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; cl00208 1249531005729 CAS motifs; other site 1249531005730 active site 1249531005731 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1249531005732 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1249531005733 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1249531005734 nucleophile elbow; other site 1249531005735 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1249531005736 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1249531005737 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1249531005738 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1249531005739 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1249531005740 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1249531005741 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1249531005742 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1249531005743 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1249531005744 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1249531005745 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 1249531005746 dimer interface [polypeptide binding]; other site 1249531005747 conserved gate region; other site 1249531005748 ABC-ATPase subunit interface; other site 1249531005749 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1249531005750 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1249531005751 Walker A/P-loop; other site 1249531005752 ATP binding site [chemical binding]; other site 1249531005753 Q-loop/lid; other site 1249531005754 ABC transporter signature motif; other site 1249531005755 Walker B; other site 1249531005756 D-loop; other site 1249531005757 H-loop/switch region; other site 1249531005758 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 1249531005759 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1249531005760 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1249531005761 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 1249531005762 putative active site [active] 1249531005763 putative metal-binding site [ion binding]; other site 1249531005764 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1249531005765 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1249531005766 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1249531005767 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 1249531005768 putative ATP binding site [chemical binding]; other site 1249531005769 putative substrate interface [chemical binding]; other site 1249531005770 ABC transporter ATPase component; Reviewed; Region: PRK11147 1249531005771 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531005772 Walker A/P-loop; other site 1249531005773 ATP binding site [chemical binding]; other site 1249531005774 ABC transporter signature motif; other site 1249531005775 Walker B; other site 1249531005776 D-loop; other site 1249531005777 H-loop/switch region; other site 1249531005778 ABC transporter; Region: ABC_tran_2; pfam12848 1249531005779 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249531005780 DNA gyrase subunit A; Validated; Region: PRK05560 1249531005781 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 1249531005782 CAP-like domain; other site 1249531005783 active site 1249531005784 primary dimer interface [polypeptide binding]; other site 1249531005785 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249531005786 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249531005787 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249531005788 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249531005789 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249531005790 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249531005791 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1249531005792 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1249531005793 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 1249531005794 S-adenosylmethionine binding site [chemical binding]; other site 1249531005795 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1249531005796 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 1249531005797 Ligand Binding Site [chemical binding]; other site 1249531005798 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1249531005799 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 1249531005800 active site 1249531005801 phosphorylation site [posttranslational modification] 1249531005802 intermolecular recognition site; other site 1249531005803 dimerization interface [polypeptide binding]; other site 1249531005804 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 1249531005805 DNA binding residues [nucleotide binding] 1249531005806 dimerization interface [polypeptide binding]; other site 1249531005807 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1249531005808 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 1249531005809 dimer interface [polypeptide binding]; other site 1249531005810 phosphorylation site [posttranslational modification] 1249531005811 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 1249531005812 ATP binding site [chemical binding]; other site 1249531005813 Mg2+ binding site [ion binding]; other site 1249531005814 G-X-G motif; other site 1249531005815 PIN domain; Region: PIN_3; cl17397 1249531005816 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1249531005817 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1249531005818 4Fe-4S binding domain; Region: Fer4; pfam00037 1249531005819 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1249531005820 tetrathionate reductase subunit A; Provisional; Region: PRK14991 1249531005821 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 1249531005822 molybdopterin cofactor binding site; other site 1249531005823 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 1249531005824 putative molybdopterin cofactor binding site [chemical binding]; other site 1249531005825 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 1249531005826 putative molybdopterin cofactor binding site; other site 1249531005827 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1249531005828 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1249531005829 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1249531005830 Guanylate kinase; Region: Guanylate_kin; pfam00625 1249531005831 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 1249531005832 catalytic site [active] 1249531005833 G-X2-G-X-G-K; other site 1249531005834 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249531005835 active site 1249531005836 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1249531005837 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1249531005838 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1249531005839 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1249531005840 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1249531005841 metal binding site [ion binding]; metal-binding site 1249531005842 dimer interface [polypeptide binding]; other site 1249531005843 benzoate transport; Region: 2A0115; TIGR00895 1249531005844 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 1249531005845 putative substrate translocation pore; other site 1249531005846 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 1249531005847 hypothetical protein; Validated; Region: PRK01777 1249531005848 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1249531005849 putative coenzyme Q binding site [chemical binding]; other site 1249531005850 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1249531005851 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531005852 Walker A/P-loop; other site 1249531005853 ATP binding site [chemical binding]; other site 1249531005854 Q-loop/lid; other site 1249531005855 ABC transporter signature motif; other site 1249531005856 Walker B; other site 1249531005857 D-loop; other site 1249531005858 H-loop/switch region; other site 1249531005859 TOBE domain; Region: TOBE; cl01440 1249531005860 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1249531005861 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 1249531005862 dimer interface [polypeptide binding]; other site 1249531005863 conserved gate region; other site 1249531005864 putative PBP binding loops; other site 1249531005865 ABC-ATPase subunit interface; other site 1249531005866 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1249531005867 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249531005868 inner membrane transport permease; Provisional; Region: PRK15066 1249531005869 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1249531005870 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1249531005871 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1249531005872 Walker A/P-loop; other site 1249531005873 ATP binding site [chemical binding]; other site 1249531005874 Q-loop/lid; other site 1249531005875 ABC transporter signature motif; other site 1249531005876 Walker B; other site 1249531005877 D-loop; other site 1249531005878 H-loop/switch region; other site 1249531005879 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1249531005880 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 1249531005881 Walker A motif; other site 1249531005882 ATP binding site [chemical binding]; other site 1249531005883 Walker B motif; other site 1249531005884 arginine finger; other site 1249531005885 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1249531005886 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1249531005887 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249531005888 active site 1249531005889 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1249531005890 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1249531005891 putative acyl-acceptor binding pocket; other site 1249531005892 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1249531005893 electron transport complex protein RnfG; Validated; Region: PRK01908 1249531005894 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1249531005895 Predicted membrane protein [Function unknown]; Region: COG2860 1249531005896 UPF0126 domain; Region: UPF0126; pfam03458 1249531005897 UPF0126 domain; Region: UPF0126; pfam03458 1249531005898 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1249531005899 SLBB domain; Region: SLBB; pfam10531 1249531005900 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 1249531005901 ferredoxin; Provisional; Region: PRK08764 1249531005902 Putative Fe-S cluster; Region: FeS; pfam04060 1249531005903 4Fe-4S binding domain; Region: Fer4; pfam00037 1249531005904 4Fe-4S binding domain; Region: Fer4; cl02805 1249531005905 electron transport complex protein RsxA; Provisional; Region: PRK05151 1249531005906 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1249531005907 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249531005908 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249531005909 ABC transporter; Region: ABC_tran_2; pfam12848 1249531005910 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249531005911 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1249531005912 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 1249531005913 active site 1249531005914 catalytic site [active] 1249531005915 substrate binding site [chemical binding]; other site 1249531005916 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1249531005917 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1249531005918 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1249531005919 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1249531005920 primosomal replication protein N; Provisional; Region: PRK02801 1249531005921 generic binding surface II; other site 1249531005922 generic binding surface I; other site 1249531005923 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1249531005924 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1249531005925 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1249531005926 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1249531005927 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1249531005928 Colicin pore forming domain; Region: Colicin; pfam01024 1249531005929 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1249531005930 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1249531005931 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1249531005932 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1249531005933 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249531005934 trimer interface [polypeptide binding]; other site 1249531005935 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249531005936 trimer interface [polypeptide binding]; other site 1249531005937 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249531005938 trimer interface [polypeptide binding]; other site 1249531005939 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249531005940 trimer interface [polypeptide binding]; other site 1249531005941 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1249531005942 YadA-like C-terminal region; Region: YadA; pfam03895 1249531005943 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 1249531005944 transmembrane helices; other site 1249531005945 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1249531005946 TrkA-C domain; Region: TrkA_C; pfam02080 1249531005947 TrkA-C domain; Region: TrkA_C; pfam02080 1249531005948 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1249531005949 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 1249531005950 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1249531005951 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 1249531005952 RNA binding surface [nucleotide binding]; other site 1249531005953 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1249531005954 probable active site [active] 1249531005955 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1249531005956 anthranilate synthase component I; Provisional; Region: PRK13564 1249531005957 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1249531005958 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1249531005959 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1249531005960 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1249531005961 glutamine binding [chemical binding]; other site 1249531005962 catalytic triad [active] 1249531005963 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 1249531005964 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1249531005965 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1249531005966 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1249531005967 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249531005968 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 1249531005969 S-adenosylmethionine binding site [chemical binding]; other site 1249531005970 Fe-S metabolism associated domain; Region: SufE; cl00951 1249531005971 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1249531005972 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1249531005973 oligomer interface [polypeptide binding]; other site 1249531005974 active site residues [active] 1249531005975 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1249531005976 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1249531005977 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 1249531005978 Walker A motif; other site 1249531005979 ATP binding site [chemical binding]; other site 1249531005980 Walker B motif; other site 1249531005981 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1249531005982 Fic family protein [Function unknown]; Region: COG3177 1249531005983 Fic/DOC family; Region: Fic; pfam02661 1249531005984 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1249531005985 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 1249531005986 non-specific DNA binding site [nucleotide binding]; other site 1249531005987 salt bridge; other site 1249531005988 sequence-specific DNA binding site [nucleotide binding]; other site 1249531005989 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1249531005990 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1249531005991 Trm112p-like protein; Region: Trm112p; cl01066 1249531005992 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1249531005993 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1249531005994 NAD binding site [chemical binding]; other site 1249531005995 homodimer interface [polypeptide binding]; other site 1249531005996 active site 1249531005997 substrate binding site [chemical binding]; other site 1249531005998 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 1249531005999 FAD binding site [chemical binding]; other site 1249531006000 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1249531006001 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1249531006002 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249531006003 intersubunit interface [polypeptide binding]; other site 1249531006004 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1249531006005 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1249531006006 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249531006007 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; cl00462 1249531006008 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 1249531006009 putative PBP binding regions; other site 1249531006010 ABC-ATPase subunit interface; other site 1249531006011 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1249531006012 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249531006013 Walker A/P-loop; other site 1249531006014 ATP binding site [chemical binding]; other site 1249531006015 Q-loop/lid; other site 1249531006016 ABC transporter signature motif; other site 1249531006017 Walker B; other site 1249531006018 D-loop; other site 1249531006019 H-loop/switch region; other site 1249531006020 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249531006021 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249531006022 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249531006023 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249531006024 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249531006025 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 1249531006026 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1249531006027 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1249531006028 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1249531006029 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1249531006030 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1249531006031 substrate binding pocket [chemical binding]; other site 1249531006032 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1249531006033 B12 binding site [chemical binding]; other site 1249531006034 cobalt ligand [ion binding]; other site 1249531006035 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1249531006036 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1249531006037 AmpG-like permease; Region: 2A0125; TIGR00901 1249531006038 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249531006039 Walker A/P-loop; other site 1249531006040 ATP binding site [chemical binding]; other site 1249531006041 ABC transporter; Region: ABC_tran; pfam00005 1249531006042 Q-loop/lid; other site 1249531006043 ABC transporter signature motif; other site 1249531006044 Walker B; other site 1249531006045 D-loop; other site 1249531006046 H-loop/switch region; other site 1249531006047 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249531006048 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1249531006049 intersubunit interface [polypeptide binding]; other site 1249531006050 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249531006051 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 1249531006052 ABC-ATPase subunit interface; other site 1249531006053 dimer interface [polypeptide binding]; other site 1249531006054 putative PBP binding regions; other site 1249531006055 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249531006056 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 1249531006057 ABC-ATPase subunit interface; other site 1249531006058 dimer interface [polypeptide binding]; other site 1249531006059 putative PBP binding regions; other site 1249531006060 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1249531006061 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1249531006062 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 1249531006063 ligand-binding site [chemical binding]; other site 1249531006064 adenylate kinase; Reviewed; Region: adk; PRK00279 1249531006065 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 1249531006066 AMP-binding site [chemical binding]; other site 1249531006067 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1249531006068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1249531006069 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1249531006070 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1249531006071 Prephenate dehydratase; Region: PDT; pfam00800 1249531006072 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 1249531006073 putative L-Phe binding site [chemical binding]; other site 1249531006074 oligopeptidase A; Provisional; Region: PRK10911 1249531006075 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1249531006076 active site 1249531006077 Zn binding site [ion binding]; other site 1249531006078 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1249531006079 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 1249531006080 FeS/SAM binding site; other site 1249531006081 Virulence protein [General function prediction only]; Region: COG3943 1249531006082 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249531006083 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1249531006084 Pyruvate formate lyase 1; Region: PFL1; cd01678 1249531006085 coenzyme A binding site [chemical binding]; other site 1249531006086 active site 1249531006087 catalytic residues [active] 1249531006088 glycine loop; other site 1249531006089 formate transporter FocA; Region: formate_focA; TIGR04060 1249531006090 Predicted membrane protein [Function unknown]; Region: COG1238 1249531006091 heat shock protein HtpX; Provisional; Region: PRK05457 1249531006092 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1249531006093 active site 1249531006094 DNA polymerase IV; Validated; Region: PRK02406 1249531006095 DNA binding site [nucleotide binding] 1249531006096 Predicted membrane protein [Function unknown]; Region: COG2431 1249531006097 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1249531006098 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 1249531006099 dimer interface [polypeptide binding]; other site 1249531006100 anticodon binding site; other site 1249531006101 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 1249531006102 homodimer interface [polypeptide binding]; other site 1249531006103 motif 1; other site 1249531006104 active site 1249531006105 motif 2; other site 1249531006106 GAD domain; Region: GAD; pfam02938 1249531006107 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 1249531006108 active site 1249531006109 motif 3; other site 1249531006110 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1249531006111 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1249531006112 N-terminal domain of PARMER_03128; Region: PARMER_03128_N; cd12106 1249531006113 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1249531006114 Baseplate J-like protein; Region: Baseplate_J; cl01294 1249531006115 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1249531006116 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1249531006117 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1249531006118 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1249531006119 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1249531006120 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1249531006121 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1249531006122 membrane protein P6; Region: PHA01399 1249531006123 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1249531006124 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1249531006125 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1249531006126 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1249531006127 Gp37 protein; Region: Gp37; pfam09646 1249531006128 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1249531006129 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1249531006130 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1249531006131 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1249531006132 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1249531006133 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1249531006134 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1249531006135 Terminase-like family; Region: Terminase_6; pfam03237 1249531006136 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1249531006137 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1249531006138 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1249531006139 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1249531006140 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1249531006141 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1249531006142 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1249531006143 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1249531006144 Mor transcription activator family; Region: Mor; pfam08765 1249531006145 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1249531006146 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 1249531006147 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1249531006148 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 1249531006149 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1249531006150 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 1249531006151 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 1249531006152 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1249531006153 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1249531006154 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249531006155 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 1249531006156 Catalytic site [active] 1249531006157 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1249531006158 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1249531006159 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249531006160 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1249531006161 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 1249531006162 nudix motif; other site 1249531006163 hypothetical protein; Validated; Region: PRK00110 1249531006164 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 1249531006165 active site 1249531006166 putative DNA-binding cleft [nucleotide binding]; other site 1249531006167 dimer interface [polypeptide binding]; other site 1249531006168 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1249531006169 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 1249531006170 hinge; other site 1249531006171 active site 1249531006172 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1249531006173 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 1249531006174 anti sigma factor interaction site; other site 1249531006175 regulatory phosphorylation site [posttranslational modification]; other site 1249531006176 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1249531006177 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1249531006178 mce related protein; Region: MCE; pfam02470 1249531006179 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1249531006180 conserved hypothetical integral membrane protein; Region: TIGR00056 1249531006181 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1249531006182 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1249531006183 Walker A/P-loop; other site 1249531006184 ATP binding site [chemical binding]; other site 1249531006185 Q-loop/lid; other site 1249531006186 ABC transporter signature motif; other site 1249531006187 Walker B; other site 1249531006188 D-loop; other site 1249531006189 H-loop/switch region; other site 1249531006190 serine endoprotease; Provisional; Region: PRK10942 1249531006191 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1249531006192 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 1249531006193 protein binding site [polypeptide binding]; other site 1249531006194 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 1249531006195 protein binding site [polypeptide binding]; other site 1249531006196 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 1249531006197 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 1249531006198 binding surface 1249531006199 TPR motif; other site 1249531006200 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 1249531006201 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1249531006202 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249531006203 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 1249531006204 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 1249531006205 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1249531006206 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1249531006207 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1249531006208 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1249531006209 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1249531006210 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249531006211 PYR/PP interface [polypeptide binding]; other site 1249531006212 dimer interface [polypeptide binding]; other site 1249531006213 TPP binding site [chemical binding]; other site 1249531006214 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249531006215 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1249531006216 TPP-binding site [chemical binding]; other site 1249531006217 dimer interface [polypeptide binding]; other site 1249531006218 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1249531006219 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1249531006220 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 1249531006221 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1249531006222 effector binding site; other site 1249531006223 active site 1249531006224 Zn binding site [ion binding]; other site 1249531006225 glycine loop; other site 1249531006226 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1249531006227 substrate binding site [chemical binding]; other site 1249531006228 multimerization interface [polypeptide binding]; other site 1249531006229 ATP binding site [chemical binding]; other site 1249531006230 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 1249531006231 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249531006232 putative substrate translocation pore; other site 1249531006233 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 1249531006234 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1249531006235 dimer interface [polypeptide binding]; other site 1249531006236 substrate binding site [chemical binding]; other site 1249531006237 ATP binding site [chemical binding]; other site 1249531006238 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1249531006239 thiamine phosphate binding site [chemical binding]; other site 1249531006240 active site 1249531006241 pyrophosphate binding site [ion binding]; other site 1249531006242 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1249531006243 Na binding site [ion binding]; other site 1249531006244 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 1249531006245 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1249531006246 tandem repeat interface [polypeptide binding]; other site 1249531006247 oligomer interface [polypeptide binding]; other site 1249531006248 active site residues [active] 1249531006249 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1249531006250 tandem repeat interface [polypeptide binding]; other site 1249531006251 oligomer interface [polypeptide binding]; other site 1249531006252 active site residues [active] 1249531006253 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 1249531006254 putative FMN binding site [chemical binding]; other site 1249531006255 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1249531006256 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1249531006257 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1249531006258 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 1249531006259 RNA binding site [nucleotide binding]; other site 1249531006260 TPR repeat; Region: TPR_11; pfam13414 1249531006261 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 1249531006262 binding surface 1249531006263 TPR motif; other site 1249531006264 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1249531006265 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 1249531006266 non-specific DNA binding site [nucleotide binding]; other site 1249531006267 salt bridge; other site 1249531006268 sequence-specific DNA binding site [nucleotide binding]; other site 1249531006269 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1249531006270 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 1249531006271 FeS/SAM binding site; other site 1249531006272 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1249531006273 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 1249531006274 metal binding site [ion binding]; metal-binding site 1249531006275 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1249531006276 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1249531006277 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1249531006278 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 1249531006279 ABC-ATPase subunit interface; other site 1249531006280 dimer interface [polypeptide binding]; other site 1249531006281 putative PBP binding regions; other site 1249531006282 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1249531006283 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 1249531006284 ABC-ATPase subunit interface; other site 1249531006285 dimer interface [polypeptide binding]; other site 1249531006286 putative PBP binding regions; other site 1249531006287 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249531006288 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1249531006289 putative NAD(P) binding site [chemical binding]; other site 1249531006290 peptidase T; Region: peptidase-T; TIGR01882 1249531006291 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1249531006292 metal binding site [ion binding]; metal-binding site 1249531006293 dimer interface [polypeptide binding]; other site 1249531006294 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1249531006295 oligomeric interface; other site 1249531006296 putative active site [active] 1249531006297 homodimer interface [polypeptide binding]; other site 1249531006298 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1249531006299 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1249531006300 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1249531006301 transcription-repair coupling factor; Provisional; Region: PRK10689 1249531006302 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1249531006303 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 1249531006304 ATP binding site [chemical binding]; other site 1249531006305 putative Mg++ binding site [ion binding]; other site 1249531006306 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 1249531006307 nucleotide binding region [chemical binding]; other site 1249531006308 ATP-binding site [chemical binding]; other site 1249531006309 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1249531006310 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1249531006311 aromatic amino acid transport protein; Region: araaP; TIGR00837 1249531006312 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1249531006313 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 1249531006314 ligand-binding site [chemical binding]; other site 1249531006315 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1249531006316 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1249531006317 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1249531006318 aminopeptidase N; Provisional; Region: pepN; PRK14015 1249531006319 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1249531006320 active site 1249531006321 Zn binding site [ion binding]; other site 1249531006322 Acylphosphatase; Region: Acylphosphatase; cl00551 1249531006323 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1249531006324 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1249531006325 peptide binding site [polypeptide binding]; other site 1249531006326 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1249531006327 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1249531006328 substrate binding site [chemical binding]; other site 1249531006329 ligand binding site [chemical binding]; other site 1249531006330 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1249531006331 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1249531006332 substrate binding site [chemical binding]; other site 1249531006333 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 1249531006334 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1249531006335 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 1249531006336 FMN binding site [chemical binding]; other site 1249531006337 active site 1249531006338 catalytic residues [active] 1249531006339 substrate binding site [chemical binding]; other site 1249531006340 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1249531006341 dimer interface [polypeptide binding]; other site 1249531006342 putative radical transfer pathway; other site 1249531006343 diiron center [ion binding]; other site 1249531006344 tyrosyl radical; other site 1249531006345 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1249531006346 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1249531006347 active site 1249531006348 dimer interface [polypeptide binding]; other site 1249531006349 catalytic residues [active] 1249531006350 effector binding site; other site 1249531006351 R2 peptide binding site; other site 1249531006352 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1249531006353 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1249531006354 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1249531006355 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 1249531006356 putative NADH binding site [chemical binding]; other site 1249531006357 putative active site [active] 1249531006358 nudix motif; other site 1249531006359 putative metal binding site [ion binding]; other site 1249531006360 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1249531006361 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1249531006362 active site 1249531006363 EamA-like transporter family; Region: EamA; pfam00892 1249531006364 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1249531006365 proline dipeptidase; Provisional; Region: PRK13607 1249531006366 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 1249531006367 active site 1249531006368 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 1249531006369 CPxP motif; other site 1249531006370 RNase E inhibitor protein; Provisional; Region: PRK11191 1249531006371 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1249531006372 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1249531006373 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1249531006374 G1 box; other site 1249531006375 GTP/Mg2+ binding site [chemical binding]; other site 1249531006376 Switch I region; other site 1249531006377 G2 box; other site 1249531006378 G3 box; other site 1249531006379 Switch II region; other site 1249531006380 G4 box; other site 1249531006381 G5 box; other site 1249531006382 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1249531006383 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1249531006384 DNA ligase; Provisional; Region: PRK09125 1249531006385 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1249531006386 DNA binding site [nucleotide binding] 1249531006387 active site 1249531006388 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 1249531006389 DNA binding site [nucleotide binding] 1249531006390 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1249531006391 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1249531006392 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1249531006393 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1249531006394 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1249531006395 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1249531006396 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1249531006397 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1249531006398 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1249531006399 active site 1249531006400 catalytic residues [active] 1249531006401 metal binding site [ion binding]; metal-binding site 1249531006402 homodimer binding site [polypeptide binding]; other site 1249531006403 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 1249531006404 carboxyltransferase (CT) interaction site; other site 1249531006405 biotinylation site [posttranslational modification]; other site 1249531006406 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1249531006407 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1249531006408 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1249531006409 active site 1249531006410 HIGH motif; other site 1249531006411 dimer interface [polypeptide binding]; other site 1249531006412 KMSKS motif; other site 1249531006413 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 1249531006414 RNA binding surface [nucleotide binding]; other site 1249531006415 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1249531006416 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1249531006417 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 1249531006418 active site 1249531006419 dimer interface [polypeptide binding]; other site 1249531006420 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1249531006421 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 1249531006422 active site 1249531006423 trimer interface [polypeptide binding]; other site 1249531006424 allosteric site; other site 1249531006425 active site lid [active] 1249531006426 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1249531006427 BRO family, N-terminal domain; Region: Bro-N; smart01040 1249531006428 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1249531006429 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1249531006430 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1249531006431 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1249531006432 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1249531006433 putative RNA binding site [nucleotide binding]; other site 1249531006434 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 1249531006435 S-adenosylmethionine binding site [chemical binding]; other site 1249531006436 transcriptional regulator NarP; Provisional; Region: PRK10403 1249531006437 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 1249531006438 active site 1249531006439 phosphorylation site [posttranslational modification] 1249531006440 intermolecular recognition site; other site 1249531006441 dimerization interface [polypeptide binding]; other site 1249531006442 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 1249531006443 DNA binding residues [nucleotide binding] 1249531006444 dimerization interface [polypeptide binding]; other site 1249531006445 transcriptional repressor RbsR; Provisional; Region: PRK10423 1249531006446 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249531006447 DNA binding site [nucleotide binding] 1249531006448 domain linker motif; other site 1249531006449 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 1249531006450 dimerization interface [polypeptide binding]; other site 1249531006451 ligand binding site [chemical binding]; other site 1249531006452 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249531006453 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 1249531006454 substrate binding site [chemical binding]; other site 1249531006455 dimer interface [polypeptide binding]; other site 1249531006456 ATP binding site [chemical binding]; other site 1249531006457 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1249531006458 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1249531006459 ligand binding site [chemical binding]; other site 1249531006460 dimerization interface [polypeptide binding]; other site 1249531006461 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249531006462 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 1249531006463 TM-ABC transporter signature motif; other site 1249531006464 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1249531006465 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249531006466 Walker A/P-loop; other site 1249531006467 ATP binding site [chemical binding]; other site 1249531006468 Q-loop/lid; other site 1249531006469 ABC transporter signature motif; other site 1249531006470 Walker B; other site 1249531006471 D-loop; other site 1249531006472 H-loop/switch region; other site 1249531006473 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249531006474 D-ribose pyranase; Provisional; Region: PRK11797 1249531006475 ferredoxin; Validated; Region: PRK07118 1249531006476 putative global regulator; Reviewed; Region: PRK09559 1249531006477 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1249531006478 hypothetical protein; Provisional; Region: PRK11820 1249531006479 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1249531006480 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1249531006481 ribonuclease PH; Reviewed; Region: rph; PRK00173 1249531006482 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1249531006483 hexamer interface [polypeptide binding]; other site 1249531006484 active site 1249531006485 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1249531006486 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 1249531006487 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1249531006488 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1249531006489 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1249531006490 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 1249531006491 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1249531006492 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1249531006493 Cysteine-rich domain; Region: CCG; pfam02754 1249531006494 Cysteine-rich domain; Region: CCG; pfam02754 1249531006495 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1249531006496 L-lactate permease; Region: Lactate_perm; cl00701 1249531006497 GTP-binding protein YchF; Reviewed; Region: PRK09601 1249531006498 YchF GTPase; Region: YchF; cd01900 1249531006499 G1 box; other site 1249531006500 GTP/Mg2+ binding site [chemical binding]; other site 1249531006501 Switch I region; other site 1249531006502 G2 box; other site 1249531006503 Switch II region; other site 1249531006504 G3 box; other site 1249531006505 G4 box; other site 1249531006506 G5 box; other site 1249531006507 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 1249531006508 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 1249531006509 putative active site [active] 1249531006510 catalytic residue [active] 1249531006511 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1249531006512 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1249531006513 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1249531006514 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1249531006515 G1 box; other site 1249531006516 putative GEF interaction site [polypeptide binding]; other site 1249531006517 GTP/Mg2+ binding site [chemical binding]; other site 1249531006518 Switch I region; other site 1249531006519 G2 box; other site 1249531006520 G3 box; other site 1249531006521 Switch II region; other site 1249531006522 G4 box; other site 1249531006523 G5 box; other site 1249531006524 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 1249531006525 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249531006526 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 1249531006527 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1249531006528 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 1249531006529 dimer interface [polypeptide binding]; other site 1249531006530 conserved gate region; other site 1249531006531 putative PBP binding loops; other site 1249531006532 ABC-ATPase subunit interface; other site 1249531006533 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1249531006534 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 1249531006535 dimer interface [polypeptide binding]; other site 1249531006536 conserved gate region; other site 1249531006537 putative PBP binding loops; other site 1249531006538 ABC-ATPase subunit interface; other site 1249531006539 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1249531006540 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531006541 Walker A/P-loop; other site 1249531006542 ATP binding site [chemical binding]; other site 1249531006543 Q-loop/lid; other site 1249531006544 ABC transporter signature motif; other site 1249531006545 Walker B; other site 1249531006546 D-loop; other site 1249531006547 H-loop/switch region; other site 1249531006548 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1249531006549 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249531006550 Walker A/P-loop; other site 1249531006551 ATP binding site [chemical binding]; other site 1249531006552 Q-loop/lid; other site 1249531006553 ABC transporter signature motif; other site 1249531006554 Walker B; other site 1249531006555 D-loop; other site 1249531006556 H-loop/switch region; other site 1249531006557 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1249531006558 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1249531006559 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1249531006560 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1249531006561 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1249531006562 domain interface [polypeptide binding]; other site 1249531006563 putative active site [active] 1249531006564 catalytic site [active] 1249531006565 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1249531006566 domain interface [polypeptide binding]; other site 1249531006567 putative active site [active] 1249531006568 catalytic site [active] 1249531006569 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1249531006570 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249531006571 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1249531006572 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249531006573 active site 1249531006574 HIGH motif; other site 1249531006575 nucleotide binding site [chemical binding]; other site 1249531006576 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1249531006577 active site 1249531006578 KMSKS motif; other site 1249531006579 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1249531006580 tRNA binding surface [nucleotide binding]; other site 1249531006581 anticodon binding site; other site 1249531006582 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1249531006583 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1249531006584 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1249531006585 active site 1249531006586 Riboflavin kinase; Region: Flavokinase; smart00904 1249531006587 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1249531006588 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249531006589 active site 1249531006590 nucleotide binding site [chemical binding]; other site 1249531006591 HIGH motif; other site 1249531006592 KMSKS motif; other site 1249531006593 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1249531006594 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249531006595 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1249531006596 active site 1249531006597 metal binding site [ion binding]; metal-binding site 1249531006598 two-component response regulator; Provisional; Region: PRK11173 1249531006599 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 1249531006600 active site 1249531006601 phosphorylation site [posttranslational modification] 1249531006602 intermolecular recognition site; other site 1249531006603 dimerization interface [polypeptide binding]; other site 1249531006604 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 1249531006605 DNA binding site [nucleotide binding] 1249531006606 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1249531006607 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1249531006608 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1249531006609 ligand binding site [chemical binding]; other site 1249531006610 NAD binding site [chemical binding]; other site 1249531006611 tetramer interface [polypeptide binding]; other site 1249531006612 catalytic site [active] 1249531006613 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1249531006614 L-serine binding site [chemical binding]; other site 1249531006615 ACT domain interface; other site 1249531006616 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 1249531006617 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249531006618 active site 1249531006619 dimer interface [polypeptide binding]; other site 1249531006620 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1249531006621 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 1249531006622 active site 1249531006623 substrate binding site [chemical binding]; other site 1249531006624 metal binding site [ion binding]; metal-binding site 1249531006625 threonine dehydratase; Reviewed; Region: PRK09224 1249531006626 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1249531006627 tetramer interface [polypeptide binding]; other site 1249531006628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531006629 catalytic residue [active] 1249531006630 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1249531006631 putative Ile/Val binding site [chemical binding]; other site 1249531006632 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1249531006633 putative Ile/Val binding site [chemical binding]; other site 1249531006634 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 1249531006635 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249531006636 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1249531006637 amphipathic channel; other site 1249531006638 Asn-Pro-Ala signature motifs; other site 1249531006639 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1249531006640 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1249531006641 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1249531006642 homodimer interaction site [polypeptide binding]; other site 1249531006643 cofactor binding site; other site 1249531006644 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1249531006645 UbiA prenyltransferase family; Region: UbiA; pfam01040 1249531006646 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1249531006647 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1249531006648 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1249531006649 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1249531006650 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1249531006651 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1249531006652 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249531006653 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1249531006654 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 1249531006655 DNA binding residues [nucleotide binding] 1249531006656 DNA primase; Validated; Region: dnaG; PRK05667 1249531006657 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1249531006658 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1249531006659 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 1249531006660 active site 1249531006661 metal binding site [ion binding]; metal-binding site 1249531006662 interdomain interaction site; other site 1249531006663 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1249531006664 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1249531006665 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1249531006666 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1249531006667 putative active site [active] 1249531006668 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1249531006669 O-Antigen ligase; Region: Wzy_C; pfam04932 1249531006670 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1249531006671 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1249531006672 NAD binding site [chemical binding]; other site 1249531006673 substrate binding site [chemical binding]; other site 1249531006674 homodimer interface [polypeptide binding]; other site 1249531006675 active site 1249531006676 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1249531006677 metal binding triad [ion binding]; metal-binding site 1249531006678 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1249531006679 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1249531006680 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 1249531006681 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 1249531006682 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249531006683 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249531006684 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1249531006685 active site 1249531006686 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1249531006687 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1249531006688 Chain length determinant protein; Region: Wzz; pfam02706 1249531006689 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1249531006690 Haemolytic domain; Region: Haemolytic; pfam01809 1249531006691 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1249531006692 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1249531006693 ferrochelatase; Reviewed; Region: hemH; PRK00035 1249531006694 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 1249531006695 C-terminal domain interface [polypeptide binding]; other site 1249531006696 active site 1249531006697 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 1249531006698 active site 1249531006699 N-terminal domain interface [polypeptide binding]; other site 1249531006700 Abi-like protein; Region: Abi_2; cl01988 1249531006701 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1249531006702 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249531006703 Zn2+ binding site [ion binding]; other site 1249531006704 Mg2+ binding site [ion binding]; other site 1249531006705 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1249531006706 synthetase active site [active] 1249531006707 NTP binding site [chemical binding]; other site 1249531006708 metal binding site [ion binding]; metal-binding site 1249531006709 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 1249531006710 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1249531006711 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1249531006712 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1249531006713 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1249531006714 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249531006715 DNA binding site [nucleotide binding] 1249531006716 domain linker motif; other site 1249531006717 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1249531006718 dimerization interface [polypeptide binding]; other site 1249531006719 ligand binding site [chemical binding]; other site 1249531006720 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1249531006721 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1249531006722 substrate binding [chemical binding]; other site 1249531006723 active site 1249531006724 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1249531006725 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249531006726 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1249531006727 putative substrate binding site [chemical binding]; other site 1249531006728 putative ATP binding site [chemical binding]; other site 1249531006729 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1249531006730 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1249531006731 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 1249531006732 FeS/SAM binding site; other site 1249531006733 TRAM domain; Region: TRAM; pfam01938 1249531006734 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 1249531006735 HPr interaction site; other site 1249531006736 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1249531006737 active site 1249531006738 phosphorylation site [posttranslational modification] 1249531006739 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1249531006740 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1249531006741 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1249531006742 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1249531006743 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 1249531006744 dimerization domain swap beta strand [polypeptide binding]; other site 1249531006745 regulatory protein interface [polypeptide binding]; other site 1249531006746 active site 1249531006747 regulatory phosphorylation site [posttranslational modification]; other site 1249531006748 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1249531006749 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 1249531006750 dimer interface [polypeptide binding]; other site 1249531006751 conserved gate region; other site 1249531006752 putative PBP binding loops; other site 1249531006753 ABC-ATPase subunit interface; other site 1249531006754 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1249531006755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249531006756 Walker A/P-loop; other site 1249531006757 ATP binding site [chemical binding]; other site 1249531006758 Q-loop/lid; other site 1249531006759 ABC transporter signature motif; other site 1249531006760 Walker B; other site 1249531006761 D-loop; other site 1249531006762 H-loop/switch region; other site 1249531006763 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 1249531006764 active site turn [active] 1249531006765 phosphorylation site [posttranslational modification] 1249531006766 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 1249531006767 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1249531006768 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1249531006769 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1249531006770 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 1249531006771 active site 1249531006772 hypothetical protein; Provisional; Region: PRK11212 1249531006773 Pirin-related protein [General function prediction only]; Region: COG1741 1249531006774 Pirin; Region: Pirin; pfam02678 1249531006775 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1249531006776 active site 1249531006777 phosphate binding residues; other site 1249531006778 catalytic residues [active] 1249531006779 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 1249531006780 AMP binding site [chemical binding]; other site 1249531006781 metal binding site [ion binding]; metal-binding site 1249531006782 active site 1249531006783 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1249531006784 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1249531006785 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249531006786 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1249531006787 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1249531006788 GTP binding site; other site 1249531006789 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 1249531006790 Walker A motif; other site 1249531006791 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1249531006792 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 1249531006793 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1249531006794 catalytic residues [active] 1249531006795 hinge region; other site 1249531006796 alpha helical domain; other site 1249531006797 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1249531006798 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1249531006799 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1249531006800 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1249531006801 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1249531006802 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 1249531006803 ATP binding site [chemical binding]; other site 1249531006804 Mg++ binding site [ion binding]; other site 1249531006805 motif III; other site 1249531006806 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 1249531006807 nucleotide binding region [chemical binding]; other site 1249531006808 ATP-binding site [chemical binding]; other site 1249531006809 glutaredoxin 1; Provisional; Region: grxA; PRK11200 1249531006810 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1249531006811 Na2 binding site [ion binding]; other site 1249531006812 putative substrate binding site 1 [chemical binding]; other site 1249531006813 Na binding site 1 [ion binding]; other site 1249531006814 putative substrate binding site 2 [chemical binding]; other site 1249531006815 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1249531006816 Domain of unknown function DUF21; Region: DUF21; pfam01595 1249531006817 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 1249531006818 Transporter associated domain; Region: CorC_HlyC; smart01091 1249531006819 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1249531006820 hypothetical protein; Provisional; Region: PRK11193 1249531006821 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1249531006822 putative phosphate acyltransferase; Provisional; Region: PRK05331 1249531006823 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1249531006824 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1249531006825 NAD binding site [chemical binding]; other site 1249531006826 dimerization interface [polypeptide binding]; other site 1249531006827 product binding site; other site 1249531006828 substrate binding site [chemical binding]; other site 1249531006829 zinc binding site [ion binding]; other site 1249531006830 catalytic residues [active] 1249531006831 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1249531006832 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1249531006833 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1249531006834 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1249531006835 ATP binding site [chemical binding]; other site 1249531006836 active site 1249531006837 substrate binding site [chemical binding]; other site 1249531006838 ketol-acid reductoisomerase; Validated; Region: PRK05225 1249531006839 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1249531006840 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1249531006841 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1249531006842 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1249531006843 Paraquat-inducible protein A; Region: PqiA; pfam04403 1249531006844 Paraquat-inducible protein A; Region: PqiA; pfam04403 1249531006845 HEXXH motif domain; Region: mod_HExxH; TIGR04267 1249531006846 TIGR01666 family membrane protein; Region: YCCS 1249531006847 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1249531006848 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1249531006849 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 1249531006850 active site 1249531006851 dimer interfaces [polypeptide binding]; other site 1249531006852 catalytic residues [active] 1249531006853 threonine synthase; Validated; Region: PRK09225 1249531006854 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1249531006855 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249531006856 catalytic residue [active] 1249531006857 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 1249531006858 catalytic triad [active] 1249531006859 dimer interface [polypeptide binding]; other site 1249531006860 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1249531006861 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1249531006862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531006863 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 1249531006864 dimerization interface [polypeptide binding]; other site 1249531006865 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1249531006866 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249531006867 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 1249531006868 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1249531006869 YadA-like C-terminal region; Region: YadA; pfam03895 1249531006870 Haemagglutinin; Region: HIM; pfam05662 1249531006871 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249531006872 trimer interface [polypeptide binding]; other site 1249531006873 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249531006874 trimer interface [polypeptide binding]; other site 1249531006875 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1249531006876 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1249531006877 Virulence protein [General function prediction only]; Region: COG3943 1249531006878 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249531006879 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1249531006880 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249531006881 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249531006882 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249531006883 VacJ like lipoprotein; Region: VacJ; cl01073 1249531006884 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 1249531006885 dimerization interface [polypeptide binding]; other site 1249531006886 DNA binding site [nucleotide binding] 1249531006887 corepressor binding sites; other site 1249531006888 Protein of unknown function (DUF997); Region: DUF997; pfam06196 1249531006889 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1249531006890 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1249531006891 Na binding site [ion binding]; other site 1249531006892 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1249531006893 Predicted membrane protein [Function unknown]; Region: COG2510 1249531006894 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249531006895 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1249531006896 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1249531006897 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1249531006898 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 1249531006899 dimer interface [polypeptide binding]; other site 1249531006900 ADP-ribose binding site [chemical binding]; other site 1249531006901 active site 1249531006902 nudix motif; other site 1249531006903 metal binding site [ion binding]; metal-binding site 1249531006904 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531006905 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531006906 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531006907 Integrase core domain; Region: rve; pfam00665 1249531006908 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531006909 Integrase core domain; Region: rve_3; pfam13683 1249531006910 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1249531006911 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1249531006912 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1249531006913 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 1249531006914 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 1249531006915 molybdopterin cofactor binding site [chemical binding]; other site 1249531006916 substrate binding site [chemical binding]; other site 1249531006917 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 1249531006918 molybdopterin cofactor binding site; other site 1249531006919 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1249531006920 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1249531006921 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 1249531006922 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1249531006923 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249531006924 active site 1249531006925 metal binding site [ion binding]; metal-binding site 1249531006926 hexamer interface [polypeptide binding]; other site 1249531006927 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1249531006928 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1249531006929 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1249531006930 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1249531006931 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1249531006932 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1249531006933 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1249531006934 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1249531006935 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 1249531006936 [4Fe-4S] binding site [ion binding]; other site 1249531006937 molybdopterin cofactor binding site; other site 1249531006938 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 1249531006939 molybdopterin cofactor binding site; other site 1249531006940 NapD protein; Region: NapD; pfam03927 1249531006941 ferredoxin-type protein NapF; Region: napF; TIGR00402 1249531006942 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1249531006943 4Fe-4S binding domain; Region: Fer4; cl02805 1249531006944 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1249531006945 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1249531006946 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1249531006947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531006948 catalytic residue [active] 1249531006949 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1249531006950 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 1249531006951 inhibitor-cofactor binding pocket; inhibition site 1249531006952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531006953 catalytic residue [active] 1249531006954 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1249531006955 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1249531006956 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1249531006957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1249531006958 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1249531006959 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1249531006960 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249531006961 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1249531006962 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1249531006963 hypothetical protein; Reviewed; Region: PRK00024 1249531006964 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1249531006965 MPN+ (JAMM) motif; other site 1249531006966 Zinc-binding site [ion binding]; other site 1249531006967 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1249531006968 Flavoprotein; Region: Flavoprotein; pfam02441 1249531006969 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1249531006970 Src Homology 3 domain superfamily; Region: SH3; cl17036 1249531006971 peptide ligand binding site [polypeptide binding]; other site 1249531006972 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1249531006973 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1249531006974 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1249531006975 Ligand binding site; other site 1249531006976 metal-binding site 1249531006977 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1249531006978 trimer interface [polypeptide binding]; other site 1249531006979 active site 1249531006980 division inhibitor protein; Provisional; Region: slmA; PRK09480 1249531006981 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249531006982 hypothetical protein; Provisional; Region: PRK04966 1249531006983 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1249531006984 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 1249531006985 ligand binding site [chemical binding]; other site 1249531006986 flexible hinge region; other site 1249531006987 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 1249531006988 putative switch regulator; other site 1249531006989 non-specific DNA interactions [nucleotide binding]; other site 1249531006990 DNA binding site [nucleotide binding] 1249531006991 sequence specific DNA binding site [nucleotide binding]; other site 1249531006992 putative cAMP binding site [chemical binding]; other site 1249531006993 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1249531006994 FAD binding domain; Region: FAD_binding_4; pfam01565 1249531006995 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1249531006996 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1249531006997 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1249531006998 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1249531006999 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1249531007000 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1249531007001 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1249531007002 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1249531007003 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1249531007004 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 1249531007005 N-terminal plug; other site 1249531007006 ligand-binding site [chemical binding]; other site 1249531007007 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249531007008 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249531007009 peptide binding site [polypeptide binding]; other site 1249531007010 protease3; Provisional; Region: PRK15101 1249531007011 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1249531007012 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1249531007013 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1249531007014 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1249531007015 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1249531007016 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1249531007017 hypothetical protein; Provisional; Region: PRK10506 1249531007018 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1249531007019 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1249531007020 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249531007021 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1249531007022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531007023 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 1249531007024 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 1249531007025 inhibitor-cofactor binding pocket; inhibition site 1249531007026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249531007027 catalytic residue [active] 1249531007028 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1249531007029 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1249531007030 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1249531007031 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1249531007032 Glutamate binding site [chemical binding]; other site 1249531007033 NAD binding site [chemical binding]; other site 1249531007034 catalytic residues [active] 1249531007035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531007036 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531007037 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249531007038 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1249531007039 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249531007040 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 1249531007041 TM-ABC transporter signature motif; other site 1249531007042 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249531007043 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1249531007044 Walker A/P-loop; other site 1249531007045 ATP binding site [chemical binding]; other site 1249531007046 Q-loop/lid; other site 1249531007047 ABC transporter signature motif; other site 1249531007048 Walker B; other site 1249531007049 D-loop; other site 1249531007050 H-loop/switch region; other site 1249531007051 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249531007052 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1249531007053 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 1249531007054 ligand binding site [chemical binding]; other site 1249531007055 calcium binding site [ion binding]; other site 1249531007056 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1249531007057 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 1249531007058 ligand binding site [chemical binding]; other site 1249531007059 calcium binding site [ion binding]; other site 1249531007060 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1249531007061 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1249531007062 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1249531007063 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 1249531007064 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1249531007065 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1249531007066 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 1249531007067 dimer interface [polypeptide binding]; other site 1249531007068 tetramer interface [polypeptide binding]; other site 1249531007069 PYR/PP interface [polypeptide binding]; other site 1249531007070 TPP binding site [chemical binding]; other site 1249531007071 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 1249531007072 TPP-binding site; other site 1249531007073 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1249531007074 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1249531007075 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1249531007076 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1249531007077 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1249531007078 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1249531007079 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1249531007080 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531007081 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531007082 Integrase core domain; Region: rve; pfam00665 1249531007083 Integrase core domain; Region: rve_3; cl15866 1249531007084 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1249531007085 Bacterial TniB protein; Region: TniB; pfam05621 1249531007086 AAA domain; Region: AAA_22; pfam13401 1249531007087 TniQ; Region: TniQ; pfam06527 1249531007088 Winged helix-turn helix; Region: HTH_29; pfam13551 1249531007089 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249531007090 Homeodomain-like domain; Region: HTH_32; pfam13565 1249531007091 Integrase core domain; Region: rve; pfam00665 1249531007092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249531007093 Integrase core domain; Region: rve_3; pfam13683 1249531007094 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1249531007095 ParB-like nuclease domain; Region: ParBc; cl02129 1249531007096 RepB plasmid partitioning protein; Region: RepB; pfam07506 1249531007097 RepB plasmid partitioning protein; Region: RepB; pfam07506 1249531007098 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1249531007099 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1249531007100 catalytic residues [active] 1249531007101 catalytic nucleophile [active] 1249531007102 Recombinase; Region: Recombinase; pfam07508 1249531007103 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 1249531007104 non-specific DNA binding site [nucleotide binding]; other site 1249531007105 salt bridge; other site 1249531007106 sequence-specific DNA binding site [nucleotide binding]; other site 1249531007107 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 1249531007108 S-adenosylmethionine binding site [chemical binding]; other site 1249531007109 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1249531007110 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1249531007111 Part of AAA domain; Region: AAA_19; pfam13245 1249531007112 Family description; Region: UvrD_C_2; pfam13538 1249531007113 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249531007114 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1249531007115 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 1249531007116 Walker A motif; other site 1249531007117 ATP binding site [chemical binding]; other site 1249531007118 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1249531007119 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249531007120 Sporulation related domain; Region: SPOR; pfam05036 1249531007121 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1249531007122 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 1249531007123 S-adenosylmethionine binding site [chemical binding]; other site 1249531007124 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1249531007125 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1249531007126 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1249531007127 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 1249531007128 trimer interface [polypeptide binding]; other site 1249531007129 active site 1249531007130 substrate binding site [chemical binding]; other site 1249531007131 CoA binding site [chemical binding]; other site 1249531007132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249531007133 Coenzyme A binding pocket [chemical binding]; other site 1249531007134 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1249531007135 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 1249531007136 active site 1249531007137 trimer interface [polypeptide binding]; other site 1249531007138 dimer interface [polypeptide binding]; other site 1249531007139 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 1249531007140 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1249531007141 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1249531007142 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 1249531007143 carboxyltransferase (CT) interaction site; other site 1249531007144 biotinylation site [posttranslational modification]; other site 1249531007145 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1249531007146 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249531007147 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1249531007148 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1249531007149 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1249531007150 Cupin domain; Region: Cupin_2; cl17218 1249531007151 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 1249531007152 metal binding site [ion binding]; metal-binding site 1249531007153 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1249531007154 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1249531007155 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1249531007156 RimM N-terminal domain; Region: RimM; pfam01782 1249531007157 PRC-barrel domain; Region: PRC; pfam05239 1249531007158 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1249531007159 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 1249531007160 active site turn [active] 1249531007161 phosphorylation site [posttranslational modification] 1249531007162 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249531007163 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249531007164 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 1249531007165 putative active site [active] 1249531007166 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1249531007167 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1249531007168 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 1249531007169 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1249531007170 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249531007171 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1249531007172 substrate binding site [chemical binding]; other site 1249531007173 ATP binding site [chemical binding]; other site 1249531007174 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1249531007175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1249531007176 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1249531007177 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249531007178 PYR/PP interface [polypeptide binding]; other site 1249531007179 dimer interface [polypeptide binding]; other site 1249531007180 TPP binding site [chemical binding]; other site 1249531007181 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249531007182 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1249531007183 TPP-binding site; other site 1249531007184 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1249531007185 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 1249531007186 Metal-binding active site; metal-binding site 1249531007187 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249531007188 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1249531007189 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1249531007190 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1249531007191 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249531007192 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1249531007193 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249531007194 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 1249531007195 TM-ABC transporter signature motif; other site 1249531007196 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249531007197 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249531007198 Walker A/P-loop; other site 1249531007199 ATP binding site [chemical binding]; other site 1249531007200 Q-loop/lid; other site 1249531007201 ABC transporter signature motif; other site 1249531007202 Walker B; other site 1249531007203 D-loop; other site 1249531007204 H-loop/switch region; other site 1249531007205 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249531007206 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1249531007207 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 1249531007208 ligand binding site [chemical binding]; other site 1249531007209 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1249531007210 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1249531007211 tetrameric interface [polypeptide binding]; other site 1249531007212 NAD binding site [chemical binding]; other site 1249531007213 catalytic residues [active] 1249531007214 KduI/IolB family; Region: KduI; cl01508 1249531007215 succinic semialdehyde dehydrogenase; Region: PLN02278 1249531007216 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1249531007217 tetramerization interface [polypeptide binding]; other site 1249531007218 NAD(P) binding site [chemical binding]; other site 1249531007219 catalytic residues [active] 1249531007220 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1249531007221 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1249531007222 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1249531007223 aspartate racemase; Region: asp_race; TIGR00035 1249531007224 cell density-dependent motility repressor; Provisional; Region: PRK10082 1249531007225 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249531007226 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1249531007227 dimerization interface [polypeptide binding]; other site 1249531007228 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1249531007229 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1249531007230 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 1249531007231 Shikimate kinase; Region: SKI; pfam01202 1249531007232 ATP-binding site [chemical binding]; other site 1249531007233 Gluconate-6-phosphate binding site [chemical binding]; other site 1249531007234 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249531007235 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249531007236 DNA binding site [nucleotide binding] 1249531007237 domain linker motif; other site 1249531007238 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249531007239 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249531007240 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1249531007241 putative dimerization interface [polypeptide binding]; other site 1249531007242 putative ligand binding site [chemical binding]; other site 1249531007243 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531007244 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249531007245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249531007246 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1249531007247 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1249531007248 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1249531007249 alphaNTD homodimer interface [polypeptide binding]; other site 1249531007250 alphaNTD - beta interaction site [polypeptide binding]; other site 1249531007251 alphaNTD - beta' interaction site [polypeptide binding]; other site 1249531007252 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1249531007253 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1249531007254 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1249531007255 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 1249531007256 RNA binding surface [nucleotide binding]; other site 1249531007257 30S ribosomal protein S11; Validated; Region: PRK05309 1249531007258 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1249531007259 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1249531007260 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1249531007261 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1249531007262 SecY translocase; Region: SecY; pfam00344 1249531007263 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1249531007264 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1249531007265 23S rRNA binding site [nucleotide binding]; other site 1249531007266 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1249531007267 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1249531007268 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1249531007269 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 1249531007270 23S rRNA interface [nucleotide binding]; other site 1249531007271 L21e interface [polypeptide binding]; other site 1249531007272 5S rRNA interface [nucleotide binding]; other site 1249531007273 L27 interface [polypeptide binding]; other site 1249531007274 L5 interface [polypeptide binding]; other site 1249531007275 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1249531007276 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1249531007277 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1249531007278 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1249531007279 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1249531007280 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1249531007281 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1249531007282 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1249531007283 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1249531007284 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1249531007285 RNA binding site [nucleotide binding]; other site 1249531007286 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1249531007287 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1249531007288 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 1249531007289 glutaminase active site [active] 1249531007290 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 1249531007291 dimer interface [polypeptide binding]; other site 1249531007292 active site 1249531007293 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 1249531007294 dimer interface [polypeptide binding]; other site 1249531007295 active site 1249531007296 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1249531007297 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1249531007298 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249531007299 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1249531007300 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249531007301 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249531007302 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 1249531007303 dimer interface [polypeptide binding]; other site 1249531007304 conserved gate region; other site 1249531007305 putative PBP binding loops; other site 1249531007306 ABC-ATPase subunit interface; other site 1249531007307 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 1249531007308 dimer interface [polypeptide binding]; other site 1249531007309 conserved gate region; other site 1249531007310 putative PBP binding loops; other site 1249531007311 ABC-ATPase subunit interface; other site 1249531007312 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 1249531007313 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1249531007314 Walker A/P-loop; other site 1249531007315 ATP binding site [chemical binding]; other site 1249531007316 Q-loop/lid; other site 1249531007317 ABC transporter signature motif; other site 1249531007318 Walker B; other site 1249531007319 D-loop; other site 1249531007320 H-loop/switch region; other site 1249531007321 TOBE domain; Region: TOBE_2; pfam08402 1249531007322 elongation factor Tu; Reviewed; Region: PRK00049 1249531007323 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1249531007324 G1 box; other site 1249531007325 GEF interaction site [polypeptide binding]; other site 1249531007326 GTP/Mg2+ binding site [chemical binding]; other site 1249531007327 Switch I region; other site 1249531007328 G2 box; other site 1249531007329 G3 box; other site 1249531007330 Switch II region; other site 1249531007331 G4 box; other site 1249531007332 G5 box; other site 1249531007333 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1249531007334 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 1249531007335 Antibiotic Binding Site [chemical binding]; other site 1249531007336 pantothenate kinase; Provisional; Region: PRK05439 1249531007337 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 1249531007338 ATP-binding site [chemical binding]; other site 1249531007339 CoA-binding site [chemical binding]; other site 1249531007340 Mg2+-binding site [ion binding]; other site 1249531007341 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1249531007342 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 1249531007343 catalytic residues [active] 1249531007344 central insert; other site 1249531007345 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1249531007346 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1249531007347 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1249531007348 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 1249531007349 binding surface 1249531007350 TPR motif; other site 1249531007351 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 1249531007352 MPT binding site; other site 1249531007353 trimer interface [polypeptide binding]; other site 1249531007354 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1249531007355 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1249531007356 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1249531007357 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1249531007358 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1249531007359 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1249531007360 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1249531007361 hypothetical protein; Provisional; Region: PRK11027 1249531007362 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1249531007363 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 1249531007364 S-adenosylmethionine binding site [chemical binding]; other site 1249531007365 Protein of unknown function (DUF454); Region: DUF454; cl01063 1249531007366 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1249531007367 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 1249531007368 active site 1249531007369 Int/Topo IB signature motif; other site 1249531007370 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1249531007371 YheO-like PAS domain; Region: PAS_6; pfam08348 1249531007372 HTH domain; Region: HTH_22; pfam13309 1249531007373 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1249531007374 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1249531007375 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1249531007376 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1249531007377 DALR anticodon binding domain; Region: DALR_1; pfam05746 1249531007378 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1249531007379 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1249531007380 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 1249531007381 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 1249531007382 dimer interface [polypeptide binding]; other site 1249531007383 motif 1; other site 1249531007384 active site 1249531007385 motif 2; other site 1249531007386 motif 3; other site 1249531007387 Dihaem cytochrome c; Region: DHC; pfam09626 1249531007388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249531007389 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1249531007390 NAD(P) binding site [chemical binding]; other site 1249531007391 active site 1249531007392 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 1249531007393 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 1249531007394 FeS/SAM binding site; other site 1249531007395 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 1249531007396 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1249531007397 Predicted peptidase [General function prediction only]; Region: COG4099 1249531007398 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1249531007399 GntP family permease; Region: GntP_permease; pfam02447 1249531007400 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1249531007401 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 1249531007402 Metal-binding active site; metal-binding site 1249531007403 putative aldolase; Validated; Region: PRK08130 1249531007404 intersubunit interface [polypeptide binding]; other site 1249531007405 active site 1249531007406 Zn2+ binding site [ion binding]; other site 1249531007407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1249531007408 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1249531007409 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249531007410 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1249531007411 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1249531007412 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249531007413 signal recognition particle protein; Provisional; Region: PRK10867 1249531007414 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1249531007415 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 1249531007416 P loop; other site 1249531007417 GTP binding site [chemical binding]; other site 1249531007418 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1249531007419 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1249531007420 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1249531007421 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1249531007422 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 1249531007423 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249531007424 catalytic residue [active] 1249531007425 oxidative damage protection protein; Provisional; Region: PRK05408 1249531007426 adenine DNA glycosylase; Provisional; Region: PRK10880 1249531007427 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1249531007428 minor groove reading motif; other site 1249531007429 helix-hairpin-helix signature motif; other site 1249531007430 substrate binding pocket [chemical binding]; other site 1249531007431 active site 1249531007432 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1249531007433 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 1249531007434 DNA binding and oxoG recognition site [nucleotide binding] 1249531007435 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1249531007436 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249531007437 putative metal binding site [ion binding]; other site 1249531007438 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249531007439 EamA-like transporter family; Region: EamA; pfam00892 1249531007440 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1249531007441 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 1249531007442 active site 1249531007443 HslU subunit interaction site [polypeptide binding]; other site 1249531007444 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1249531007445 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 1249531007446 Walker A motif; other site 1249531007447 ATP binding site [chemical binding]; other site 1249531007448 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 1249531007449 Walker B motif; other site 1249531007450 arginine finger; other site 1249531007451 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1249531007452 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1249531007453 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1249531007454 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 1249531007455 substrate binding pocket [chemical binding]; other site 1249531007456 membrane-bound complex binding site; other site 1249531007457 hinge residues; other site 1249531007458 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1249531007459 RTX N-terminal domain; Region: RTX; pfam02382 1249531007460 RTX C-terminal domain; Region: RTX_C; pfam08339 1249531007461 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 1249531007462 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1249531007463 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249531007464 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 1249531007465 Walker A/P-loop; other site 1249531007466 ATP binding site [chemical binding]; other site 1249531007467 Q-loop/lid; other site 1249531007468 ABC transporter signature motif; other site 1249531007469 Walker B; other site 1249531007470 D-loop; other site 1249531007471 H-loop/switch region; other site 1249531007472 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1249531007473 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249531007474 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249531007475 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1249531007476 NMT1-like family; Region: NMT1_2; pfam13379 1249531007477 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1249531007478 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 1249531007479 dimer interface [polypeptide binding]; other site 1249531007480 conserved gate region; other site 1249531007481 putative PBP binding loops; other site 1249531007482 ABC-ATPase subunit interface; other site 1249531007483 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249531007484 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249531007485 active site 1249531007486 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1249531007487 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1249531007488 glycerol kinase; Provisional; Region: glpK; PRK00047 1249531007489 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1249531007490 N- and C-terminal domain interface [polypeptide binding]; other site 1249531007491 active site 1249531007492 MgATP binding site [chemical binding]; other site 1249531007493 catalytic site [active] 1249531007494 metal binding site [ion binding]; metal-binding site 1249531007495 glycerol binding site [chemical binding]; other site 1249531007496 homotetramer interface [polypeptide binding]; other site 1249531007497 homodimer interface [polypeptide binding]; other site 1249531007498 FBP binding site [chemical binding]; other site 1249531007499 protein IIAGlc interface [polypeptide binding]; other site 1249531007500 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1249531007501 amphipathic channel; other site 1249531007502 Asn-Pro-Ala signature motifs; other site 1249531007503 CrcB-like protein; Region: CRCB; cl09114 1249531007504 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1249531007505 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1249531007506 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1249531007507 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1249531007508 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1249531007509 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1249531007510 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1249531007511 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1249531007512 xylulokinase; Provisional; Region: PRK15027 1249531007513 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1249531007514 N- and C-terminal domain interface [polypeptide binding]; other site 1249531007515 active site 1249531007516 MgATP binding site [chemical binding]; other site 1249531007517 catalytic site [active] 1249531007518 metal binding site [ion binding]; metal-binding site 1249531007519 xylulose binding site [chemical binding]; other site 1249531007520 homodimer interface [polypeptide binding]; other site 1249531007521 xylose isomerase; Provisional; Region: PRK05474 1249531007522 xylose isomerase; Region: xylose_isom_A; TIGR02630 1249531007523 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1249531007524 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 1249531007525 putative ligand binding site [chemical binding]; other site 1249531007526 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1249531007527 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249531007528 Walker A/P-loop; other site 1249531007529 ATP binding site [chemical binding]; other site 1249531007530 Q-loop/lid; other site 1249531007531 ABC transporter signature motif; other site 1249531007532 Walker B; other site 1249531007533 D-loop; other site 1249531007534 H-loop/switch region; other site 1249531007535 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249531007536 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249531007537 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 1249531007538 TM-ABC transporter signature motif; other site 1249531007539 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1249531007540 Predicted transcriptional regulator [Transcription]; Region: Nlp; COG3423 1249531007541 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 1249531007542 transmembrane helices; other site 1249531007543 TrkA-C domain; Region: TrkA_C; pfam02080 1249531007544 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1249531007545 TrkA-C domain; Region: TrkA_C; pfam02080 1249531007546 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 1249531007547 Mannitol repressor; Region: MtlR; cl11450 1249531007548 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1249531007549 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1249531007550 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1249531007551 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1249531007552 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1249531007553 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1249531007554 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 1249531007555 active site 1249531007556 P-loop; other site 1249531007557 phosphorylation site [posttranslational modification] 1249531007558 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 1249531007559 active site 1249531007560 phosphorylation site [posttranslational modification] 1249531007561 Transposase IS200 like; Region: Y1_Tnp; cl00848 1249531007562 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1249531007563 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 1249531007564 putative active site [active] 1249531007565 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 1249531007566 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1249531007567 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1249531007568 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249531007569 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1249531007570 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 1249531007571 motif II; other site 1249531007572 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 1249531007573 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1249531007574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249531007575 NAD(P) binding site [chemical binding]; other site 1249531007576 active site 1249531007577 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1249531007578 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1249531007579 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1249531007580 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1249531007581 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 1249531007582 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 1249531007583 metal-binding site [ion binding] 1249531007584 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1249531007585 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1249531007586 putative oxidoreductase; Provisional; Region: PRK11579 1249531007587 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249531007588 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1249531007589 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 1249531007590 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249531007591 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 1249531007592 DNA binding residues [nucleotide binding] 1249531007593 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1249531007594 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1249531007595 Moco binding site; other site 1249531007596 metal coordination site [ion binding]; other site 1249531007597 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1249531007598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531007599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249531007600 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1249531007601 Transposase IS200 like; Region: Y1_Tnp; cl00848 1249531007602 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 1249531007603 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1249531007604 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1249531007605 dimerization interface [polypeptide binding]; other site 1249531007606 ATP binding site [chemical binding]; other site 1249531007607 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1249531007608 dimerization interface [polypeptide binding]; other site 1249531007609 ATP binding site [chemical binding]; other site 1249531007610 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1249531007611 putative active site [active] 1249531007612 catalytic triad [active] 1249531007613 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1249531007614 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 1249531007615 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1249531007616 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1249531007617 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1249531007618 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249531007619 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1249531007620 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1249531007621 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1249531007622 trimer interface [polypeptide binding]; other site 1249531007623 substrate binding site [chemical binding]; other site 1249531007624 Mn binding site [ion binding]; other site 1249531007625 L-fuculokinase; Provisional; Region: PRK10331 1249531007626 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1249531007627 nucleotide binding site [chemical binding]; other site 1249531007628 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1249531007629 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 1249531007630 intersubunit interface [polypeptide binding]; other site 1249531007631 active site 1249531007632 Zn2+ binding site [ion binding]; other site 1249531007633 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249531007634 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249531007635 Walker A/P-loop; other site 1249531007636 ATP binding site [chemical binding]; other site 1249531007637 Q-loop/lid; other site 1249531007638 ABC transporter signature motif; other site 1249531007639 Walker B; other site 1249531007640 D-loop; other site 1249531007641 H-loop/switch region; other site 1249531007642 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249531007643 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249531007644 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 1249531007645 TM-ABC transporter signature motif; other site 1249531007646 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1249531007647 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 1249531007648 putative ligand binding site [chemical binding]; other site 1249531007649 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 1249531007650 active site turn [active] 1249531007651 phosphorylation site [posttranslational modification] 1249531007652 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1249531007653 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1249531007654 dimer interface [polypeptide binding]; other site 1249531007655 active site 1249531007656 metal binding site [ion binding]; metal-binding site 1249531007657 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1249531007658 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249531007659 NAD binding site [chemical binding]; other site 1249531007660 catalytic residues [active] 1249531007661 substrate binding site [chemical binding]; other site 1249531007662 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1249531007663 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1249531007664 TrkA-N domain; Region: TrkA_N; pfam02254 1249531007665 TrkA-C domain; Region: TrkA_C; pfam02080 1249531007666 TrkA-N domain; Region: TrkA_N; pfam02254 1249531007667 TrkA-C domain; Region: TrkA_C; pfam02080 1249531007668 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1249531007669 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1249531007670 putative RNA binding site [nucleotide binding]; other site 1249531007671 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 1249531007672 S-adenosylmethionine binding site [chemical binding]; other site 1249531007673 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 1249531007674 Ligand Binding Site [chemical binding]; other site 1249531007675 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1249531007676 DctM-like transporters; Region: DctM; pfam06808 1249531007677 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1249531007678 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1249531007679 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1249531007680 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1249531007681 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1249531007682 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1249531007683 G1 box; other site 1249531007684 putative GEF interaction site [polypeptide binding]; other site 1249531007685 GTP/Mg2+ binding site [chemical binding]; other site 1249531007686 Switch I region; other site 1249531007687 G2 box; other site 1249531007688 G3 box; other site 1249531007689 Switch II region; other site 1249531007690 G4 box; other site 1249531007691 G5 box; other site 1249531007692 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 1249531007693 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1249531007694 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1249531007695 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1249531007696 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483