-- dump date 20140619_135150 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1311759000001 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1311759000002 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1311759000003 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 1311759000004 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1311759000005 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759000006 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759000007 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759000008 Integrase core domain; Region: rve; pfam00665 1311759000009 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759000010 Integrase core domain; Region: rve_3; pfam13683 1311759000011 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1311759000012 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1311759000013 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 1311759000014 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1311759000015 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 1311759000016 dimer interface [polypeptide binding]; other site 1311759000017 ssDNA binding site [nucleotide binding]; other site 1311759000018 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1311759000019 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1311759000020 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1311759000021 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1311759000022 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1311759000023 putative transporter; Provisional; Region: PRK11660 1311759000024 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1311759000025 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1311759000026 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 1311759000027 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311759000028 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 1311759000029 TM-ABC transporter signature motif; other site 1311759000030 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1311759000031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759000032 Walker A/P-loop; other site 1311759000033 ATP binding site [chemical binding]; other site 1311759000034 Q-loop/lid; other site 1311759000035 ABC transporter signature motif; other site 1311759000036 Walker B; other site 1311759000037 D-loop; other site 1311759000038 H-loop/switch region; other site 1311759000039 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1311759000040 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 1311759000041 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1311759000042 LrgA family; Region: LrgA; cl00608 1311759000043 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1311759000044 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1311759000045 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311759000046 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1311759000047 Walker A/P-loop; other site 1311759000048 ATP binding site [chemical binding]; other site 1311759000049 Q-loop/lid; other site 1311759000050 ABC transporter signature motif; other site 1311759000051 Walker B; other site 1311759000052 D-loop; other site 1311759000053 H-loop/switch region; other site 1311759000054 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1311759000055 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1311759000056 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1311759000057 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1311759000058 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1311759000059 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1311759000060 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1311759000061 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311759000062 active site 1311759000063 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1311759000064 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 1311759000065 quinone interaction residues [chemical binding]; other site 1311759000066 active site 1311759000067 catalytic residues [active] 1311759000068 FMN binding site [chemical binding]; other site 1311759000069 substrate binding site [chemical binding]; other site 1311759000070 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1311759000071 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 1311759000072 dimer interface [polypeptide binding]; other site 1311759000073 TPP-binding site [chemical binding]; other site 1311759000074 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1311759000075 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 1311759000076 E3 interaction surface; other site 1311759000077 lipoyl attachment site [posttranslational modification]; other site 1311759000078 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 1311759000079 E3 interaction surface; other site 1311759000080 lipoyl attachment site [posttranslational modification]; other site 1311759000081 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 1311759000082 E3 interaction surface; other site 1311759000083 lipoyl attachment site [posttranslational modification]; other site 1311759000084 e3 binding domain; Region: E3_binding; pfam02817 1311759000085 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1311759000086 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1311759000087 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1311759000088 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311759000089 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1311759000090 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1311759000091 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 1311759000092 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1311759000093 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1311759000094 Substrate binding site; other site 1311759000095 Mg++ binding site; other site 1311759000096 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 1311759000097 active site 1311759000098 substrate binding site [chemical binding]; other site 1311759000099 CoA binding site [chemical binding]; other site 1311759000100 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759000101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759000102 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1311759000103 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 1311759000104 S-adenosylmethionine binding site [chemical binding]; other site 1311759000105 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1311759000106 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 1311759000107 Walker A motif; other site 1311759000108 ATP binding site [chemical binding]; other site 1311759000109 Walker B motif; other site 1311759000110 arginine finger; other site 1311759000111 Peptidase family M41; Region: Peptidase_M41; pfam01434 1311759000112 xanthine permease; Region: pbuX; TIGR03173 1311759000113 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1311759000114 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 1311759000115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759000116 homodimer interface [polypeptide binding]; other site 1311759000117 catalytic residue [active] 1311759000118 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1311759000119 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 1311759000120 hinge; other site 1311759000121 active site 1311759000122 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1311759000123 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1311759000124 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1311759000125 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1311759000126 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 1311759000127 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 1311759000128 homodimer interface [polypeptide binding]; other site 1311759000129 substrate-cofactor binding pocket; other site 1311759000130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759000131 catalytic residue [active] 1311759000132 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1311759000133 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1311759000134 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1311759000135 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 1311759000136 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1311759000137 metal binding triad; other site 1311759000138 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1311759000139 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1311759000140 Zn2+ binding site [ion binding]; other site 1311759000141 Mg2+ binding site [ion binding]; other site 1311759000142 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 1311759000143 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 1311759000144 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1311759000145 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1311759000146 Walker A/P-loop; other site 1311759000147 ATP binding site [chemical binding]; other site 1311759000148 Q-loop/lid; other site 1311759000149 ABC transporter signature motif; other site 1311759000150 Walker B; other site 1311759000151 D-loop; other site 1311759000152 H-loop/switch region; other site 1311759000153 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 1311759000154 ABC-ATPase subunit interface; other site 1311759000155 dimer interface [polypeptide binding]; other site 1311759000156 putative PBP binding regions; other site 1311759000157 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1311759000158 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 1311759000159 ABC-ATPase subunit interface; other site 1311759000160 dimer interface [polypeptide binding]; other site 1311759000161 putative PBP binding regions; other site 1311759000162 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1311759000163 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 1311759000164 putative ligand binding residues [chemical binding]; other site 1311759000165 replicative DNA helicase; Validated; Region: PRK06904 1311759000166 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1311759000167 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 1311759000168 Walker A motif; other site 1311759000169 ATP binding site [chemical binding]; other site 1311759000170 Walker B motif; other site 1311759000171 DNA binding loops [nucleotide binding] 1311759000172 YcgL domain; Region: YcgL; pfam05166 1311759000173 transcriptional regulator NrdR; Region: TIGR00244 1311759000174 ATP cone domain; Region: ATP-cone; pfam03477 1311759000175 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1311759000176 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 1311759000177 dimerization interface [polypeptide binding]; other site 1311759000178 putative effector binding pocket; other site 1311759000179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1311759000180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311759000181 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1311759000182 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 1311759000183 FMN binding site [chemical binding]; other site 1311759000184 substrate binding site [chemical binding]; other site 1311759000185 putative catalytic residue [active] 1311759000186 hypothetical protein; Provisional; Region: PRK11018 1311759000187 CPxP motif; other site 1311759000188 putative inner membrane protein; Provisional; Region: PRK11099 1311759000189 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311759000190 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 1311759000191 TM-ABC transporter signature motif; other site 1311759000192 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 1311759000193 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311759000194 TM-ABC transporter signature motif; other site 1311759000195 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1311759000196 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1311759000197 Walker A/P-loop; other site 1311759000198 ATP binding site [chemical binding]; other site 1311759000199 Q-loop/lid; other site 1311759000200 ABC transporter signature motif; other site 1311759000201 Walker B; other site 1311759000202 D-loop; other site 1311759000203 H-loop/switch region; other site 1311759000204 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1311759000205 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1311759000206 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1311759000207 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1311759000208 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1311759000209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759000210 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759000211 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 1311759000212 DNA-binding site [nucleotide binding]; DNA binding site 1311759000213 RNA-binding motif; other site 1311759000214 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1311759000215 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1311759000216 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1311759000217 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 1311759000218 CPxP motif; other site 1311759000219 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 1311759000220 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1311759000221 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1311759000222 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1311759000223 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 1311759000224 N-terminal plug; other site 1311759000225 ligand-binding site [chemical binding]; other site 1311759000226 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1311759000227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759000228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 1311759000229 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1311759000230 Flavoprotein; Region: Flavoprotein; pfam02441 1311759000231 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1311759000232 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1311759000233 hypothetical protein; Provisional; Region: PRK05255 1311759000234 peptidase PmbA; Provisional; Region: PRK11040 1311759000235 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311759000236 active site 1311759000237 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 1311759000238 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 1311759000239 catalytic site [active] 1311759000240 Asp-box motif; other site 1311759000241 Autotransporter beta-domain; Region: Autotransporter; cl17461 1311759000242 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1311759000243 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1311759000244 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1311759000245 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1311759000246 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 1311759000247 homotrimer interaction site [polypeptide binding]; other site 1311759000248 putative active site [active] 1311759000249 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1311759000250 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1311759000251 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1311759000252 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1311759000253 glutamate dehydrogenase; Provisional; Region: PRK09414 1311759000254 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1311759000255 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1311759000256 NAD(P) binding site [chemical binding]; other site 1311759000257 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1311759000258 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 1311759000259 dimer interface [polypeptide binding]; other site 1311759000260 active site 1311759000261 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 1311759000262 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 1311759000263 putative substrate translocation pore; other site 1311759000264 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 1311759000265 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1311759000266 putative active site [active] 1311759000267 catalytic site [active] 1311759000268 putative metal binding site [ion binding]; other site 1311759000269 oligomer interface [polypeptide binding]; other site 1311759000270 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1311759000271 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1311759000272 active site 1311759000273 HIGH motif; other site 1311759000274 nucleotide binding site [chemical binding]; other site 1311759000275 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1311759000276 KMSKS motif; other site 1311759000277 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1311759000278 SnoaL-like domain; Region: SnoaL_4; pfam13577 1311759000279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1311759000280 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1311759000281 NAD(P) binding site [chemical binding]; other site 1311759000282 active site 1311759000283 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1311759000284 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311759000285 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 1311759000286 putative effector binding pocket; other site 1311759000287 putative dimerization interface [polypeptide binding]; other site 1311759000288 elongation factor P; Validated; Region: PRK00529 1311759000289 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1311759000290 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 1311759000291 RNA binding site [nucleotide binding]; other site 1311759000292 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 1311759000293 RNA binding site [nucleotide binding]; other site 1311759000294 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 1311759000295 FeS/SAM binding site; other site 1311759000296 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1311759000297 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1311759000298 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 1311759000299 putative dimer interface [polypeptide binding]; other site 1311759000300 putative anticodon binding site; other site 1311759000301 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 1311759000302 homodimer interface [polypeptide binding]; other site 1311759000303 motif 1; other site 1311759000304 motif 2; other site 1311759000305 active site 1311759000306 motif 3; other site 1311759000307 exonuclease I; Provisional; Region: sbcB; PRK11779 1311759000308 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1311759000309 active site 1311759000310 catalytic site [active] 1311759000311 substrate binding site [chemical binding]; other site 1311759000312 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1311759000313 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1311759000314 putative active site [active] 1311759000315 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1311759000316 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1311759000317 active site 1311759000318 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1311759000319 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1311759000320 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1311759000321 Imelysin; Region: Peptidase_M75; pfam09375 1311759000322 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1311759000323 excinuclease ABC subunit B; Provisional; Region: PRK05298 1311759000324 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 1311759000325 ATP binding site [chemical binding]; other site 1311759000326 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 1311759000327 nucleotide binding region [chemical binding]; other site 1311759000328 ATP-binding site [chemical binding]; other site 1311759000329 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1311759000330 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1311759000331 ATP-grasp domain; Region: ATP-grasp; pfam02222 1311759000332 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1311759000333 active site 1311759000334 homodimer interface [polypeptide binding]; other site 1311759000335 homotetramer interface [polypeptide binding]; other site 1311759000336 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1311759000337 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1311759000338 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 1311759000339 C-terminal domain interface [polypeptide binding]; other site 1311759000340 putative GSH binding site (G-site) [chemical binding]; other site 1311759000341 dimer interface [polypeptide binding]; other site 1311759000342 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1311759000343 dimer interface [polypeptide binding]; other site 1311759000344 N-terminal domain interface [polypeptide binding]; other site 1311759000345 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1311759000346 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 1311759000347 zinc binding site [ion binding]; other site 1311759000348 putative ligand binding site [chemical binding]; other site 1311759000349 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1311759000350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311759000351 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 1311759000352 putative effector binding pocket; other site 1311759000353 dimerization interface [polypeptide binding]; other site 1311759000354 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1311759000355 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 1311759000356 active site 1311759000357 interdomain interaction site; other site 1311759000358 putative metal-binding site [ion binding]; other site 1311759000359 nucleotide binding site [chemical binding]; other site 1311759000360 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 1311759000361 domain I; other site 1311759000362 DNA binding groove [nucleotide binding] 1311759000363 phosphate binding site [ion binding]; other site 1311759000364 domain II; other site 1311759000365 domain III; other site 1311759000366 nucleotide binding site [chemical binding]; other site 1311759000367 catalytic site [active] 1311759000368 domain IV; other site 1311759000369 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1311759000370 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1311759000371 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1311759000372 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1311759000373 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1311759000374 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1311759000375 putative substrate binding pocket [chemical binding]; other site 1311759000376 dimer interface [polypeptide binding]; other site 1311759000377 phosphate binding site [ion binding]; other site 1311759000378 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1311759000379 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1311759000380 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1311759000381 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 1311759000382 S-adenosylmethionine binding site [chemical binding]; other site 1311759000383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1311759000384 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1311759000385 AAA domain; Region: AAA_26; pfam13500 1311759000386 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1311759000387 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1311759000388 ribonuclease D; Provisional; Region: PRK10829 1311759000389 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1311759000390 catalytic site [active] 1311759000391 putative active site [active] 1311759000392 putative substrate binding site [chemical binding]; other site 1311759000393 HRDC domain; Region: HRDC; pfam00570 1311759000394 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1311759000395 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1311759000396 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1311759000397 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1311759000398 Predicted metalloprotease [General function prediction only]; Region: COG2321 1311759000399 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1311759000400 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1311759000401 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1311759000402 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1311759000403 Glycoprotease family; Region: Peptidase_M22; pfam00814 1311759000404 Predicted permeases [General function prediction only]; Region: COG0730 1311759000405 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1311759000406 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 1311759000407 ligand binding site [chemical binding]; other site 1311759000408 flexible hinge region; other site 1311759000409 putative transporter; Provisional; Region: PRK10484 1311759000410 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1311759000411 Na binding site [ion binding]; other site 1311759000412 Sulfatase; Region: Sulfatase; cl17466 1311759000413 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1311759000414 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1311759000415 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1311759000416 thymidine kinase; Provisional; Region: PRK04296 1311759000417 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1311759000418 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1311759000419 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1311759000420 putative active site [active] 1311759000421 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 1311759000422 proline aminopeptidase P II; Provisional; Region: PRK10879 1311759000423 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1311759000424 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 1311759000425 active site 1311759000426 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1311759000427 N-acetylglutamate synthase; Validated; Region: PRK05279 1311759000428 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 1311759000429 putative feedback inhibition sensing region; other site 1311759000430 putative nucleotide binding site [chemical binding]; other site 1311759000431 putative substrate binding site [chemical binding]; other site 1311759000432 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311759000433 Coenzyme A binding pocket [chemical binding]; other site 1311759000434 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1311759000435 EamA-like transporter family; Region: EamA; cl17759 1311759000436 EamA-like transporter family; Region: EamA; pfam00892 1311759000437 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1311759000438 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1311759000439 putative valine binding site [chemical binding]; other site 1311759000440 dimer interface [polypeptide binding]; other site 1311759000441 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1311759000442 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 1311759000443 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1311759000444 PYR/PP interface [polypeptide binding]; other site 1311759000445 dimer interface [polypeptide binding]; other site 1311759000446 TPP binding site [chemical binding]; other site 1311759000447 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1311759000448 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 1311759000449 TPP-binding site [chemical binding]; other site 1311759000450 dimer interface [polypeptide binding]; other site 1311759000451 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 1311759000452 active site clefts [active] 1311759000453 zinc binding site [ion binding]; other site 1311759000454 dimer interface [polypeptide binding]; other site 1311759000455 phosphate acetyltransferase; Reviewed; Region: PRK05632 1311759000456 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 1311759000457 DRTGG domain; Region: DRTGG; pfam07085 1311759000458 phosphate acetyltransferase; Region: pta; TIGR00651 1311759000459 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1311759000460 propionate/acetate kinase; Provisional; Region: PRK12379 1311759000461 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1311759000462 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1311759000463 active site 1311759000464 metal binding site [ion binding]; metal-binding site 1311759000465 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1311759000466 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1311759000467 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 1311759000468 active site 1311759000469 Phage replication protein CRI; Region: Phage_CRI; pfam05144 1311759000470 Phage X family; Region: Phage_X; pfam05155 1311759000471 Zonular occludens toxin (Zot); Region: Zot; cl17485 1311759000472 phage assembly protein; Region: IV; PHA00019 1311759000473 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1311759000474 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1311759000475 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 1311759000476 homodimer interface [polypeptide binding]; other site 1311759000477 substrate-cofactor binding pocket; other site 1311759000478 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759000479 catalytic residue [active] 1311759000480 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1311759000481 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1311759000482 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1311759000483 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1311759000484 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1311759000485 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1311759000486 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1311759000487 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1311759000488 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1311759000489 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 1311759000490 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 1311759000491 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1311759000492 molybdopterin cofactor binding site [chemical binding]; other site 1311759000493 substrate binding site [chemical binding]; other site 1311759000494 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 1311759000495 molybdopterin cofactor binding site; other site 1311759000496 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1311759000497 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 1311759000498 substrate binding site [chemical binding]; other site 1311759000499 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1311759000500 substrate binding site [chemical binding]; other site 1311759000501 ligand binding site [chemical binding]; other site 1311759000502 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1311759000503 isocitrate dehydrogenase; Validated; Region: PRK07362 1311759000504 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 1311759000505 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1311759000506 dimer interface [polypeptide binding]; other site 1311759000507 active site 1311759000508 citrylCoA binding site [chemical binding]; other site 1311759000509 NADH binding [chemical binding]; other site 1311759000510 cationic pore residues; other site 1311759000511 oxalacetate/citrate binding site [chemical binding]; other site 1311759000512 coenzyme A binding site [chemical binding]; other site 1311759000513 catalytic triad [active] 1311759000514 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759000515 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759000516 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759000517 Integrase core domain; Region: rve; pfam00665 1311759000518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759000519 Integrase core domain; Region: rve_3; pfam13683 1311759000520 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1311759000521 DNA methylase; Region: N6_N4_Mtase; pfam01555 1311759000522 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1311759000523 DNA methylase; Region: N6_N4_Mtase; pfam01555 1311759000524 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 1311759000525 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1311759000526 molybdopterin cofactor binding site [chemical binding]; other site 1311759000527 substrate binding site [chemical binding]; other site 1311759000528 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 1311759000529 molybdopterin cofactor binding site; other site 1311759000530 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1311759000531 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1311759000532 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1311759000533 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 1311759000534 DNA binding residues [nucleotide binding] 1311759000535 dimerization interface [polypeptide binding]; other site 1311759000536 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1311759000537 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 1311759000538 ligand binding site [chemical binding]; other site 1311759000539 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1311759000540 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 1311759000541 FeS/SAM binding site; other site 1311759000542 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1311759000543 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 1311759000544 trimer interface [polypeptide binding]; other site 1311759000545 dimer interface [polypeptide binding]; other site 1311759000546 putative active site [active] 1311759000547 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1311759000548 MoaE interaction surface [polypeptide binding]; other site 1311759000549 MoeB interaction surface [polypeptide binding]; other site 1311759000550 thiocarboxylated glycine; other site 1311759000551 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 1311759000552 MoaE homodimer interface [polypeptide binding]; other site 1311759000553 MoaD interaction [polypeptide binding]; other site 1311759000554 active site residues [active] 1311759000555 metal-binding heat shock protein; Provisional; Region: PRK00016 1311759000556 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1311759000557 Helicase; Region: Helicase_RecD; pfam05127 1311759000558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311759000559 Coenzyme A binding pocket [chemical binding]; other site 1311759000560 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1311759000561 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 1311759000562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759000563 homodimer interface [polypeptide binding]; other site 1311759000564 catalytic residue [active] 1311759000565 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1311759000566 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311759000567 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1311759000568 G4 box; other site 1311759000569 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1311759000570 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1311759000571 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1311759000572 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 1311759000573 homodimer interface [polypeptide binding]; other site 1311759000574 metal binding site [ion binding]; metal-binding site 1311759000575 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 1311759000576 homodimer interface [polypeptide binding]; other site 1311759000577 active site 1311759000578 putative chemical substrate binding site [chemical binding]; other site 1311759000579 metal binding site [ion binding]; metal-binding site 1311759000580 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; cl17736 1311759000581 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759000582 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759000583 Integrase core domain; Region: rve; pfam00665 1311759000584 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759000585 Integrase core domain; Region: rve_3; pfam13683 1311759000586 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1311759000587 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1311759000588 Walker A/P-loop; other site 1311759000589 ATP binding site [chemical binding]; other site 1311759000590 Q-loop/lid; other site 1311759000591 ABC transporter signature motif; other site 1311759000592 Walker B; other site 1311759000593 D-loop; other site 1311759000594 H-loop/switch region; other site 1311759000595 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1311759000596 FtsX-like permease family; Region: FtsX; pfam02687 1311759000597 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1311759000598 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1311759000599 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1311759000600 dimer interface [polypeptide binding]; other site 1311759000601 putative radical transfer pathway; other site 1311759000602 diiron center [ion binding]; other site 1311759000603 tyrosyl radical; other site 1311759000604 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1311759000605 ATP cone domain; Region: ATP-cone; pfam03477 1311759000606 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1311759000607 active site 1311759000608 dimer interface [polypeptide binding]; other site 1311759000609 catalytic residues [active] 1311759000610 effector binding site; other site 1311759000611 R2 peptide binding site; other site 1311759000612 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1311759000613 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 1311759000614 TPR repeat; Region: TPR_11; pfam13414 1311759000615 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 1311759000616 binding surface 1311759000617 TPR motif; other site 1311759000618 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1311759000619 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1311759000620 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 1311759000621 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 1311759000622 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1311759000623 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1311759000624 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1311759000625 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1311759000626 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1311759000627 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1311759000628 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 1311759000629 protein-splicing catalytic site; other site 1311759000630 thioester formation/cholesterol transfer; other site 1311759000631 Pretoxin HINT domain; Region: PT-HINT; pfam07591 1311759000632 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 1311759000633 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1311759000634 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1311759000635 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1311759000636 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1311759000637 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1311759000638 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1311759000639 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1311759000640 Competence protein; Region: Competence; pfam03772 1311759000641 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1311759000642 serine/threonine transporter SstT; Provisional; Region: PRK13628 1311759000643 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1311759000644 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1311759000645 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1311759000646 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1311759000647 active site 1311759000648 metal binding site [ion binding]; metal-binding site 1311759000649 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1311759000650 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759000651 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759000652 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759000653 Integrase core domain; Region: rve; pfam00665 1311759000654 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759000655 Integrase core domain; Region: rve_3; pfam13683 1311759000656 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1311759000657 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1311759000658 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 1311759000659 putative active site [active] 1311759000660 Domain of unknown function (DUF386); Region: DUF386; cl01047 1311759000661 exopolyphosphatase; Provisional; Region: PRK10854 1311759000662 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1311759000663 hypothetical protein; Provisional; Region: PRK05423 1311759000664 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1311759000665 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1311759000666 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 1311759000667 active site turn [active] 1311759000668 phosphorylation site [posttranslational modification] 1311759000669 aspartate kinase III; Validated; Region: PRK09084 1311759000670 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 1311759000671 nucleotide binding site [chemical binding]; other site 1311759000672 substrate binding site [chemical binding]; other site 1311759000673 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1311759000674 lysine allosteric regulatory site; other site 1311759000675 dimer interface [polypeptide binding]; other site 1311759000676 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1311759000677 dimer interface [polypeptide binding]; other site 1311759000678 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1311759000679 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 1311759000680 CAP-like domain; other site 1311759000681 active site 1311759000682 primary dimer interface [polypeptide binding]; other site 1311759000683 PBP superfamily domain; Region: PBP_like_2; cl17296 1311759000684 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 1311759000685 dimer interface [polypeptide binding]; other site 1311759000686 conserved gate region; other site 1311759000687 putative PBP binding loops; other site 1311759000688 ABC-ATPase subunit interface; other site 1311759000689 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1311759000690 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 1311759000691 dimer interface [polypeptide binding]; other site 1311759000692 conserved gate region; other site 1311759000693 putative PBP binding loops; other site 1311759000694 ABC-ATPase subunit interface; other site 1311759000695 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1311759000696 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1311759000697 Walker A/P-loop; other site 1311759000698 ATP binding site [chemical binding]; other site 1311759000699 Q-loop/lid; other site 1311759000700 ABC transporter signature motif; other site 1311759000701 Walker B; other site 1311759000702 D-loop; other site 1311759000703 H-loop/switch region; other site 1311759000704 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1311759000705 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 1311759000706 active site 1311759000707 phosphorylation site [posttranslational modification] 1311759000708 intermolecular recognition site; other site 1311759000709 dimerization interface [polypeptide binding]; other site 1311759000710 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 1311759000711 DNA binding site [nucleotide binding] 1311759000712 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1311759000713 PAS domain; Region: PAS; smart00091 1311759000714 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 1311759000715 dimer interface [polypeptide binding]; other site 1311759000716 phosphorylation site [posttranslational modification] 1311759000717 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 1311759000718 ATP binding site [chemical binding]; other site 1311759000719 Mg2+ binding site [ion binding]; other site 1311759000720 G-X-G motif; other site 1311759000721 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1311759000722 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1311759000723 RNase E interface [polypeptide binding]; other site 1311759000724 trimer interface [polypeptide binding]; other site 1311759000725 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1311759000726 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1311759000727 RNase E interface [polypeptide binding]; other site 1311759000728 trimer interface [polypeptide binding]; other site 1311759000729 active site 1311759000730 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 1311759000731 putative nucleic acid binding region [nucleotide binding]; other site 1311759000732 G-X-X-G motif; other site 1311759000733 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 1311759000734 RNA binding site [nucleotide binding]; other site 1311759000735 domain interface; other site 1311759000736 lipoprotein NlpI; Provisional; Region: PRK11189 1311759000737 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 1311759000738 binding surface 1311759000739 TPR motif; other site 1311759000740 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1311759000741 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 1311759000742 ATP binding site [chemical binding]; other site 1311759000743 Mg++ binding site [ion binding]; other site 1311759000744 motif III; other site 1311759000745 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 1311759000746 nucleotide binding region [chemical binding]; other site 1311759000747 ATP-binding site [chemical binding]; other site 1311759000748 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1311759000749 putative RNA binding site [nucleotide binding]; other site 1311759000750 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 1311759000751 nucleoside/Zn binding site; other site 1311759000752 dimer interface [polypeptide binding]; other site 1311759000753 catalytic motif [active] 1311759000754 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1311759000755 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 1311759000756 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1311759000757 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1311759000758 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1311759000759 RNA binding site [nucleotide binding]; other site 1311759000760 active site 1311759000761 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1311759000762 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1311759000763 translation initiation factor IF-2; Region: IF-2; TIGR00487 1311759000764 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1311759000765 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1311759000766 G1 box; other site 1311759000767 putative GEF interaction site [polypeptide binding]; other site 1311759000768 GTP/Mg2+ binding site [chemical binding]; other site 1311759000769 Switch I region; other site 1311759000770 G2 box; other site 1311759000771 G3 box; other site 1311759000772 Switch II region; other site 1311759000773 G4 box; other site 1311759000774 G5 box; other site 1311759000775 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 1311759000776 Translation-initiation factor 2; Region: IF-2; pfam11987 1311759000777 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 1311759000778 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1311759000779 NusA N-terminal domain; Region: NusA_N; pfam08529 1311759000780 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 1311759000781 RNA binding site [nucleotide binding]; other site 1311759000782 homodimer interface [polypeptide binding]; other site 1311759000783 NusA-like KH domain; Region: KH_5; pfam13184 1311759000784 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 1311759000785 G-X-X-G motif; other site 1311759000786 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1311759000787 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1311759000788 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1311759000789 Sm and related proteins; Region: Sm_like; cl00259 1311759000790 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1311759000791 putative oligomer interface [polypeptide binding]; other site 1311759000792 putative RNA binding site [nucleotide binding]; other site 1311759000793 lytic murein transglycosylase; Provisional; Region: PRK11619 1311759000794 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 1311759000795 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1311759000796 catalytic residue [active] 1311759000797 translation initiation factor Sui1; Validated; Region: PRK06824 1311759000798 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1311759000799 putative rRNA binding site [nucleotide binding]; other site 1311759000800 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 1311759000801 active site 1311759000802 dimer interface [polypeptide binding]; other site 1311759000803 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1311759000804 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 1311759000805 binding surface 1311759000806 TPR motif; other site 1311759000807 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 1311759000808 TPR motif; other site 1311759000809 binding surface 1311759000810 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 1311759000811 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1311759000812 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 1311759000813 IHF dimer interface [polypeptide binding]; other site 1311759000814 IHF - DNA interface [nucleotide binding]; other site 1311759000815 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1311759000816 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 1311759000817 RNA binding site [nucleotide binding]; other site 1311759000818 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 1311759000819 RNA binding site [nucleotide binding]; other site 1311759000820 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 1311759000821 RNA binding site [nucleotide binding]; other site 1311759000822 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 1311759000823 RNA binding site [nucleotide binding]; other site 1311759000824 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 1311759000825 RNA binding site [nucleotide binding]; other site 1311759000826 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 1311759000827 RNA binding site [nucleotide binding]; other site 1311759000828 cytidylate kinase; Provisional; Region: cmk; PRK00023 1311759000829 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 1311759000830 CMP-binding site; other site 1311759000831 The sites determining sugar specificity; other site 1311759000832 serine endoprotease; Provisional; Region: PRK10898 1311759000833 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1311759000834 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 1311759000835 protein binding site [polypeptide binding]; other site 1311759000836 NlpC/P60 family; Region: NLPC_P60; pfam00877 1311759000837 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 1311759000838 IHF dimer interface [polypeptide binding]; other site 1311759000839 IHF - DNA interface [nucleotide binding]; other site 1311759000840 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1311759000841 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 1311759000842 putative tRNA-binding site [nucleotide binding]; other site 1311759000843 B3/4 domain; Region: B3_4; pfam03483 1311759000844 tRNA synthetase B5 domain; Region: B5; smart00874 1311759000845 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 1311759000846 dimer interface [polypeptide binding]; other site 1311759000847 motif 1; other site 1311759000848 motif 3; other site 1311759000849 motif 2; other site 1311759000850 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1311759000851 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1311759000852 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1311759000853 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 1311759000854 dimer interface [polypeptide binding]; other site 1311759000855 motif 1; other site 1311759000856 active site 1311759000857 motif 2; other site 1311759000858 motif 3; other site 1311759000859 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 1311759000860 dimer interface [polypeptide binding]; other site 1311759000861 FMN binding site [chemical binding]; other site 1311759000862 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 1311759000863 Cation efflux family; Region: Cation_efflux; cl00316 1311759000864 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1311759000865 hypothetical protein; Validated; Region: PRK02101 1311759000866 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1311759000867 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 1311759000868 23S rRNA interface [nucleotide binding]; other site 1311759000869 L3 interface [polypeptide binding]; other site 1311759000870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1311759000871 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 1311759000872 GMP synthase; Reviewed; Region: guaA; PRK00074 1311759000873 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1311759000874 AMP/PPi binding site [chemical binding]; other site 1311759000875 candidate oxyanion hole; other site 1311759000876 catalytic triad [active] 1311759000877 potential glutamine specificity residues [chemical binding]; other site 1311759000878 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 1311759000879 ATP Binding subdomain [chemical binding]; other site 1311759000880 Ligand Binding sites [chemical binding]; other site 1311759000881 Dimerization subdomain; other site 1311759000882 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1311759000883 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 1311759000884 motif II; other site 1311759000885 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1311759000886 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 1311759000887 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 1311759000888 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 1311759000889 active site 1311759000890 multidrug efflux protein; Reviewed; Region: PRK09579 1311759000891 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1311759000892 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1311759000893 HlyD family secretion protein; Region: HlyD_3; pfam13437 1311759000894 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1311759000895 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1311759000896 hypothetical protein; Provisional; Region: PRK13689 1311759000897 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1311759000898 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1311759000899 Sulfatase; Region: Sulfatase; cl17466 1311759000900 condesin subunit E; Provisional; Region: PRK05256 1311759000901 condesin subunit F; Provisional; Region: PRK05260 1311759000902 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1311759000903 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1311759000904 active site 1311759000905 tetramer interface; other site 1311759000906 carbon storage regulator; Provisional; Region: PRK01712 1311759000907 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1311759000908 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 1311759000909 motif 1; other site 1311759000910 active site 1311759000911 motif 2; other site 1311759000912 motif 3; other site 1311759000913 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1311759000914 DHHA1 domain; Region: DHHA1; pfam02272 1311759000915 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 1311759000916 Ligand Binding Site [chemical binding]; other site 1311759000917 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 1311759000918 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1311759000919 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 1311759000920 ligand binding site [chemical binding]; other site 1311759000921 flexible hinge region; other site 1311759000922 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 1311759000923 putative switch regulator; other site 1311759000924 non-specific DNA interactions [nucleotide binding]; other site 1311759000925 DNA binding site [nucleotide binding] 1311759000926 sequence specific DNA binding site [nucleotide binding]; other site 1311759000927 putative cAMP binding site [chemical binding]; other site 1311759000928 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1311759000929 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1311759000930 NAD binding site [chemical binding]; other site 1311759000931 homotetramer interface [polypeptide binding]; other site 1311759000932 homodimer interface [polypeptide binding]; other site 1311759000933 substrate binding site [chemical binding]; other site 1311759000934 active site 1311759000935 Bor protein; Region: Lambda_Bor; pfam06291 1311759000936 Bor protein; Region: Lambda_Bor; pfam06291 1311759000937 exoribonuclease II; Provisional; Region: PRK05054 1311759000938 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1311759000939 RNB domain; Region: RNB; pfam00773 1311759000940 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 1311759000941 RNA binding site [nucleotide binding]; other site 1311759000942 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1311759000943 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1311759000944 active site 1311759000945 metal binding site [ion binding]; metal-binding site 1311759000946 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1311759000947 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1311759000948 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1311759000949 SelR domain; Region: SelR; pfam01641 1311759000950 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1311759000951 tartrate dehydrogenase; Region: TTC; TIGR02089 1311759000952 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1311759000953 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1311759000954 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1311759000955 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759000956 Walker A/P-loop; other site 1311759000957 ATP binding site [chemical binding]; other site 1311759000958 Q-loop/lid; other site 1311759000959 ABC transporter signature motif; other site 1311759000960 Walker B; other site 1311759000961 D-loop; other site 1311759000962 H-loop/switch region; other site 1311759000963 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1311759000964 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 1311759000965 dimer interface [polypeptide binding]; other site 1311759000966 conserved gate region; other site 1311759000967 putative PBP binding loops; other site 1311759000968 ABC-ATPase subunit interface; other site 1311759000969 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1311759000970 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1311759000971 peptide binding site [polypeptide binding]; other site 1311759000972 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1311759000973 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 1311759000974 Walker A motif; other site 1311759000975 ATP binding site [chemical binding]; other site 1311759000976 Walker B motif; other site 1311759000977 arginine finger; other site 1311759000978 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 1311759000979 dimer interface [polypeptide binding]; other site 1311759000980 active site 1311759000981 hypothetical protein; Provisional; Region: PRK05170 1311759000982 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1311759000983 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 1311759000984 active site 1311759000985 dimerization interface [polypeptide binding]; other site 1311759000986 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1311759000987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311759000988 Coenzyme A binding pocket [chemical binding]; other site 1311759000989 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 1311759000990 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1311759000991 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 1311759000992 dimerization interface [polypeptide binding]; other site 1311759000993 Histidine kinase; Region: HisKA_3; pfam07730 1311759000994 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 1311759000995 ATP binding site [chemical binding]; other site 1311759000996 Mg2+ binding site [ion binding]; other site 1311759000997 G-X-G motif; other site 1311759000998 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1311759000999 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 1311759001000 active site 1311759001001 motif I; other site 1311759001002 motif II; other site 1311759001003 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311759001004 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311759001005 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1311759001006 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1311759001007 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1311759001008 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1311759001009 ligand binding site [chemical binding]; other site 1311759001010 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1311759001011 DHH family; Region: DHH; pfam01368 1311759001012 DHHA1 domain; Region: DHHA1; pfam02272 1311759001013 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1311759001014 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 1311759001015 dimerization domain [polypeptide binding]; other site 1311759001016 dimer interface [polypeptide binding]; other site 1311759001017 catalytic residues [active] 1311759001018 putative peptidase; Provisional; Region: PRK11649 1311759001019 Peptidase family M23; Region: Peptidase_M23; pfam01551 1311759001020 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1311759001021 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1311759001022 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1311759001023 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 1311759001024 TPP-binding site [chemical binding]; other site 1311759001025 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1311759001026 dimer interface [polypeptide binding]; other site 1311759001027 PYR/PP interface [polypeptide binding]; other site 1311759001028 TPP binding site [chemical binding]; other site 1311759001029 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1311759001030 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 1311759001031 E3 interaction surface; other site 1311759001032 lipoyl attachment site [posttranslational modification]; other site 1311759001033 e3 binding domain; Region: E3_binding; pfam02817 1311759001034 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1311759001035 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1311759001036 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1311759001037 CoA-ligase; Region: Ligase_CoA; pfam00549 1311759001038 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1311759001039 CoA binding domain; Region: CoA_binding; pfam02629 1311759001040 CoA-ligase; Region: Ligase_CoA; pfam00549 1311759001041 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1311759001042 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1311759001043 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1311759001044 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1311759001045 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 1311759001046 Catalytic beta propeller domain of bacteriophage endosialidase; Region: End_beta_propel; cl12167 1311759001047 Catalytic domain of bacteriophage endosialidase; Region: End_tail_spike; pfam12219 1311759001048 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 1311759001049 Baseplate J-like protein; Region: Baseplate_J; cl01294 1311759001050 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 1311759001051 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1311759001052 Uncharacterized conserved protein CG6151-P; Region: Cg6151-P; cl10918 1311759001053 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 1311759001054 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 1311759001055 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 1311759001056 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 1311759001057 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 1311759001058 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1311759001059 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 1311759001060 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1311759001061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 1311759001062 Terminase-like family; Region: Terminase_6; pfam03237 1311759001063 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1311759001064 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1311759001065 Predicted chitinase [General function prediction only]; Region: COG3179 1311759001066 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 1311759001067 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1311759001068 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1311759001069 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 1311759001070 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1311759001071 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 1311759001072 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1311759001073 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 1311759001074 non-specific DNA binding site [nucleotide binding]; other site 1311759001075 salt bridge; other site 1311759001076 sequence-specific DNA binding site [nucleotide binding]; other site 1311759001077 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; cd06462 1311759001078 Catalytic site [active] 1311759001079 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1311759001080 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 1311759001081 salt bridge; other site 1311759001082 non-specific DNA binding site [nucleotide binding]; other site 1311759001083 sequence-specific DNA binding site [nucleotide binding]; other site 1311759001084 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 1311759001085 salt bridge; other site 1311759001086 non-specific DNA binding site [nucleotide binding]; other site 1311759001087 sequence-specific DNA binding site [nucleotide binding]; other site 1311759001088 Predicted transcriptional regulator [Transcription]; Region: COG2932 1311759001089 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 1311759001090 Catalytic site [active] 1311759001091 Prophage antirepressor [Transcription]; Region: COG3617 1311759001092 BRO family, N-terminal domain; Region: Bro-N; pfam02498 1311759001093 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1311759001094 metal binding site [ion binding]; metal-binding site 1311759001095 RecT family; Region: RecT; cl04285 1311759001096 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 1311759001097 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1311759001098 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1311759001099 BRO family, N-terminal domain; Region: Bro-N; smart01040 1311759001100 ORF6C domain; Region: ORF6C; pfam10552 1311759001101 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1311759001102 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1311759001103 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 1311759001104 active site 1311759001105 DNA binding site [nucleotide binding] 1311759001106 Int/Topo IB signature motif; other site 1311759001107 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1311759001108 5S rRNA interface [nucleotide binding]; other site 1311759001109 CTC domain interface [polypeptide binding]; other site 1311759001110 L16 interface [polypeptide binding]; other site 1311759001111 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1311759001112 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1311759001113 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1311759001114 putative NAD(P) binding site [chemical binding]; other site 1311759001115 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 1311759001116 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1311759001117 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 1311759001118 dimer interface [polypeptide binding]; other site 1311759001119 FMN binding site [chemical binding]; other site 1311759001120 NADPH bind site [chemical binding]; other site 1311759001121 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1311759001122 Transglycosylase; Region: Transgly; cl17702 1311759001123 Trp operon repressor; Provisional; Region: PRK01381 1311759001124 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1311759001125 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1311759001126 DNA polymerase I; Provisional; Region: PRK05755 1311759001127 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1311759001128 active site 1311759001129 metal binding site 1 [ion binding]; metal-binding site 1311759001130 putative 5' ssDNA interaction site; other site 1311759001131 metal binding site 3; metal-binding site 1311759001132 metal binding site 2 [ion binding]; metal-binding site 1311759001133 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1311759001134 putative DNA binding site [nucleotide binding]; other site 1311759001135 putative metal binding site [ion binding]; other site 1311759001136 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 1311759001137 active site 1311759001138 catalytic site [active] 1311759001139 substrate binding site [chemical binding]; other site 1311759001140 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1311759001141 active site 1311759001142 DNA binding site [nucleotide binding] 1311759001143 catalytic site [active] 1311759001144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1311759001145 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1311759001146 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1311759001147 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 1311759001148 substrate binding site [chemical binding]; other site 1311759001149 active site 1311759001150 catalytic residues [active] 1311759001151 heterodimer interface [polypeptide binding]; other site 1311759001152 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1311759001153 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 1311759001154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759001155 catalytic residue [active] 1311759001156 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1311759001157 malonic semialdehyde reductase; Provisional; Region: PRK10538 1311759001158 putative NAD(P) binding site [chemical binding]; other site 1311759001159 homotetramer interface [polypeptide binding]; other site 1311759001160 homodimer interface [polypeptide binding]; other site 1311759001161 active site 1311759001162 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1311759001163 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1311759001164 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1311759001165 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1311759001166 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1311759001167 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1311759001168 putative active site [active] 1311759001169 putative substrate binding site [chemical binding]; other site 1311759001170 putative cosubstrate binding site; other site 1311759001171 catalytic site [active] 1311759001172 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 1311759001173 putative active site [active] 1311759001174 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1311759001175 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1311759001176 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1311759001177 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 1311759001178 dimer interface [polypeptide binding]; other site 1311759001179 putative anticodon binding site; other site 1311759001180 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 1311759001181 motif 1; other site 1311759001182 active site 1311759001183 motif 2; other site 1311759001184 motif 3; other site 1311759001185 ribonuclease G; Provisional; Region: PRK11712 1311759001186 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 1311759001187 homodimer interface [polypeptide binding]; other site 1311759001188 oligonucleotide binding site [chemical binding]; other site 1311759001189 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1311759001190 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1311759001191 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 1311759001192 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1311759001193 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 1311759001194 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 1311759001195 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1311759001196 Domain of unknown function DUF87; Region: DUF87; pfam01935 1311759001197 AAA-like domain; Region: AAA_10; pfam12846 1311759001198 SIR2-like domain; Region: SIR2_2; pfam13289 1311759001199 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1311759001200 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 1311759001201 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1311759001202 uncharacterized domain; Region: TIGR00702 1311759001203 YcaO-like family; Region: YcaO; pfam02624 1311759001204 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1311759001205 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 1311759001206 S-adenosylmethionine binding site [chemical binding]; other site 1311759001207 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1311759001208 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 1311759001209 Mg2+ binding site [ion binding]; other site 1311759001210 G-X-G motif; other site 1311759001211 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 1311759001212 anchoring element; other site 1311759001213 dimer interface [polypeptide binding]; other site 1311759001214 ATP binding site [chemical binding]; other site 1311759001215 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 1311759001216 active site 1311759001217 putative metal-binding site [ion binding]; other site 1311759001218 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1311759001219 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1311759001220 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 1311759001221 ATP binding site [chemical binding]; other site 1311759001222 putative Mg++ binding site [ion binding]; other site 1311759001223 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1311759001224 DNA methylase; Region: N6_N4_Mtase; pfam01555 1311759001225 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1311759001226 UbiA prenyltransferase family; Region: UbiA; pfam01040 1311759001227 adenylosuccinate lyase; Provisional; Region: PRK09285 1311759001228 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1311759001229 tetramer interface [polypeptide binding]; other site 1311759001230 active site 1311759001231 putative lysogenization regulator; Reviewed; Region: PRK00218 1311759001232 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1311759001233 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311759001234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759001235 Walker A/P-loop; other site 1311759001236 ATP binding site [chemical binding]; other site 1311759001237 Q-loop/lid; other site 1311759001238 ABC transporter signature motif; other site 1311759001239 Walker B; other site 1311759001240 D-loop; other site 1311759001241 H-loop/switch region; other site 1311759001242 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1311759001243 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311759001244 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759001245 Walker A/P-loop; other site 1311759001246 ATP binding site [chemical binding]; other site 1311759001247 Q-loop/lid; other site 1311759001248 ABC transporter signature motif; other site 1311759001249 Walker B; other site 1311759001250 D-loop; other site 1311759001251 H-loop/switch region; other site 1311759001252 AmiB activator; Provisional; Region: PRK11637 1311759001253 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 1311759001254 Peptidase family M23; Region: Peptidase_M23; pfam01551 1311759001255 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 1311759001256 catalytic core [active] 1311759001257 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 1311759001258 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1311759001259 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 1311759001260 hinge region; other site 1311759001261 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 1311759001262 putative nucleotide binding site [chemical binding]; other site 1311759001263 uridine monophosphate binding site [chemical binding]; other site 1311759001264 homohexameric interface [polypeptide binding]; other site 1311759001265 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1311759001266 Sulfatase; Region: Sulfatase; cl17466 1311759001267 elongation factor Ts; Provisional; Region: tsf; PRK09377 1311759001268 UBA/TS-N domain; Region: UBA; pfam00627 1311759001269 Elongation factor TS; Region: EF_TS; pfam00889 1311759001270 Elongation factor TS; Region: EF_TS; pfam00889 1311759001271 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 1311759001272 rRNA interaction site [nucleotide binding]; other site 1311759001273 S8 interaction site; other site 1311759001274 putative laminin-1 binding site; other site 1311759001275 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1311759001276 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1311759001277 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1311759001278 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 1311759001279 dimer interface [polypeptide binding]; other site 1311759001280 conserved gate region; other site 1311759001281 putative PBP binding loops; other site 1311759001282 ABC-ATPase subunit interface; other site 1311759001283 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 1311759001284 dimer interface [polypeptide binding]; other site 1311759001285 conserved gate region; other site 1311759001286 putative PBP binding loops; other site 1311759001287 ABC-ATPase subunit interface; other site 1311759001288 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1311759001289 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1311759001290 Walker A/P-loop; other site 1311759001291 ATP binding site [chemical binding]; other site 1311759001292 Q-loop/lid; other site 1311759001293 ABC transporter signature motif; other site 1311759001294 Walker B; other site 1311759001295 D-loop; other site 1311759001296 H-loop/switch region; other site 1311759001297 TOBE domain; Region: TOBE_2; pfam08402 1311759001298 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1311759001299 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 1311759001300 catalytic residues [active] 1311759001301 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1311759001302 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 1311759001303 Walker A motif; other site 1311759001304 ATP binding site [chemical binding]; other site 1311759001305 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1311759001306 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 1311759001307 ATP binding site [chemical binding]; other site 1311759001308 Mg++ binding site [ion binding]; other site 1311759001309 motif III; other site 1311759001310 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 1311759001311 nucleotide binding region [chemical binding]; other site 1311759001312 ATP-binding site [chemical binding]; other site 1311759001313 Recombination protein O N terminal; Region: RecO_N; pfam11967 1311759001314 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1311759001315 Recombination protein O C terminal; Region: RecO_C; pfam02565 1311759001316 GTPase Era; Reviewed; Region: era; PRK00089 1311759001317 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1311759001318 G1 box; other site 1311759001319 GTP/Mg2+ binding site [chemical binding]; other site 1311759001320 Switch I region; other site 1311759001321 G2 box; other site 1311759001322 Switch II region; other site 1311759001323 G3 box; other site 1311759001324 G4 box; other site 1311759001325 G5 box; other site 1311759001326 KH domain; Region: KH_2; pfam07650 1311759001327 ribonuclease III; Reviewed; Region: rnc; PRK00102 1311759001328 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 1311759001329 dimerization interface [polypeptide binding]; other site 1311759001330 active site 1311759001331 metal binding site [ion binding]; metal-binding site 1311759001332 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 1311759001333 dsRNA binding site [nucleotide binding]; other site 1311759001334 signal peptidase I; Provisional; Region: PRK10861 1311759001335 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 1311759001336 Catalytic site [active] 1311759001337 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 1311759001338 GTP-binding protein LepA; Provisional; Region: PRK05433 1311759001339 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1311759001340 G1 box; other site 1311759001341 putative GEF interaction site [polypeptide binding]; other site 1311759001342 GTP/Mg2+ binding site [chemical binding]; other site 1311759001343 Switch I region; other site 1311759001344 G2 box; other site 1311759001345 G3 box; other site 1311759001346 Switch II region; other site 1311759001347 G4 box; other site 1311759001348 G5 box; other site 1311759001349 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 1311759001350 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 1311759001351 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1311759001352 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1311759001353 homodimer interface [polypeptide binding]; other site 1311759001354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759001355 catalytic residue [active] 1311759001356 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1311759001357 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1311759001358 trimer interface [polypeptide binding]; other site 1311759001359 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1311759001360 Haemagglutinin; Region: HIM; pfam05662 1311759001361 YadA-like C-terminal region; Region: YadA; pfam03895 1311759001362 Predicted membrane protein [Function unknown]; Region: COG2259 1311759001363 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 1311759001364 Protein of unknown function (DUF692); Region: DUF692; pfam05114 1311759001365 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 1311759001366 RNA polymerase sigma factor; Provisional; Region: PRK12530 1311759001367 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1311759001368 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 1311759001369 DNA binding residues [nucleotide binding] 1311759001370 Putative zinc-finger; Region: zf-HC2; pfam13490 1311759001371 allantoate amidohydrolase; Reviewed; Region: PRK09290 1311759001372 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1311759001373 active site 1311759001374 metal binding site [ion binding]; metal-binding site 1311759001375 dimer interface [polypeptide binding]; other site 1311759001376 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1311759001377 L-lactate permease; Region: Lactate_perm; cl00701 1311759001378 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1311759001379 carbamate kinase; Reviewed; Region: PRK12686 1311759001380 putative substrate binding site [chemical binding]; other site 1311759001381 homodimer interface [polypeptide binding]; other site 1311759001382 nucleotide binding site [chemical binding]; other site 1311759001383 nucleotide binding site [chemical binding]; other site 1311759001384 membrane protein FdrA; Validated; Region: PRK06091 1311759001385 CoA binding domain; Region: CoA_binding; cl17356 1311759001386 CoA-ligase; Region: Ligase_CoA; pfam00549 1311759001387 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 1311759001388 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1311759001389 hypothetical protein; Provisional; Region: PRK11171 1311759001390 Cupin domain; Region: Cupin_2; pfam07883 1311759001391 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1311759001392 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 1311759001393 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1311759001394 Na binding site [ion binding]; other site 1311759001395 substrate binding site [chemical binding]; other site 1311759001396 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 1311759001397 allantoinase; Region: allantoinase; TIGR03178 1311759001398 active site 1311759001399 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 1311759001400 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1311759001401 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1311759001402 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1311759001403 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1311759001404 OstA-like protein; Region: OstA; pfam03968 1311759001405 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1311759001406 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1311759001407 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 1311759001408 FeS/SAM binding site; other site 1311759001409 HemN C-terminal domain; Region: HemN_C; pfam06969 1311759001410 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1311759001411 Der GTPase activator; Provisional; Region: PRK05244 1311759001412 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 1311759001413 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1311759001414 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1311759001415 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1311759001416 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759001417 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1311759001418 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759001419 FRG domain; Region: FRG; pfam08867 1311759001420 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1311759001421 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1311759001422 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 1311759001423 ATP binding site [chemical binding]; other site 1311759001424 putative Mg++ binding site [ion binding]; other site 1311759001425 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1311759001426 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1311759001427 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1311759001428 metal binding triad; other site 1311759001429 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1311759001430 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1311759001431 metal binding triad; other site 1311759001432 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1311759001433 YciI-like protein; Reviewed; Region: PRK11370 1311759001434 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 1311759001435 intracellular septation protein A; Reviewed; Region: PRK00259 1311759001436 Protein of unknown function, DUF412; Region: DUF412; cl01183 1311759001437 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1311759001438 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 1311759001439 ATP binding site [chemical binding]; other site 1311759001440 substrate interface [chemical binding]; other site 1311759001441 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1311759001442 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 1311759001443 dimer interface [polypeptide binding]; other site 1311759001444 putative functional site; other site 1311759001445 putative MPT binding site; other site 1311759001446 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1311759001447 AAA domain; Region: AAA_14; pfam13173 1311759001448 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1311759001449 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1311759001450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759001451 Walker A/P-loop; other site 1311759001452 ATP binding site [chemical binding]; other site 1311759001453 Q-loop/lid; other site 1311759001454 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311759001455 ABC transporter signature motif; other site 1311759001456 Walker B; other site 1311759001457 D-loop; other site 1311759001458 ABC transporter; Region: ABC_tran_2; pfam12848 1311759001459 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311759001460 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1311759001461 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 1311759001462 putative C-terminal domain interface [polypeptide binding]; other site 1311759001463 putative GSH binding site (G-site) [chemical binding]; other site 1311759001464 putative dimer interface [polypeptide binding]; other site 1311759001465 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1311759001466 N-terminal domain interface [polypeptide binding]; other site 1311759001467 dimer interface [polypeptide binding]; other site 1311759001468 substrate binding pocket (H-site) [chemical binding]; other site 1311759001469 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1311759001470 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1311759001471 active site 1311759001472 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 1311759001473 catalytic core [active] 1311759001474 hypothetical protein; Provisional; Region: PRK05415 1311759001475 Domain of unknown function (DUF697); Region: DUF697; cl12064 1311759001476 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 1311759001477 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1311759001478 FMN binding site [chemical binding]; other site 1311759001479 active site 1311759001480 catalytic residues [active] 1311759001481 substrate binding site [chemical binding]; other site 1311759001482 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1311759001483 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1311759001484 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1311759001485 putative metal binding site [ion binding]; other site 1311759001486 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 1311759001487 HSP70 interaction site [polypeptide binding]; other site 1311759001488 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1311759001489 ligand binding site [chemical binding]; other site 1311759001490 translocation protein TolB; Provisional; Region: tolB; PRK01742 1311759001491 TolB amino-terminal domain; Region: TolB_N; pfam04052 1311759001492 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1311759001493 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1311759001494 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1311759001495 TolA C-terminal; Region: TolA; pfam06519 1311759001496 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1311759001497 colicin uptake protein TolR; Provisional; Region: PRK11024 1311759001498 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1311759001499 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 1311759001500 active site 1311759001501 cyd operon protein YbgE; Region: cyd_oper_ybgE; TIGR02112 1311759001502 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1311759001503 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1311759001504 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1311759001505 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1311759001506 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1311759001507 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1311759001508 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 1311759001509 ring oligomerisation interface [polypeptide binding]; other site 1311759001510 ATP/Mg binding site [chemical binding]; other site 1311759001511 stacking interactions; other site 1311759001512 hinge regions; other site 1311759001513 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 1311759001514 oligomerisation interface [polypeptide binding]; other site 1311759001515 mobile loop; other site 1311759001516 roof hairpin; other site 1311759001517 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 1311759001518 active site 1311759001519 8-oxo-dGMP binding site [chemical binding]; other site 1311759001520 nudix motif; other site 1311759001521 metal binding site [ion binding]; metal-binding site 1311759001522 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1311759001523 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1311759001524 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 1311759001525 nucleotide binding region [chemical binding]; other site 1311759001526 ATP-binding site [chemical binding]; other site 1311759001527 SEC-C motif; Region: SEC-C; pfam02810 1311759001528 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 1311759001529 Protein of unknown function (DUF721); Region: DUF721; cl02324 1311759001530 NlpE N-terminal domain; Region: NlpE; pfam04170 1311759001531 BolA-like protein; Region: BolA; cl00386 1311759001532 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1311759001533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1311759001534 RNA methyltransferase, RsmE family; Region: TIGR00046 1311759001535 hypothetical protein; Validated; Region: PRK00228 1311759001536 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1311759001537 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1311759001538 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1311759001539 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1311759001540 amino acid carrier protein; Region: agcS; TIGR00835 1311759001541 Staphylococcal nuclease homologues; Region: SNc; smart00318 1311759001542 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1311759001543 Catalytic site; other site 1311759001544 Excalibur calcium-binding domain; Region: Excalibur; cl05460 1311759001545 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1311759001546 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1311759001547 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 1311759001548 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311759001549 catalytic residue [active] 1311759001550 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 1311759001551 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1311759001552 active site 1311759001553 ADP/pyrophosphate binding site [chemical binding]; other site 1311759001554 dimerization interface [polypeptide binding]; other site 1311759001555 allosteric effector site; other site 1311759001556 fructose-1,6-bisphosphate binding site; other site 1311759001557 YwiC-like protein; Region: YwiC; pfam14256 1311759001558 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1311759001559 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1311759001560 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 1311759001561 Ligand Binding Site [chemical binding]; other site 1311759001562 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 1311759001563 active site residue [active] 1311759001564 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1311759001565 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1311759001566 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1311759001567 homodimer interface [polypeptide binding]; other site 1311759001568 NADP binding site [chemical binding]; other site 1311759001569 substrate binding site [chemical binding]; other site 1311759001570 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1311759001571 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 1311759001572 GDP-binding site [chemical binding]; other site 1311759001573 ACT binding site; other site 1311759001574 IMP binding site; other site 1311759001575 FtsH protease regulator HflC; Provisional; Region: PRK11029 1311759001576 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 1311759001577 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1311759001578 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 1311759001579 HflK protein; Region: hflK; TIGR01933 1311759001580 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759001581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759001582 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 1311759001583 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1311759001584 catalytic residues [active] 1311759001585 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1311759001586 Clp amino terminal domain; Region: Clp_N; pfam02861 1311759001587 Clp amino terminal domain; Region: Clp_N; pfam02861 1311759001588 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 1311759001589 Walker A motif; other site 1311759001590 ATP binding site [chemical binding]; other site 1311759001591 Walker B motif; other site 1311759001592 arginine finger; other site 1311759001593 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 1311759001594 Walker A motif; other site 1311759001595 ATP binding site [chemical binding]; other site 1311759001596 Walker B motif; other site 1311759001597 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1311759001598 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 1311759001599 substrate binding site [chemical binding]; other site 1311759001600 THF binding site; other site 1311759001601 zinc-binding site [ion binding]; other site 1311759001602 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 1311759001603 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1311759001604 transmembrane helices; other site 1311759001605 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1311759001606 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 1311759001607 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1311759001608 EamA-like transporter family; Region: EamA; pfam00892 1311759001609 EamA-like transporter family; Region: EamA; pfam00892 1311759001610 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 1311759001611 homooctamer interface [polypeptide binding]; other site 1311759001612 active site 1311759001613 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1311759001614 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1311759001615 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 1311759001616 ATP binding site [chemical binding]; other site 1311759001617 Mg2+ binding site [ion binding]; other site 1311759001618 G-X-G motif; other site 1311759001619 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 1311759001620 anchoring element; other site 1311759001621 dimer interface [polypeptide binding]; other site 1311759001622 ATP binding site [chemical binding]; other site 1311759001623 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 1311759001624 active site 1311759001625 putative metal-binding site [ion binding]; other site 1311759001626 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1311759001627 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 1311759001628 Protein of unknown function, DUF417; Region: DUF417; cl01162 1311759001629 Protein of unknown function DUF262; Region: DUF262; pfam03235 1311759001630 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 1311759001631 active site 1311759001632 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1311759001633 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1311759001634 DNA binding residues [nucleotide binding] 1311759001635 dimer interface [polypeptide binding]; other site 1311759001636 copper binding site [ion binding]; other site 1311759001637 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 1311759001638 metal-binding site [ion binding] 1311759001639 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1311759001640 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 1311759001641 metal-binding site [ion binding] 1311759001642 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1311759001643 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 1311759001644 motif II; other site 1311759001645 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1311759001646 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1311759001647 dimerization interface 3.5A [polypeptide binding]; other site 1311759001648 active site 1311759001649 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 1311759001650 homodecamer interface [polypeptide binding]; other site 1311759001651 GTP cyclohydrolase I; Provisional; Region: PLN03044 1311759001652 active site 1311759001653 putative catalytic site residues [active] 1311759001654 zinc binding site [ion binding]; other site 1311759001655 GTP-CH-I/GFRP interaction surface; other site 1311759001656 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1311759001657 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1311759001658 antiporter inner membrane protein; Provisional; Region: PRK11670 1311759001659 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 1311759001660 Walker A motif; other site 1311759001661 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1311759001662 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1311759001663 peptide binding site [polypeptide binding]; other site 1311759001664 hypothetical protein; Provisional; Region: PRK11111 1311759001665 periplasmic folding chaperone; Provisional; Region: PRK10788 1311759001666 SurA N-terminal domain; Region: SurA_N_3; cl07813 1311759001667 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1311759001668 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 1311759001669 16S/18S rRNA binding site [nucleotide binding]; other site 1311759001670 S13e-L30e interaction site [polypeptide binding]; other site 1311759001671 25S rRNA binding site [nucleotide binding]; other site 1311759001672 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1311759001673 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1311759001674 HemY protein N-terminus; Region: HemY_N; pfam07219 1311759001675 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 1311759001676 TPR motif; other site 1311759001677 binding surface 1311759001678 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1311759001679 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1311759001680 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 1311759001681 active site 1311759001682 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1311759001683 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 1311759001684 domain interfaces; other site 1311759001685 active site 1311759001686 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1311759001687 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1311759001688 putative catalytic cysteine [active] 1311759001689 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1311759001690 putative active site [active] 1311759001691 metal binding site [ion binding]; metal-binding site 1311759001692 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1311759001693 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1311759001694 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1311759001695 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759001696 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759001697 Integrase core domain; Region: rve; pfam00665 1311759001698 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759001699 Integrase core domain; Region: rve_3; pfam13683 1311759001700 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 1311759001701 active site 1311759001702 metal binding site [ion binding]; metal-binding site 1311759001703 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1311759001704 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1311759001705 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1311759001706 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1311759001707 catalytic site [active] 1311759001708 putative active site [active] 1311759001709 putative substrate binding site [chemical binding]; other site 1311759001710 dimer interface [polypeptide binding]; other site 1311759001711 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1311759001712 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1311759001713 active site 1311759001714 (T/H)XGH motif; other site 1311759001715 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1311759001716 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1311759001717 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 1311759001718 putative protease; Provisional; Region: PRK15452 1311759001719 Peptidase family U32; Region: Peptidase_U32; pfam01136 1311759001720 Cytochrome b562; Region: Cytochrom_B562; pfam07361 1311759001721 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1311759001722 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1311759001723 putative active site [active] 1311759001724 putative PHP Thumb interface [polypeptide binding]; other site 1311759001725 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 1311759001726 generic binding surface II; other site 1311759001727 generic binding surface I; other site 1311759001728 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1311759001729 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1311759001730 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1311759001731 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1311759001732 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1311759001733 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 1311759001734 interface (dimer of trimers) [polypeptide binding]; other site 1311759001735 Substrate-binding/catalytic site; other site 1311759001736 Zn-binding sites [ion binding]; other site 1311759001737 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1311759001738 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 1311759001739 dimer interface [polypeptide binding]; other site 1311759001740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759001741 catalytic residue [active] 1311759001742 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1311759001743 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1311759001744 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 1311759001745 RNA binding site [nucleotide binding]; other site 1311759001746 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 1311759001747 multimer interface [polypeptide binding]; other site 1311759001748 Walker A motif; other site 1311759001749 ATP binding site [chemical binding]; other site 1311759001750 Walker B motif; other site 1311759001751 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1311759001752 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 1311759001753 putative active site [active] 1311759001754 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 1311759001755 putative active site [active] 1311759001756 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 1311759001757 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1311759001758 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1311759001759 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 1311759001760 catalytic core [active] 1311759001761 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 1311759001762 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1311759001763 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1311759001764 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1311759001765 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1311759001766 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1311759001767 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 1311759001768 active site 1311759001769 phosphorylation site [posttranslational modification] 1311759001770 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 1311759001771 active pocket/dimerization site; other site 1311759001772 active site 1311759001773 phosphorylation site [posttranslational modification] 1311759001774 acetylornithine aminotransferase; Provisional; Region: PRK02627 1311759001775 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 1311759001776 inhibitor-cofactor binding pocket; inhibition site 1311759001777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759001778 catalytic residue [active] 1311759001779 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 1311759001780 nucleotide binding site [chemical binding]; other site 1311759001781 homohexameric interface [polypeptide binding]; other site 1311759001782 N-acetyl-L-glutamate binding site [chemical binding]; other site 1311759001783 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1311759001784 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 1311759001785 putative C-terminal domain interface [polypeptide binding]; other site 1311759001786 putative GSH binding site (G-site) [chemical binding]; other site 1311759001787 putative dimer interface [polypeptide binding]; other site 1311759001788 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1311759001789 N-terminal domain interface [polypeptide binding]; other site 1311759001790 dimer interface [polypeptide binding]; other site 1311759001791 substrate binding pocket (H-site) [chemical binding]; other site 1311759001792 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1311759001793 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 1311759001794 putative active site [active] 1311759001795 putative FMN binding site [chemical binding]; other site 1311759001796 putative substrate binding site [chemical binding]; other site 1311759001797 putative catalytic residue [active] 1311759001798 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 1311759001799 putative FMN binding site [chemical binding]; other site 1311759001800 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1311759001801 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1311759001802 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1311759001803 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1311759001804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759001805 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1311759001806 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1311759001807 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1311759001808 intersubunit interface [polypeptide binding]; other site 1311759001809 active site 1311759001810 catalytic residue [active] 1311759001811 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1311759001812 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1311759001813 Nucleoside recognition; Region: Gate; pfam07670 1311759001814 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1311759001815 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1311759001816 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1311759001817 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 1311759001818 active site 1311759001819 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1311759001820 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 1311759001821 active site 1311759001822 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 1311759001823 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 1311759001824 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1311759001825 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1311759001826 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1311759001827 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1311759001828 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 1311759001829 active site 1311759001830 homodimer interface [polypeptide binding]; other site 1311759001831 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1311759001832 ligand binding site; other site 1311759001833 tetramer interface; other site 1311759001834 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 1311759001835 active site 1311759001836 catalytic triad [active] 1311759001837 oxyanion hole [active] 1311759001838 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1311759001839 NeuB family; Region: NeuB; pfam03102 1311759001840 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1311759001841 NeuB binding interface [polypeptide binding]; other site 1311759001842 putative substrate binding site [chemical binding]; other site 1311759001843 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 1311759001844 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1311759001845 putative trimer interface [polypeptide binding]; other site 1311759001846 putative CoA binding site [chemical binding]; other site 1311759001847 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1311759001848 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 1311759001849 putative active site [active] 1311759001850 primosome assembly protein PriA; Validated; Region: PRK05580 1311759001851 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 1311759001852 ATP binding site [chemical binding]; other site 1311759001853 putative Mg++ binding site [ion binding]; other site 1311759001854 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1311759001855 nucleotide binding region [chemical binding]; other site 1311759001856 ATP-binding site [chemical binding]; other site 1311759001857 aminotransferase AlaT; Validated; Region: PRK09265 1311759001858 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 1311759001859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759001860 homodimer interface [polypeptide binding]; other site 1311759001861 catalytic residue [active] 1311759001862 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1311759001863 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1311759001864 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1311759001865 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 1311759001866 FeS/SAM binding site; other site 1311759001867 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 1311759001868 Ligand Binding Site [chemical binding]; other site 1311759001869 Membrane fusogenic activity; Region: BMFP; cl01115 1311759001870 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1311759001871 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 1311759001872 active site 1311759001873 dimer interface [polypeptide binding]; other site 1311759001874 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 1311759001875 dimer interface [polypeptide binding]; other site 1311759001876 active site 1311759001877 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1311759001878 AAA domain; Region: AAA_30; pfam13604 1311759001879 Family description; Region: UvrD_C_2; pfam13538 1311759001880 alanine racemase; Reviewed; Region: alr; PRK00053 1311759001881 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1311759001882 active site 1311759001883 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1311759001884 substrate binding site [chemical binding]; other site 1311759001885 catalytic residues [active] 1311759001886 dimer interface [polypeptide binding]; other site 1311759001887 superoxide dismutase; Provisional; Region: PRK10925 1311759001888 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1311759001889 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1311759001890 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1311759001891 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 1311759001892 putative catalytic residues [active] 1311759001893 putative nucleotide binding site [chemical binding]; other site 1311759001894 putative aspartate binding site [chemical binding]; other site 1311759001895 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1311759001896 dimer interface [polypeptide binding]; other site 1311759001897 putative threonine allosteric regulatory site; other site 1311759001898 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1311759001899 putative threonine allosteric regulatory site; other site 1311759001900 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1311759001901 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1311759001902 homoserine kinase; Provisional; Region: PRK01212 1311759001903 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1311759001904 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1311759001905 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1311759001906 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1311759001907 active site 1311759001908 HIGH motif; other site 1311759001909 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1311759001910 KMSKS motif; other site 1311759001911 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1311759001912 tRNA binding surface [nucleotide binding]; other site 1311759001913 anticodon binding site; other site 1311759001914 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 1311759001915 substrate binding site [chemical binding]; other site 1311759001916 Membrane transport protein; Region: Mem_trans; cl09117 1311759001917 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1311759001918 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 1311759001919 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 1311759001920 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 1311759001921 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 1311759001922 molybdopterin cofactor binding site; other site 1311759001923 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1311759001924 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 1311759001925 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1311759001926 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1311759001927 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1311759001928 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1311759001929 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1311759001930 glutathione reductase; Validated; Region: PRK06116 1311759001931 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1311759001932 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311759001933 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1311759001934 hypothetical protein; Provisional; Region: PRK05208 1311759001935 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 1311759001936 dimer interface [polypeptide binding]; other site 1311759001937 FMN binding site [chemical binding]; other site 1311759001938 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1311759001939 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759001940 Walker A/P-loop; other site 1311759001941 ATP binding site [chemical binding]; other site 1311759001942 Q-loop/lid; other site 1311759001943 ABC transporter signature motif; other site 1311759001944 Walker B; other site 1311759001945 D-loop; other site 1311759001946 H-loop/switch region; other site 1311759001947 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1311759001948 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 1311759001949 active site 1311759001950 intersubunit interface [polypeptide binding]; other site 1311759001951 zinc binding site [ion binding]; other site 1311759001952 Na+ binding site [ion binding]; other site 1311759001953 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 1311759001954 Phosphoglycerate kinase; Region: PGK; pfam00162 1311759001955 substrate binding site [chemical binding]; other site 1311759001956 hinge regions; other site 1311759001957 ADP binding site [chemical binding]; other site 1311759001958 catalytic site [active] 1311759001959 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1311759001960 Na2 binding site [ion binding]; other site 1311759001961 putative substrate binding site 1 [chemical binding]; other site 1311759001962 Na binding site 1 [ion binding]; other site 1311759001963 putative substrate binding site 2 [chemical binding]; other site 1311759001964 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1311759001965 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1311759001966 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1311759001967 active site 1311759001968 dimer interface [polypeptide binding]; other site 1311759001969 metal binding site [ion binding]; metal-binding site 1311759001970 shikimate kinase; Reviewed; Region: aroK; PRK00131 1311759001971 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 1311759001972 ADP binding site [chemical binding]; other site 1311759001973 magnesium binding site [ion binding]; other site 1311759001974 putative shikimate binding site; other site 1311759001975 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1311759001976 Transglycosylase; Region: Transgly; pfam00912 1311759001977 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1311759001978 Competence protein A; Region: Competence_A; pfam11104 1311759001979 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1311759001980 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1311759001981 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1311759001982 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 1311759001983 putative RNA binding site [nucleotide binding]; other site 1311759001984 thiamine monophosphate kinase; Provisional; Region: PRK05731 1311759001985 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 1311759001986 ATP binding site [chemical binding]; other site 1311759001987 dimerization interface [polypeptide binding]; other site 1311759001988 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1311759001989 tetramer interfaces [polypeptide binding]; other site 1311759001990 binuclear metal-binding site [ion binding]; other site 1311759001991 LysE type translocator; Region: LysE; cl00565 1311759001992 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1311759001993 RuvA N terminal domain; Region: RuvA_N; pfam01330 1311759001994 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1311759001995 helix-hairpin-helix signature motif; other site 1311759001996 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1311759001997 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1311759001998 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 1311759001999 Walker A motif; other site 1311759002000 ATP binding site [chemical binding]; other site 1311759002001 Walker B motif; other site 1311759002002 arginine finger; other site 1311759002003 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1311759002004 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 1311759002005 dimer interface [polypeptide binding]; other site 1311759002006 conserved gate region; other site 1311759002007 putative PBP binding loops; other site 1311759002008 ABC-ATPase subunit interface; other site 1311759002009 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1311759002010 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 1311759002011 dimer interface [polypeptide binding]; other site 1311759002012 conserved gate region; other site 1311759002013 putative PBP binding loops; other site 1311759002014 ABC-ATPase subunit interface; other site 1311759002015 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1311759002016 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 1311759002017 substrate binding pocket [chemical binding]; other site 1311759002018 membrane-bound complex binding site; other site 1311759002019 hinge residues; other site 1311759002020 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1311759002021 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1311759002022 Walker A/P-loop; other site 1311759002023 ATP binding site [chemical binding]; other site 1311759002024 Q-loop/lid; other site 1311759002025 ABC transporter signature motif; other site 1311759002026 Walker B; other site 1311759002027 D-loop; other site 1311759002028 H-loop/switch region; other site 1311759002029 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1311759002030 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1311759002031 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1311759002032 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 1311759002033 DsbD alpha interface [polypeptide binding]; other site 1311759002034 catalytic residues [active] 1311759002035 Protein of unknown function, DUF462; Region: DUF462; cl01190 1311759002036 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1311759002037 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1311759002038 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1311759002039 acyl-activating enzyme (AAE) consensus motif; other site 1311759002040 putative AMP binding site [chemical binding]; other site 1311759002041 putative active site [active] 1311759002042 putative CoA binding site [chemical binding]; other site 1311759002043 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 1311759002044 homotrimer interaction site [polypeptide binding]; other site 1311759002045 putative active site [active] 1311759002046 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 1311759002047 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1311759002048 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 1311759002049 homodimer interface [polypeptide binding]; other site 1311759002050 substrate-cofactor binding pocket; other site 1311759002051 catalytic residue [active] 1311759002052 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 1311759002053 putative GSH binding site [chemical binding]; other site 1311759002054 catalytic residues [active] 1311759002055 recombination protein RecR; Reviewed; Region: recR; PRK00076 1311759002056 RecR protein; Region: RecR; pfam02132 1311759002057 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 1311759002058 putative active site [active] 1311759002059 putative metal-binding site [ion binding]; other site 1311759002060 tetramer interface [polypeptide binding]; other site 1311759002061 hypothetical protein; Validated; Region: PRK00153 1311759002062 recF protein; Region: recf; TIGR00611 1311759002063 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759002064 Walker A/P-loop; other site 1311759002065 ATP binding site [chemical binding]; other site 1311759002066 Q-loop/lid; other site 1311759002067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759002068 ABC transporter signature motif; other site 1311759002069 Walker B; other site 1311759002070 D-loop; other site 1311759002071 H-loop/switch region; other site 1311759002072 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1311759002073 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 1311759002074 arogenate dehydrogenase; Region: PLN02256 1311759002075 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1311759002076 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1311759002077 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 1311759002078 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1311759002079 putative active site [active] 1311759002080 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 1311759002081 pyruvate kinase; Provisional; Region: PRK05826 1311759002082 active site 1311759002083 domain interfaces; other site 1311759002084 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 1311759002085 catalytic core [active] 1311759002086 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1311759002087 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 1311759002088 FMN binding site [chemical binding]; other site 1311759002089 active site 1311759002090 catalytic residues [active] 1311759002091 substrate binding site [chemical binding]; other site 1311759002092 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1311759002093 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1311759002094 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 1311759002095 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 1311759002096 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 1311759002097 ligand-binding site [chemical binding]; other site 1311759002098 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1311759002099 ribonuclease T; Provisional; Region: PRK05168 1311759002100 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1311759002101 active site 1311759002102 catalytic site [active] 1311759002103 substrate binding site [chemical binding]; other site 1311759002104 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1311759002105 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1311759002106 dimer interface [polypeptide binding]; other site 1311759002107 active site 1311759002108 metal binding site [ion binding]; metal-binding site 1311759002109 glutathione binding site [chemical binding]; other site 1311759002110 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1311759002111 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 1311759002112 catalytic center binding site [active] 1311759002113 ATP binding site [chemical binding]; other site 1311759002114 poly(A) polymerase; Region: pcnB; TIGR01942 1311759002115 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1311759002116 active site 1311759002117 NTP binding site [chemical binding]; other site 1311759002118 metal binding triad [ion binding]; metal-binding site 1311759002119 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1311759002120 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1311759002121 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1311759002122 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1311759002123 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1311759002124 hypothetical protein; Validated; Region: PRK06886 1311759002125 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 1311759002126 active site 1311759002127 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1311759002128 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1311759002129 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1311759002130 Ligand binding site; other site 1311759002131 oligomer interface; other site 1311759002132 thioredoxin reductase; Provisional; Region: PRK10262 1311759002133 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1311759002134 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311759002135 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 1311759002136 Dak1 domain; Region: Dak1; pfam02733 1311759002137 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 1311759002138 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1311759002139 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1311759002140 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 1311759002141 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 1311759002142 active site residue [active] 1311759002143 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1311759002144 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1311759002145 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1311759002146 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1311759002147 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1311759002148 cell division protein ZipA; Provisional; Region: PRK01741 1311759002149 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1311759002150 FtsZ protein binding site [polypeptide binding]; other site 1311759002151 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1311759002152 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 1311759002153 nucleotide binding pocket [chemical binding]; other site 1311759002154 K-X-D-G motif; other site 1311759002155 catalytic site [active] 1311759002156 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1311759002157 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1311759002158 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 1311759002159 Dimer interface [polypeptide binding]; other site 1311759002160 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1311759002161 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1311759002162 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 1311759002163 dimer interface [polypeptide binding]; other site 1311759002164 active site 1311759002165 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1311759002166 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1311759002167 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1311759002168 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1311759002169 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1311759002170 TrkA-N domain; Region: TrkA_N; pfam02254 1311759002171 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1311759002172 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 1311759002173 trimer interface; other site 1311759002174 sugar binding site [chemical binding]; other site 1311759002175 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1311759002176 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1311759002177 Walker A/P-loop; other site 1311759002178 ATP binding site [chemical binding]; other site 1311759002179 Q-loop/lid; other site 1311759002180 ABC transporter signature motif; other site 1311759002181 Walker B; other site 1311759002182 D-loop; other site 1311759002183 H-loop/switch region; other site 1311759002184 TOBE domain; Region: TOBE_2; pfam08402 1311759002185 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1311759002186 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1311759002187 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 1311759002188 anticodon binding site; other site 1311759002189 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 1311759002190 dimer interface [polypeptide binding]; other site 1311759002191 conserved gate region; other site 1311759002192 putative PBP binding loops; other site 1311759002193 ABC-ATPase subunit interface; other site 1311759002194 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1311759002195 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 1311759002196 dimer interface [polypeptide binding]; other site 1311759002197 conserved gate region; other site 1311759002198 putative PBP binding loops; other site 1311759002199 ABC-ATPase subunit interface; other site 1311759002200 alpha-amylase; Reviewed; Region: malS; PRK09505 1311759002201 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1311759002202 active site 1311759002203 catalytic site [active] 1311759002204 transcriptional regulator MalT; Provisional; Region: PRK04841 1311759002205 AAA ATPase domain; Region: AAA_16; pfam13191 1311759002206 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 1311759002207 DNA binding residues [nucleotide binding] 1311759002208 dimerization interface [polypeptide binding]; other site 1311759002209 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 1311759002210 homodimer interface [polypeptide binding]; other site 1311759002211 maltodextrin phosphorylase; Provisional; Region: PRK14985 1311759002212 active site pocket [active] 1311759002213 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1311759002214 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1311759002215 putative transporter; Validated; Region: PRK03818 1311759002216 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1311759002217 TrkA-C domain; Region: TrkA_C; pfam02080 1311759002218 TrkA-C domain; Region: TrkA_C; pfam02080 1311759002219 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1311759002220 Predicted permease [General function prediction only]; Region: COG2056 1311759002221 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1311759002222 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1311759002223 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 1311759002224 putative catalytic site [active] 1311759002225 putative phosphate binding site [ion binding]; other site 1311759002226 active site 1311759002227 metal binding site A [ion binding]; metal-binding site 1311759002228 DNA binding site [nucleotide binding] 1311759002229 putative AP binding site [nucleotide binding]; other site 1311759002230 putative metal binding site B [ion binding]; other site 1311759002231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1311759002232 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1311759002233 OstA-like protein; Region: OstA; cl00844 1311759002234 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1311759002235 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1311759002236 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1311759002237 Walker A/P-loop; other site 1311759002238 ATP binding site [chemical binding]; other site 1311759002239 Q-loop/lid; other site 1311759002240 ABC transporter signature motif; other site 1311759002241 Walker B; other site 1311759002242 D-loop; other site 1311759002243 H-loop/switch region; other site 1311759002244 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 1311759002245 active site 1311759002246 phosphorylation site [posttranslational modification] 1311759002247 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1311759002248 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1311759002249 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1311759002250 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1311759002251 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1311759002252 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1311759002253 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759002254 Walker A/P-loop; other site 1311759002255 ATP binding site [chemical binding]; other site 1311759002256 Q-loop/lid; other site 1311759002257 ABC transporter signature motif; other site 1311759002258 Walker B; other site 1311759002259 D-loop; other site 1311759002260 H-loop/switch region; other site 1311759002261 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1311759002262 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1311759002263 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 1311759002264 P loop; other site 1311759002265 GTP binding site [chemical binding]; other site 1311759002266 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1311759002267 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 1311759002268 S-adenosylmethionine binding site [chemical binding]; other site 1311759002269 dsDNA-mimic protein; Reviewed; Region: PRK05094 1311759002270 Flavin Reductases; Region: FlaRed; cl00801 1311759002271 tellurite resistance protein TehB; Provisional; Region: PRK12335 1311759002272 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1311759002273 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 1311759002274 S-adenosylmethionine binding site [chemical binding]; other site 1311759002275 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1311759002276 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 1311759002277 dimerization interface [polypeptide binding]; other site 1311759002278 putative ATP binding site [chemical binding]; other site 1311759002279 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1311759002280 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1311759002281 Aspartase; Region: Aspartase; cd01357 1311759002282 active sites [active] 1311759002283 tetramer interface [polypeptide binding]; other site 1311759002284 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1311759002285 Part of AAA domain; Region: AAA_19; pfam13245 1311759002286 Family description; Region: UvrD_C_2; pfam13538 1311759002287 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1311759002288 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1311759002289 Walker A/P-loop; other site 1311759002290 ATP binding site [chemical binding]; other site 1311759002291 Q-loop/lid; other site 1311759002292 ABC transporter signature motif; other site 1311759002293 Walker B; other site 1311759002294 D-loop; other site 1311759002295 H-loop/switch region; other site 1311759002296 TOBE domain; Region: TOBE_2; pfam08402 1311759002297 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 1311759002298 dimer interface [polypeptide binding]; other site 1311759002299 conserved gate region; other site 1311759002300 putative PBP binding loops; other site 1311759002301 ABC-ATPase subunit interface; other site 1311759002302 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1311759002303 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 1311759002304 dimer interface [polypeptide binding]; other site 1311759002305 conserved gate region; other site 1311759002306 putative PBP binding loops; other site 1311759002307 ABC-ATPase subunit interface; other site 1311759002308 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1311759002309 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 1311759002310 dimer interface [polypeptide binding]; other site 1311759002311 conserved gate region; other site 1311759002312 putative PBP binding loops; other site 1311759002313 ABC-ATPase subunit interface; other site 1311759002314 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1311759002315 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1311759002316 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 1311759002317 dimer interface [polypeptide binding]; other site 1311759002318 conserved gate region; other site 1311759002319 ABC-ATPase subunit interface; other site 1311759002320 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1311759002321 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759002322 Walker A/P-loop; other site 1311759002323 ATP binding site [chemical binding]; other site 1311759002324 Q-loop/lid; other site 1311759002325 ABC transporter signature motif; other site 1311759002326 Walker B; other site 1311759002327 D-loop; other site 1311759002328 H-loop/switch region; other site 1311759002329 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1311759002330 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759002331 Walker A/P-loop; other site 1311759002332 ATP binding site [chemical binding]; other site 1311759002333 Q-loop/lid; other site 1311759002334 ABC transporter signature motif; other site 1311759002335 Walker B; other site 1311759002336 D-loop; other site 1311759002337 H-loop/switch region; other site 1311759002338 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1311759002339 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1311759002340 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 1311759002341 N-terminal plug; other site 1311759002342 ligand-binding site [chemical binding]; other site 1311759002343 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1311759002344 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 1311759002345 intersubunit interface [polypeptide binding]; other site 1311759002346 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1311759002347 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 1311759002348 ABC-ATPase subunit interface; other site 1311759002349 dimer interface [polypeptide binding]; other site 1311759002350 putative PBP binding regions; other site 1311759002351 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 1311759002352 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1311759002353 Walker A/P-loop; other site 1311759002354 ATP binding site [chemical binding]; other site 1311759002355 Q-loop/lid; other site 1311759002356 ABC transporter signature motif; other site 1311759002357 Walker B; other site 1311759002358 D-loop; other site 1311759002359 H-loop/switch region; other site 1311759002360 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1311759002361 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1311759002362 active site 1311759002363 substrate binding site [chemical binding]; other site 1311759002364 cosubstrate binding site; other site 1311759002365 catalytic site [active] 1311759002366 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1311759002367 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759002368 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759002369 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759002370 Integrase core domain; Region: rve; pfam00665 1311759002371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759002372 Integrase core domain; Region: rve_3; pfam13683 1311759002373 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 1311759002374 non-specific DNA binding site [nucleotide binding]; other site 1311759002375 salt bridge; other site 1311759002376 sequence-specific DNA binding site [nucleotide binding]; other site 1311759002377 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1311759002378 Phage-related protein, tail component [Function unknown]; Region: COG4733 1311759002379 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1311759002380 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1311759002381 Phage-related protein, tail component [Function unknown]; Region: COG4723 1311759002382 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 1311759002383 MPN+ (JAMM) motif; other site 1311759002384 Zinc-binding site [ion binding]; other site 1311759002385 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1311759002386 NlpC/P60 family; Region: NLPC_P60; cl17555 1311759002387 Phage-related protein [Function unknown]; Region: gp18; COG4672 1311759002388 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1311759002389 Phage-related minor tail protein [Function unknown]; Region: COG5281 1311759002390 tape measure domain; Region: tape_meas_nterm; TIGR02675 1311759002391 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 1311759002392 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1311759002393 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1311759002394 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1311759002395 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1311759002396 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 1311759002397 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 1311759002398 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1311759002399 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1311759002400 oligomer interface [polypeptide binding]; other site 1311759002401 active site residues [active] 1311759002402 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1311759002403 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1311759002404 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1311759002405 RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when...; Region: RhoGAP; cl02570 1311759002406 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1311759002407 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 1311759002408 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1311759002409 Predicted chitinase [General function prediction only]; Region: COG3179 1311759002410 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 1311759002411 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1311759002412 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1311759002413 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1311759002414 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 1311759002415 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1311759002416 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1311759002417 Predicted transcriptional regulator [Transcription]; Region: COG2932 1311759002418 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 1311759002419 Catalytic site [active] 1311759002420 Haemolysin XhlA; Region: XhlA; pfam10779 1311759002421 YcfA-like protein; Region: YcfA; pfam07927 1311759002422 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1311759002423 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 1311759002424 sequence-specific DNA binding site [nucleotide binding]; other site 1311759002425 salt bridge; other site 1311759002426 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1311759002427 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1311759002428 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 1311759002429 dimer interface [polypeptide binding]; other site 1311759002430 ssDNA binding site [nucleotide binding]; other site 1311759002431 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1311759002432 Uncharacterized conserved protein (DUF2303); Region: DUF2303; pfam10065 1311759002433 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1311759002434 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 1311759002435 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1311759002436 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1311759002437 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1311759002438 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 1311759002439 active site 1311759002440 DNA binding site [nucleotide binding] 1311759002441 Int/Topo IB signature motif; other site 1311759002442 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1311759002443 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 1311759002444 dimer interface [polypeptide binding]; other site 1311759002445 active site 1311759002446 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1311759002447 folate binding site [chemical binding]; other site 1311759002448 methionine synthase; Provisional; Region: PRK01207 1311759002449 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 1311759002450 substrate binding site [chemical binding]; other site 1311759002451 THF binding site; other site 1311759002452 zinc-binding site [ion binding]; other site 1311759002453 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1311759002454 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1311759002455 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1311759002456 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1311759002457 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 1311759002458 active site 1311759002459 dimerization interface [polypeptide binding]; other site 1311759002460 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1311759002461 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 1311759002462 TPP-binding site; other site 1311759002463 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 1311759002464 PYR/PP interface [polypeptide binding]; other site 1311759002465 dimer interface [polypeptide binding]; other site 1311759002466 TPP binding site [chemical binding]; other site 1311759002467 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1311759002468 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1311759002469 Carbon starvation protein CstA; Region: CstA; pfam02554 1311759002470 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1311759002471 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1311759002472 active site 1311759002473 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1311759002474 conserved cys residue [active] 1311759002475 BioY family; Region: BioY; pfam02632 1311759002476 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 1311759002477 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1311759002478 putative substrate translocation pore; other site 1311759002479 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1311759002480 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 1311759002481 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1311759002482 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 1311759002483 active site 1311759002484 dimer interface [polypeptide binding]; other site 1311759002485 motif 1; other site 1311759002486 motif 2; other site 1311759002487 motif 3; other site 1311759002488 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 1311759002489 anticodon binding site; other site 1311759002490 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1311759002491 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1311759002492 FtsX-like permease family; Region: FtsX; pfam02687 1311759002493 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1311759002494 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1311759002495 Walker A/P-loop; other site 1311759002496 ATP binding site [chemical binding]; other site 1311759002497 Q-loop/lid; other site 1311759002498 ABC transporter signature motif; other site 1311759002499 Walker B; other site 1311759002500 D-loop; other site 1311759002501 H-loop/switch region; other site 1311759002502 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1311759002503 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1311759002504 FtsX-like permease family; Region: FtsX; pfam02687 1311759002505 glycerate dehydrogenase; Provisional; Region: PRK06932 1311759002506 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1311759002507 putative ligand binding site [chemical binding]; other site 1311759002508 putative NAD binding site [chemical binding]; other site 1311759002509 catalytic site [active] 1311759002510 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1311759002511 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1311759002512 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1311759002513 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1311759002514 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 1311759002515 binding surface 1311759002516 TPR motif; other site 1311759002517 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 1311759002518 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1311759002519 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 1311759002520 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1311759002521 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1311759002522 RF-1 domain; Region: RF-1; pfam00472 1311759002523 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1311759002524 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1311759002525 glutamine binding [chemical binding]; other site 1311759002526 catalytic triad [active] 1311759002527 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1311759002528 RmuC family; Region: RmuC; pfam02646 1311759002529 para-aminobenzoate synthase component I; Validated; Region: PRK07093 1311759002530 hypothetical protein; Provisional; Region: PRK07101 1311759002531 recombinase A; Provisional; Region: recA; PRK09354 1311759002532 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 1311759002533 hexamer interface [polypeptide binding]; other site 1311759002534 Walker A motif; other site 1311759002535 ATP binding site [chemical binding]; other site 1311759002536 Walker B motif; other site 1311759002537 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1311759002538 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 1311759002539 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1311759002540 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1311759002541 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1311759002542 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1311759002543 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1311759002544 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1311759002545 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1311759002546 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1311759002547 shikimate binding site; other site 1311759002548 NAD(P) binding site [chemical binding]; other site 1311759002549 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1311759002550 Part of AAA domain; Region: AAA_19; pfam13245 1311759002551 Family description; Region: UvrD_C_2; pfam13538 1311759002552 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1311759002553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1311759002554 NAD(P) binding site [chemical binding]; other site 1311759002555 active site 1311759002556 arginine repressor; Provisional; Region: PRK05066 1311759002557 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1311759002558 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1311759002559 malate dehydrogenase; Provisional; Region: PRK05086 1311759002560 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1311759002561 NAD binding site [chemical binding]; other site 1311759002562 dimerization interface [polypeptide binding]; other site 1311759002563 Substrate binding site [chemical binding]; other site 1311759002564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1311759002565 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1311759002566 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1311759002567 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 1311759002568 motif I; other site 1311759002569 motif II; other site 1311759002570 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1311759002571 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 1311759002572 rRNA binding site [nucleotide binding]; other site 1311759002573 predicted 30S ribosome binding site; other site 1311759002574 Predicted flavoproteins [General function prediction only]; Region: COG2081 1311759002575 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1311759002576 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1311759002577 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1311759002578 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 1311759002579 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 1311759002580 LexA regulated protein; Provisional; Region: PRK11675 1311759002581 flavodoxin FldA; Validated; Region: PRK09267 1311759002582 ferric uptake regulator; Provisional; Region: fur; PRK09462 1311759002583 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1311759002584 metal binding site 2 [ion binding]; metal-binding site 1311759002585 putative DNA binding helix; other site 1311759002586 metal binding site 1 [ion binding]; metal-binding site 1311759002587 dimer interface [polypeptide binding]; other site 1311759002588 structural Zn2+ binding site [ion binding]; other site 1311759002589 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1311759002590 mce related protein; Region: MCE; pfam02470 1311759002591 mce related protein; Region: MCE; pfam02470 1311759002592 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1311759002593 mce related protein; Region: MCE; pfam02470 1311759002594 mce related protein; Region: MCE; pfam02470 1311759002595 mce related protein; Region: MCE; pfam02470 1311759002596 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1311759002597 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1311759002598 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311759002599 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1311759002600 Walker A/P-loop; other site 1311759002601 ATP binding site [chemical binding]; other site 1311759002602 Q-loop/lid; other site 1311759002603 ABC transporter signature motif; other site 1311759002604 Walker B; other site 1311759002605 D-loop; other site 1311759002606 H-loop/switch region; other site 1311759002607 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1311759002608 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1311759002609 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 1311759002610 Walker A motif; other site 1311759002611 ATP binding site [chemical binding]; other site 1311759002612 Walker B motif; other site 1311759002613 arginine finger; other site 1311759002614 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 1311759002615 DnaA box-binding interface [nucleotide binding]; other site 1311759002616 DNA polymerase III subunit beta; Validated; Region: PRK05643 1311759002617 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 1311759002618 putative DNA binding surface [nucleotide binding]; other site 1311759002619 dimer interface [polypeptide binding]; other site 1311759002620 beta-clamp/clamp loader binding surface; other site 1311759002621 beta-clamp/translesion DNA polymerase binding surface; other site 1311759002622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1311759002623 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1311759002624 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1311759002625 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 1311759002626 dimer interface [polypeptide binding]; other site 1311759002627 motif 1; other site 1311759002628 active site 1311759002629 motif 2; other site 1311759002630 motif 3; other site 1311759002631 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 1311759002632 anticodon binding site; other site 1311759002633 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1311759002634 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1311759002635 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1311759002636 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 1311759002637 non-specific DNA binding site [nucleotide binding]; other site 1311759002638 salt bridge; other site 1311759002639 sequence-specific DNA binding site [nucleotide binding]; other site 1311759002640 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1311759002641 argininosuccinate lyase; Provisional; Region: PRK04833 1311759002642 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1311759002643 active sites [active] 1311759002644 tetramer interface [polypeptide binding]; other site 1311759002645 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1311759002646 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 1311759002647 Ligand Binding Site [chemical binding]; other site 1311759002648 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1311759002649 active site 1311759002650 NTP binding site [chemical binding]; other site 1311759002651 metal binding triad [ion binding]; metal-binding site 1311759002652 antibiotic binding site [chemical binding]; other site 1311759002653 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759002654 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759002655 Integrase core domain; Region: rve; pfam00665 1311759002656 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759002657 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759002658 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759002659 Integrase core domain; Region: rve; pfam00665 1311759002660 Integrase core domain; Region: rve_3; pfam13683 1311759002661 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 1311759002662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1311759002663 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1311759002664 ApbE family; Region: ApbE; pfam02424 1311759002665 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1311759002666 active site 1311759002667 NTP binding site [chemical binding]; other site 1311759002668 metal binding triad [ion binding]; metal-binding site 1311759002669 antibiotic binding site [chemical binding]; other site 1311759002670 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1311759002671 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1311759002672 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 1311759002673 FAD binding pocket [chemical binding]; other site 1311759002674 FAD binding motif [chemical binding]; other site 1311759002675 phosphate binding motif [ion binding]; other site 1311759002676 beta-alpha-beta structure motif; other site 1311759002677 NAD binding pocket [chemical binding]; other site 1311759002678 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1311759002679 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1311759002680 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1311759002681 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1311759002682 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1311759002683 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1311759002684 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 1311759002685 E3 interaction surface; other site 1311759002686 lipoyl attachment site [posttranslational modification]; other site 1311759002687 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1311759002688 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1311759002689 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1311759002690 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1311759002691 CTP synthetase; Validated; Region: pyrG; PRK05380 1311759002692 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 1311759002693 Catalytic site [active] 1311759002694 active site 1311759002695 UTP binding site [chemical binding]; other site 1311759002696 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1311759002697 active site 1311759002698 putative oxyanion hole; other site 1311759002699 catalytic triad [active] 1311759002700 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1311759002701 active site 1311759002702 homotetramer interface [polypeptide binding]; other site 1311759002703 homodimer interface [polypeptide binding]; other site 1311759002704 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1311759002705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311759002706 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1311759002707 substrate binding site [chemical binding]; other site 1311759002708 dimerization interface [polypeptide binding]; other site 1311759002709 dUMP phosphatase; Provisional; Region: PRK09449 1311759002710 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 1311759002711 motif II; other site 1311759002712 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1311759002713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311759002714 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 1311759002715 dimerization interface [polypeptide binding]; other site 1311759002716 substrate binding pocket [chemical binding]; other site 1311759002717 GTPase RsgA; Reviewed; Region: PRK12288 1311759002718 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 1311759002719 RNA binding site [nucleotide binding]; other site 1311759002720 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1311759002721 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1311759002722 GTP/Mg2+ binding site [chemical binding]; other site 1311759002723 G4 box; other site 1311759002724 G5 box; other site 1311759002725 G1 box; other site 1311759002726 Switch I region; other site 1311759002727 G2 box; other site 1311759002728 G3 box; other site 1311759002729 Switch II region; other site 1311759002730 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1311759002731 RNA/DNA hybrid binding site [nucleotide binding]; other site 1311759002732 active site 1311759002733 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 1311759002734 nucleotide binding site/active site [active] 1311759002735 HIT family signature motif; other site 1311759002736 catalytic residue [active] 1311759002737 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1311759002738 putative dimer interface [polypeptide binding]; other site 1311759002739 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1311759002740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1311759002741 Peptidase M15; Region: Peptidase_M15_3; cl01194 1311759002742 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1311759002743 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1311759002744 carboxy-terminal protease; Provisional; Region: PRK11186 1311759002745 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1311759002746 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 1311759002747 protein binding site [polypeptide binding]; other site 1311759002748 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1311759002749 Catalytic dyad [active] 1311759002750 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1311759002751 ProQ/FINO family; Region: ProQ; pfam04352 1311759002752 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 1311759002753 DNA-binding site [nucleotide binding]; DNA binding site 1311759002754 RNA-binding motif; other site 1311759002755 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1311759002756 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 1311759002757 putative substrate translocation pore; other site 1311759002758 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1311759002759 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1311759002760 Putative exonuclease, RdgC; Region: RdgC; pfam04381 1311759002761 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1311759002762 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 1311759002763 motif I; other site 1311759002764 active site 1311759002765 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1311759002766 acetylornithine deacetylase; Provisional; Region: PRK05111 1311759002767 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1311759002768 metal binding site [ion binding]; metal-binding site 1311759002769 putative dimer interface [polypeptide binding]; other site 1311759002770 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1311759002771 outer membrane lipoprotein; Provisional; Region: PRK11023 1311759002772 BON domain; Region: BON; pfam04972 1311759002773 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 1311759002774 dimer interface [polypeptide binding]; other site 1311759002775 active site 1311759002776 hypothetical protein; Reviewed; Region: PRK12497 1311759002777 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1311759002778 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1311759002779 putative SAM binding site [chemical binding]; other site 1311759002780 putative homodimer interface [polypeptide binding]; other site 1311759002781 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 1311759002782 putative substrate translocation pore; other site 1311759002783 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1311759002784 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1311759002785 Na binding site [ion binding]; other site 1311759002786 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1311759002787 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1311759002788 Bacterial transcriptional regulator; Region: IclR; pfam01614 1311759002789 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1311759002790 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1311759002791 Cell division protein ZapA; Region: ZapA; pfam05164 1311759002792 hypothetical protein; Reviewed; Region: PRK01736 1311759002793 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1311759002794 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 1311759002795 substrate binding site [chemical binding]; other site 1311759002796 active site 1311759002797 Protein of unknown function (DUF416); Region: DUF416; cl01166 1311759002798 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 1311759002799 IHF dimer interface [polypeptide binding]; other site 1311759002800 IHF - DNA interface [nucleotide binding]; other site 1311759002801 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759002802 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759002803 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759002804 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759002805 Integrase core domain; Region: rve; pfam00665 1311759002806 Integrase core domain; Region: rve_3; pfam13683 1311759002807 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1311759002808 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 1311759002809 homodimer interface [polypeptide binding]; other site 1311759002810 oligonucleotide binding site [chemical binding]; other site 1311759002811 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1311759002812 Isochorismatase family; Region: Isochorismatase; pfam00857 1311759002813 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 1311759002814 catalytic triad [active] 1311759002815 conserved cis-peptide bond; other site 1311759002816 Cupin; Region: Cupin_6; pfam12852 1311759002817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759002818 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1311759002819 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759002820 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1311759002821 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 1311759002822 intersubunit interface [polypeptide binding]; other site 1311759002823 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 1311759002824 metal binding site [ion binding]; metal-binding site 1311759002825 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1311759002826 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 1311759002827 PhnA protein; Region: PhnA; pfam03831 1311759002828 ribonuclease R; Region: RNase_R; TIGR02063 1311759002829 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1311759002830 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1311759002831 RNB domain; Region: RNB; pfam00773 1311759002832 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 1311759002833 RNA binding site [nucleotide binding]; other site 1311759002834 cell division protein MraZ; Reviewed; Region: PRK00326 1311759002835 MraZ protein; Region: MraZ; pfam02381 1311759002836 MraZ protein; Region: MraZ; pfam02381 1311759002837 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1311759002838 MraW methylase family; Region: Methyltransf_5; pfam01795 1311759002839 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 1311759002840 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1311759002841 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1311759002842 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1311759002843 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1311759002844 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1311759002845 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311759002846 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1311759002847 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1311759002848 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1311759002849 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311759002850 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1311759002851 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1311759002852 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 1311759002853 Mg++ binding site [ion binding]; other site 1311759002854 putative catalytic motif [active] 1311759002855 putative substrate binding site [chemical binding]; other site 1311759002856 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1311759002857 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311759002858 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1311759002859 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1311759002860 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1311759002861 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 1311759002862 active site 1311759002863 homodimer interface [polypeptide binding]; other site 1311759002864 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1311759002865 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1311759002866 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311759002867 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1311759002868 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1311759002869 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1311759002870 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1311759002871 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1311759002872 Cell division protein FtsQ; Region: FtsQ; pfam03799 1311759002873 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1311759002874 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1311759002875 nucleotide binding site [chemical binding]; other site 1311759002876 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1311759002877 Cell division protein FtsA; Region: FtsA; pfam14450 1311759002878 cell division protein FtsZ; Validated; Region: PRK09330 1311759002879 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 1311759002880 nucleotide binding site [chemical binding]; other site 1311759002881 SulA interaction site; other site 1311759002882 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1311759002883 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1311759002884 recombination and repair protein; Provisional; Region: PRK10869 1311759002885 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1311759002886 Walker A/P-loop; other site 1311759002887 ATP binding site [chemical binding]; other site 1311759002888 Q-loop/lid; other site 1311759002889 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1311759002890 ABC transporter signature motif; other site 1311759002891 Walker B; other site 1311759002892 D-loop; other site 1311759002893 H-loop/switch region; other site 1311759002894 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1311759002895 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1311759002896 HIGH motif; other site 1311759002897 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1311759002898 active site 1311759002899 KMSKS motif; other site 1311759002900 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759002901 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759002902 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759002903 Integrase core domain; Region: rve; pfam00665 1311759002904 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759002905 Integrase core domain; Region: rve_3; pfam13683 1311759002906 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759002907 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759002908 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1311759002909 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 1311759002910 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1311759002911 substrate binding site [chemical binding]; other site 1311759002912 oxyanion hole (OAH) forming residues; other site 1311759002913 trimer interface [polypeptide binding]; other site 1311759002914 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1311759002915 Transglycosylase; Region: Transgly; pfam00912 1311759002916 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1311759002917 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1311759002918 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1311759002919 dimerization interface [polypeptide binding]; other site 1311759002920 DPS ferroxidase diiron center [ion binding]; other site 1311759002921 ion pore; other site 1311759002922 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 1311759002923 S-adenosylmethionine binding site [chemical binding]; other site 1311759002924 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759002925 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759002926 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759002927 Integrase core domain; Region: rve; pfam00665 1311759002928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759002929 Integrase core domain; Region: rve_3; pfam13683 1311759002930 GTPase HflX; Provisional; Region: PRK11058 1311759002931 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1311759002932 HflX GTPase family; Region: HflX; cd01878 1311759002933 G1 box; other site 1311759002934 GTP/Mg2+ binding site [chemical binding]; other site 1311759002935 Switch I region; other site 1311759002936 G2 box; other site 1311759002937 G3 box; other site 1311759002938 Switch II region; other site 1311759002939 G4 box; other site 1311759002940 G5 box; other site 1311759002941 bacterial Hfq-like; Region: Hfq; cd01716 1311759002942 hexamer interface [polypeptide binding]; other site 1311759002943 Sm1 motif; other site 1311759002944 RNA binding site [nucleotide binding]; other site 1311759002945 Sm2 motif; other site 1311759002946 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1311759002947 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1311759002948 RelB antitoxin; Region: RelB; cl01171 1311759002949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1311759002950 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1311759002951 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 1311759002952 ATP binding site [chemical binding]; other site 1311759002953 Mg2+ binding site [ion binding]; other site 1311759002954 G-X-G motif; other site 1311759002955 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 1311759002956 ATP binding site [chemical binding]; other site 1311759002957 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1311759002958 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1311759002959 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1311759002960 putative catalytic cysteine [active] 1311759002961 hypothetical protein; Reviewed; Region: PRK01637 1311759002962 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 1311759002963 putative active site [active] 1311759002964 dimerization interface [polypeptide binding]; other site 1311759002965 putative tRNAtyr binding site [nucleotide binding]; other site 1311759002966 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1311759002967 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1311759002968 DNA binding site [nucleotide binding] 1311759002969 catalytic residue [active] 1311759002970 H2TH interface [polypeptide binding]; other site 1311759002971 putative catalytic residues [active] 1311759002972 turnover-facilitating residue; other site 1311759002973 intercalation triad [nucleotide binding]; other site 1311759002974 8OG recognition residue [nucleotide binding]; other site 1311759002975 putative reading head residues; other site 1311759002976 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1311759002977 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1311759002978 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 1311759002979 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1311759002980 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1311759002981 NAD(P) binding site [chemical binding]; other site 1311759002982 homotetramer interface [polypeptide binding]; other site 1311759002983 homodimer interface [polypeptide binding]; other site 1311759002984 active site 1311759002985 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1311759002986 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1311759002987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1311759002988 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1311759002989 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1311759002990 substrate binding pocket [chemical binding]; other site 1311759002991 chain length determination region; other site 1311759002992 substrate-Mg2+ binding site; other site 1311759002993 catalytic residues [active] 1311759002994 aspartate-rich region 1; other site 1311759002995 active site lid residues [active] 1311759002996 aspartate-rich region 2; other site 1311759002997 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1311759002998 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1311759002999 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1311759003000 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 1311759003001 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1311759003002 active site 1311759003003 motif I; other site 1311759003004 motif II; other site 1311759003005 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311759003006 DNA utilization protein GntX; Provisional; Region: PRK11595 1311759003007 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311759003008 active site 1311759003009 Predicted membrane protein [Function unknown]; Region: COG2259 1311759003010 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1311759003011 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1311759003012 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1311759003013 ornithine carbamoyltransferase; Provisional; Region: PRK01713 1311759003014 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1311759003015 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1311759003016 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759003017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759003018 Integrase core domain; Region: rve; pfam00665 1311759003019 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1311759003020 trimer interface [polypeptide binding]; other site 1311759003021 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759003022 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759003023 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759003024 Integrase core domain; Region: rve; pfam00665 1311759003025 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759003026 Integrase core domain; Region: rve_3; pfam13683 1311759003027 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1311759003028 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 1311759003029 substrate binding pocket [chemical binding]; other site 1311759003030 membrane-bound complex binding site; other site 1311759003031 hinge residues; other site 1311759003032 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 1311759003033 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1311759003034 catalytic residue [active] 1311759003035 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1311759003036 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 1311759003037 dimerization interface [polypeptide binding]; other site 1311759003038 active site 1311759003039 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1311759003040 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1311759003041 DNA polymerase III subunit chi; Validated; Region: PRK05728 1311759003042 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1311759003043 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311759003044 Coenzyme A binding pocket [chemical binding]; other site 1311759003045 Fic family protein [Function unknown]; Region: COG3177 1311759003046 Fic/DOC family; Region: Fic; pfam02661 1311759003047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1311759003048 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1311759003049 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1311759003050 HIGH motif; other site 1311759003051 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1311759003052 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1311759003053 active site 1311759003054 KMSKS motif; other site 1311759003055 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1311759003056 tRNA binding surface [nucleotide binding]; other site 1311759003057 anticodon binding site; other site 1311759003058 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1311759003059 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 1311759003060 active site 1311759003061 catalytic triad [active] 1311759003062 oxyanion hole [active] 1311759003063 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1311759003064 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1311759003065 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1311759003066 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1311759003067 aspartate racemase; Region: asp_race; TIGR00035 1311759003068 ORF6N domain; Region: ORF6N; pfam10543 1311759003069 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1311759003070 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 1311759003071 putative active site [active] 1311759003072 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1311759003073 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1311759003074 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1311759003075 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1311759003076 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 1311759003077 active site 1311759003078 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1311759003079 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 1311759003080 dimer interface [polypeptide binding]; other site 1311759003081 ADP-ribose binding site [chemical binding]; other site 1311759003082 active site 1311759003083 nudix motif; other site 1311759003084 metal binding site [ion binding]; metal-binding site 1311759003085 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 1311759003086 RNA binding surface [nucleotide binding]; other site 1311759003087 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1311759003088 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 1311759003089 dimerization interface [polypeptide binding]; other site 1311759003090 domain crossover interface; other site 1311759003091 redox-dependent activation switch; other site 1311759003092 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1311759003093 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1311759003094 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 1311759003095 metal binding site [ion binding]; metal-binding site 1311759003096 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 1311759003097 dimer interface [polypeptide binding]; other site 1311759003098 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1311759003099 metal binding site [ion binding]; metal-binding site 1311759003100 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 1311759003101 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1311759003102 substrate binding site [chemical binding]; other site 1311759003103 glutamase interaction surface [polypeptide binding]; other site 1311759003104 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 1311759003105 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1311759003106 catalytic residues [active] 1311759003107 BRO family, N-terminal domain; Region: Bro-N; smart01040 1311759003108 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1311759003109 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1311759003110 putative active site [active] 1311759003111 oxyanion strand; other site 1311759003112 catalytic triad [active] 1311759003113 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1311759003114 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 1311759003115 active site 1311759003116 motif I; other site 1311759003117 motif II; other site 1311759003118 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1311759003119 putative active site pocket [active] 1311759003120 4-fold oligomerization interface [polypeptide binding]; other site 1311759003121 metal binding residues [ion binding]; metal-binding site 1311759003122 3-fold/trimer interface [polypeptide binding]; other site 1311759003123 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1311759003124 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 1311759003125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759003126 homodimer interface [polypeptide binding]; other site 1311759003127 catalytic residue [active] 1311759003128 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1311759003129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311759003130 Coenzyme A binding pocket [chemical binding]; other site 1311759003131 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1311759003132 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1311759003133 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1311759003134 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 1311759003135 S-adenosylmethionine binding site [chemical binding]; other site 1311759003136 DNA polymerase III subunit psi; Validated; Region: PRK06856 1311759003137 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1311759003138 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311759003139 Coenzyme A binding pocket [chemical binding]; other site 1311759003140 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1311759003141 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1311759003142 G1 box; other site 1311759003143 putative GEF interaction site [polypeptide binding]; other site 1311759003144 GTP/Mg2+ binding site [chemical binding]; other site 1311759003145 Switch I region; other site 1311759003146 G2 box; other site 1311759003147 G3 box; other site 1311759003148 Switch II region; other site 1311759003149 G4 box; other site 1311759003150 G5 box; other site 1311759003151 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 1311759003152 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 1311759003153 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1311759003154 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1311759003155 catalytic residue [active] 1311759003156 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1311759003157 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 1311759003158 active site 1311759003159 motif I; other site 1311759003160 motif II; other site 1311759003161 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1311759003162 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1311759003163 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1311759003164 integrase; Provisional; Region: PRK09692 1311759003165 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 1311759003166 active site 1311759003167 Int/Topo IB signature motif; other site 1311759003168 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 1311759003169 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 1311759003170 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1311759003171 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1311759003172 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1311759003173 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 1311759003174 trimer interface [polypeptide binding]; other site 1311759003175 active site 1311759003176 substrate binding site [chemical binding]; other site 1311759003177 CoA binding site [chemical binding]; other site 1311759003178 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1311759003179 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1311759003180 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1311759003181 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 1311759003182 SecA binding site; other site 1311759003183 Preprotein binding site; other site 1311759003184 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 1311759003185 active site residue [active] 1311759003186 trigger factor; Provisional; Region: tig; PRK01490 1311759003187 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1311759003188 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1311759003189 elongation factor Tu; Reviewed; Region: PRK00049 1311759003190 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1311759003191 G1 box; other site 1311759003192 GEF interaction site [polypeptide binding]; other site 1311759003193 GTP/Mg2+ binding site [chemical binding]; other site 1311759003194 Switch I region; other site 1311759003195 G2 box; other site 1311759003196 G3 box; other site 1311759003197 Switch II region; other site 1311759003198 G4 box; other site 1311759003199 G5 box; other site 1311759003200 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 1311759003201 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 1311759003202 Antibiotic Binding Site [chemical binding]; other site 1311759003203 elongation factor G; Reviewed; Region: PRK00007 1311759003204 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1311759003205 G1 box; other site 1311759003206 putative GEF interaction site [polypeptide binding]; other site 1311759003207 GTP/Mg2+ binding site [chemical binding]; other site 1311759003208 Switch I region; other site 1311759003209 G2 box; other site 1311759003210 G3 box; other site 1311759003211 Switch II region; other site 1311759003212 G4 box; other site 1311759003213 G5 box; other site 1311759003214 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 1311759003215 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 1311759003216 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 1311759003217 30S ribosomal protein S7; Validated; Region: PRK05302 1311759003218 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 1311759003219 S17 interaction site [polypeptide binding]; other site 1311759003220 S8 interaction site; other site 1311759003221 16S rRNA interaction site [nucleotide binding]; other site 1311759003222 streptomycin interaction site [chemical binding]; other site 1311759003223 23S rRNA interaction site [nucleotide binding]; other site 1311759003224 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1311759003225 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1311759003226 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 1311759003227 putative active site [active] 1311759003228 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1311759003229 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 1311759003230 putative active site [active] 1311759003231 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1311759003232 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1311759003233 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1311759003234 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1311759003235 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1311759003236 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1311759003237 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 1311759003238 ATP binding site [chemical binding]; other site 1311759003239 putative Mg++ binding site [ion binding]; other site 1311759003240 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 1311759003241 nucleotide binding region [chemical binding]; other site 1311759003242 ATP-binding site [chemical binding]; other site 1311759003243 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1311759003244 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1311759003245 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 1311759003246 S-adenosylmethionine binding site [chemical binding]; other site 1311759003247 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1311759003248 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1311759003249 Divergent AAA domain; Region: AAA_4; pfam04326 1311759003250 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1311759003251 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759003252 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1311759003253 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759003254 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 1311759003255 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1311759003256 active site 1311759003257 DNA binding site [nucleotide binding] 1311759003258 Int/Topo IB signature motif; other site 1311759003259 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759003260 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1311759003261 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759003262 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1311759003263 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1311759003264 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1311759003265 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1311759003266 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 1311759003267 active pocket/dimerization site; other site 1311759003268 active site 1311759003269 phosphorylation site [posttranslational modification] 1311759003270 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 1311759003271 active site 1311759003272 phosphorylation site [posttranslational modification] 1311759003273 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1311759003274 hypothetical protein; Provisional; Region: PRK02913 1311759003275 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 1311759003276 triosephosphate isomerase; Provisional; Region: PRK14567 1311759003277 substrate binding site [chemical binding]; other site 1311759003278 dimer interface [polypeptide binding]; other site 1311759003279 catalytic triad [active] 1311759003280 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1311759003281 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1311759003282 Permutation of conserved domain; other site 1311759003283 active site 1311759003284 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1311759003285 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1311759003286 Predicted membrane protein [Function unknown]; Region: COG1238 1311759003287 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1311759003288 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1311759003289 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1311759003290 Peptidase family M23; Region: Peptidase_M23; pfam01551 1311759003291 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1311759003292 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759003293 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759003294 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759003295 Integrase core domain; Region: rve; pfam00665 1311759003296 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759003297 Integrase core domain; Region: rve_3; pfam13683 1311759003298 acyl carrier protein; Provisional; Region: acpP; PRK00982 1311759003299 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 1311759003300 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1311759003301 substrate binding site [chemical binding]; other site 1311759003302 hexamer interface [polypeptide binding]; other site 1311759003303 metal binding site [ion binding]; metal-binding site 1311759003304 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1311759003305 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1311759003306 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1311759003307 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 1311759003308 substrate binding pocket [chemical binding]; other site 1311759003309 membrane-bound complex binding site; other site 1311759003310 hinge residues; other site 1311759003311 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1311759003312 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 1311759003313 dimer interface [polypeptide binding]; other site 1311759003314 conserved gate region; other site 1311759003315 putative PBP binding loops; other site 1311759003316 ABC-ATPase subunit interface; other site 1311759003317 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1311759003318 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1311759003319 Walker A/P-loop; other site 1311759003320 ATP binding site [chemical binding]; other site 1311759003321 Q-loop/lid; other site 1311759003322 ABC transporter signature motif; other site 1311759003323 Walker B; other site 1311759003324 D-loop; other site 1311759003325 H-loop/switch region; other site 1311759003326 YGGT family; Region: YGGT; pfam02325 1311759003327 YGGT family; Region: YGGT; pfam02325 1311759003328 hypothetical protein; Provisional; Region: PRK11702 1311759003329 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 1311759003330 S-adenosylmethionine binding site [chemical binding]; other site 1311759003331 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1311759003332 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 1311759003333 dimer interface [polypeptide binding]; other site 1311759003334 active site 1311759003335 CoA binding pocket [chemical binding]; other site 1311759003336 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 1311759003337 dimer interface [polypeptide binding]; other site 1311759003338 allosteric magnesium binding site [ion binding]; other site 1311759003339 active site 1311759003340 aspartate-rich active site metal binding site; other site 1311759003341 Schiff base residues; other site 1311759003342 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1311759003343 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1311759003344 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1311759003345 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1311759003346 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1311759003347 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1311759003348 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1311759003349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1311759003350 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1311759003351 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1311759003352 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 1311759003353 S-adenosylmethionine binding site [chemical binding]; other site 1311759003354 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1311759003355 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1311759003356 Cl binding site [ion binding]; other site 1311759003357 oligomer interface [polypeptide binding]; other site 1311759003358 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759003359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759003360 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1311759003361 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759003362 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759003363 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759003364 Integrase core domain; Region: rve; pfam00665 1311759003365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759003366 Integrase core domain; Region: rve_3; pfam13683 1311759003367 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1311759003368 trimer interface [polypeptide binding]; other site 1311759003369 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1311759003370 trimer interface [polypeptide binding]; other site 1311759003371 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1311759003372 trimer interface [polypeptide binding]; other site 1311759003373 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1311759003374 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1311759003375 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1311759003376 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1311759003377 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1311759003378 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1311759003379 nucleotide binding site [chemical binding]; other site 1311759003380 chaperone protein DnaJ; Provisional; Region: PRK10767 1311759003381 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 1311759003382 HSP70 interaction site [polypeptide binding]; other site 1311759003383 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1311759003384 substrate binding site [polypeptide binding]; other site 1311759003385 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1311759003386 Zn binding sites [ion binding]; other site 1311759003387 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1311759003388 dimer interface [polypeptide binding]; other site 1311759003389 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1311759003390 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1311759003391 tetramer interface [polypeptide binding]; other site 1311759003392 heme binding pocket [chemical binding]; other site 1311759003393 NADPH binding site [chemical binding]; other site 1311759003394 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 1311759003395 CPxP motif; other site 1311759003396 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1311759003397 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1311759003398 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1311759003399 metal binding site [ion binding]; metal-binding site 1311759003400 dimer interface [polypeptide binding]; other site 1311759003401 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 1311759003402 ArsC family; Region: ArsC; pfam03960 1311759003403 putative catalytic residues [active] 1311759003404 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 1311759003405 dihydropteroate synthase; Region: DHPS; TIGR01496 1311759003406 substrate binding pocket [chemical binding]; other site 1311759003407 dimer interface [polypeptide binding]; other site 1311759003408 inhibitor binding site; inhibition site 1311759003409 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1311759003410 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 1311759003411 RNA binding surface [nucleotide binding]; other site 1311759003412 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1311759003413 active site 1311759003414 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1311759003415 Patatin-like phospholipase; Region: Patatin; pfam01734 1311759003416 active site 1311759003417 nucleophile elbow; other site 1311759003418 Predicted flavoprotein [General function prediction only]; Region: COG0431 1311759003419 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1311759003420 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1311759003421 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 1311759003422 active site 1311759003423 FMN binding site [chemical binding]; other site 1311759003424 substrate binding site [chemical binding]; other site 1311759003425 homotetramer interface [polypeptide binding]; other site 1311759003426 catalytic residue [active] 1311759003427 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 1311759003428 dimer interface [polypeptide binding]; other site 1311759003429 FMN binding site [chemical binding]; other site 1311759003430 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1311759003431 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1311759003432 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1311759003433 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1311759003434 putative NAD(P) binding site [chemical binding]; other site 1311759003435 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1311759003436 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1311759003437 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1311759003438 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1311759003439 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759003440 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759003441 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759003442 Integrase core domain; Region: rve; pfam00665 1311759003443 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759003444 Integrase core domain; Region: rve_3; pfam13683 1311759003445 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1311759003446 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 1311759003447 phosphate binding site [ion binding]; other site 1311759003448 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 1311759003449 putative active site [active] 1311759003450 Ap4A binding site [chemical binding]; other site 1311759003451 nudix motif; other site 1311759003452 putative metal binding site [ion binding]; other site 1311759003453 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1311759003454 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1311759003455 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1311759003456 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1311759003457 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311759003458 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 1311759003459 motif II; other site 1311759003460 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1311759003461 PemK-like protein; Region: PemK; pfam02452 1311759003462 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1311759003463 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1311759003464 active site 1311759003465 HIGH motif; other site 1311759003466 dimer interface [polypeptide binding]; other site 1311759003467 KMSKS motif; other site 1311759003468 Peptidase family M48; Region: Peptidase_M48; pfam01435 1311759003469 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 1311759003470 dimer interface [polypeptide binding]; other site 1311759003471 substrate binding site [chemical binding]; other site 1311759003472 metal binding sites [ion binding]; metal-binding site 1311759003473 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1311759003474 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1311759003475 dimerization interface [polypeptide binding]; other site 1311759003476 thymidylate kinase; Validated; Region: tmk; PRK00698 1311759003477 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 1311759003478 TMP-binding site; other site 1311759003479 ATP-binding site [chemical binding]; other site 1311759003480 DNA polymerase III subunit delta'; Validated; Region: PRK06871 1311759003481 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1311759003482 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1311759003483 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1311759003484 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1311759003485 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1311759003486 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1311759003487 active site 1311759003488 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1311759003489 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1311759003490 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1311759003491 putative active site [active] 1311759003492 putative metal binding site [ion binding]; other site 1311759003493 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1311759003494 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 1311759003495 active site 1311759003496 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1311759003497 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 1311759003498 WzyE protein; Region: WzyE; cl11643 1311759003499 glutamine synthetase; Provisional; Region: glnA; PRK09469 1311759003500 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1311759003501 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1311759003502 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1311759003503 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 1311759003504 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1311759003505 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 1311759003506 inhibitor-cofactor binding pocket; inhibition site 1311759003507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759003508 catalytic residue [active] 1311759003509 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1311759003510 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311759003511 Coenzyme A binding pocket [chemical binding]; other site 1311759003512 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1311759003513 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1311759003514 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1311759003515 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1311759003516 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1311759003517 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 1311759003518 Mg++ binding site [ion binding]; other site 1311759003519 putative catalytic motif [active] 1311759003520 substrate binding site [chemical binding]; other site 1311759003521 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1311759003522 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 1311759003523 inhibitor-cofactor binding pocket; inhibition site 1311759003524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759003525 catalytic residue [active] 1311759003526 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1311759003527 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 1311759003528 putative active site [active] 1311759003529 putative NTP binding site [chemical binding]; other site 1311759003530 putative nucleic acid binding site [nucleotide binding]; other site 1311759003531 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1311759003532 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1311759003533 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1311759003534 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1311759003535 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1311759003536 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1311759003537 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1311759003538 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1311759003539 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1311759003540 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1311759003541 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1311759003542 DNA binding site [nucleotide binding] 1311759003543 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1311759003544 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1311759003545 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 1311759003546 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1311759003547 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 1311759003548 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1311759003549 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 1311759003550 RPB1 interaction site [polypeptide binding]; other site 1311759003551 RPB11 interaction site [polypeptide binding]; other site 1311759003552 RPB10 interaction site [polypeptide binding]; other site 1311759003553 RPB3 interaction site [polypeptide binding]; other site 1311759003554 DsrH like protein; Region: DsrH; cl17347 1311759003555 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 1311759003556 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1311759003557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1311759003558 YheO-like PAS domain; Region: PAS_6; pfam08348 1311759003559 HTH domain; Region: HTH_22; pfam13309 1311759003560 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1311759003561 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1311759003562 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1311759003563 SlyX; Region: SlyX; cl01090 1311759003564 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1311759003565 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1311759003566 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1311759003567 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1311759003568 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 1311759003569 FeS/SAM binding site; other site 1311759003570 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1311759003571 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 1311759003572 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 1311759003573 FeS/SAM binding site; other site 1311759003574 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 1311759003575 Pyruvate formate lyase; Region: PFL; pfam02901 1311759003576 Pleckstrin homology-like domain; Region: PH-like; cl17171 1311759003577 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1311759003578 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 1311759003579 core dimer interface [polypeptide binding]; other site 1311759003580 peripheral dimer interface [polypeptide binding]; other site 1311759003581 L10 interface [polypeptide binding]; other site 1311759003582 L11 interface [polypeptide binding]; other site 1311759003583 putative EF-Tu interaction site [polypeptide binding]; other site 1311759003584 putative EF-G interaction site [polypeptide binding]; other site 1311759003585 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 1311759003586 23S rRNA interface [nucleotide binding]; other site 1311759003587 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1311759003588 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1311759003589 "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 1311759003590 dimer interface [polypeptide binding]; other site 1311759003591 active site 1311759003592 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1311759003593 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 1311759003594 dimer interface [polypeptide binding]; other site 1311759003595 active site 1311759003596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1311759003597 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1311759003598 NAD(P) binding site [chemical binding]; other site 1311759003599 active site 1311759003600 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1311759003601 Divergent AAA domain; Region: AAA_4; pfam04326 1311759003602 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1311759003603 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 1311759003604 putative active site 1 [active] 1311759003605 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1311759003606 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 1311759003607 dimer interface [polypeptide binding]; other site 1311759003608 active site 1311759003609 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 1311759003610 mRNA/rRNA interface [nucleotide binding]; other site 1311759003611 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1311759003612 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 1311759003613 23S rRNA interface [nucleotide binding]; other site 1311759003614 L7/L12 interface [polypeptide binding]; other site 1311759003615 putative thiostrepton binding site; other site 1311759003616 L25 interface [polypeptide binding]; other site 1311759003617 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1311759003618 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1311759003619 putative homodimer interface [polypeptide binding]; other site 1311759003620 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1311759003621 heterodimer interface [polypeptide binding]; other site 1311759003622 homodimer interface [polypeptide binding]; other site 1311759003623 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1311759003624 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1311759003625 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1311759003626 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 1311759003627 active site 1311759003628 P-loop; other site 1311759003629 phosphorylation site [posttranslational modification] 1311759003630 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1311759003631 DNA protecting protein DprA; Region: dprA; TIGR00732 1311759003632 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1311759003633 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 1311759003634 active site 1311759003635 catalytic residues [active] 1311759003636 metal binding site [ion binding]; metal-binding site 1311759003637 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1311759003638 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1311759003639 NADP binding site [chemical binding]; other site 1311759003640 homopentamer interface [polypeptide binding]; other site 1311759003641 substrate binding site [chemical binding]; other site 1311759003642 active site 1311759003643 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 1311759003644 active site 1 [active] 1311759003645 dimer interface [polypeptide binding]; other site 1311759003646 active site 2 [active] 1311759003647 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1311759003648 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1311759003649 Organiser of macrodomain of Terminus of chromosome; Region: MatP; pfam06303 1311759003650 outer membrane protein A; Reviewed; Region: PRK10808 1311759003651 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1311759003652 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1311759003653 ligand binding site [chemical binding]; other site 1311759003654 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 1311759003655 CoenzymeA binding site [chemical binding]; other site 1311759003656 subunit interaction site [polypeptide binding]; other site 1311759003657 PHB binding site; other site 1311759003658 membrane protein insertase; Provisional; Region: PRK01318 1311759003659 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1311759003660 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 1311759003661 dimer interface [polypeptide binding]; other site 1311759003662 catalytic triad [active] 1311759003663 peroxidatic and resolving cysteines [active] 1311759003664 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1311759003665 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1311759003666 putative acyl-acceptor binding pocket; other site 1311759003667 FtsI repressor; Provisional; Region: PRK10883 1311759003668 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1311759003669 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1311759003670 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1311759003671 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1311759003672 pyridoxamine kinase; Validated; Region: PRK05756 1311759003673 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 1311759003674 dimer interface [polypeptide binding]; other site 1311759003675 pyridoxal binding site [chemical binding]; other site 1311759003676 ATP binding site [chemical binding]; other site 1311759003677 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1311759003678 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 1311759003679 intersubunit interface [polypeptide binding]; other site 1311759003680 active site 1311759003681 Zn2+ binding site [ion binding]; other site 1311759003682 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1311759003683 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 1311759003684 AP (apurinic/apyrimidinic) site pocket; other site 1311759003685 DNA interaction; other site 1311759003686 Metal-binding active site; metal-binding site 1311759003687 transcriptional repressor UlaR; Provisional; Region: PRK13509 1311759003688 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1311759003689 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1311759003690 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1311759003691 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1311759003692 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 1311759003693 active site 1311759003694 phosphorylation site [posttranslational modification] 1311759003695 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 1311759003696 active site 1311759003697 dimer interface [polypeptide binding]; other site 1311759003698 magnesium binding site [ion binding]; other site 1311759003699 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1311759003700 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1311759003701 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1311759003702 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1311759003703 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1311759003704 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1311759003705 Domain of unknown function DUF302; Region: DUF302; cl01364 1311759003706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1311759003707 Putative esterase; Region: Esterase; pfam00756 1311759003708 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1311759003709 PAS domain; Region: PAS_9; pfam13426 1311759003710 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1311759003711 putative active site [active] 1311759003712 heme pocket [chemical binding]; other site 1311759003713 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1311759003714 Flavodoxin; Region: Flavodoxin_1; pfam00258 1311759003715 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 1311759003716 FAD binding pocket [chemical binding]; other site 1311759003717 conserved FAD binding motif [chemical binding]; other site 1311759003718 phosphate binding motif [ion binding]; other site 1311759003719 beta-alpha-beta structure motif; other site 1311759003720 NAD binding pocket [chemical binding]; other site 1311759003721 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1311759003722 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 1311759003723 23S rRNA interface [nucleotide binding]; other site 1311759003724 putative translocon interaction site; other site 1311759003725 signal recognition particle (SRP54) interaction site; other site 1311759003726 L23 interface [polypeptide binding]; other site 1311759003727 trigger factor interaction site; other site 1311759003728 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 1311759003729 23S rRNA interface [nucleotide binding]; other site 1311759003730 5S rRNA interface [nucleotide binding]; other site 1311759003731 putative antibiotic binding site [chemical binding]; other site 1311759003732 L25 interface [polypeptide binding]; other site 1311759003733 L27 interface [polypeptide binding]; other site 1311759003734 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1311759003735 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 1311759003736 G-X-X-G motif; other site 1311759003737 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1311759003738 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 1311759003739 protein-rRNA interface [nucleotide binding]; other site 1311759003740 putative translocon binding site; other site 1311759003741 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1311759003742 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1311759003743 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1311759003744 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1311759003745 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1311759003746 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1311759003747 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1311759003748 TfoX N-terminal domain; Region: TfoX_N; cl17592 1311759003749 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1311759003750 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1311759003751 Class II fumarases; Region: Fumarase_classII; cd01362 1311759003752 active site 1311759003753 tetramer interface [polypeptide binding]; other site 1311759003754 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 1311759003755 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1311759003756 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1311759003757 active site 1311759003758 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1311759003759 substrate binding site [chemical binding]; other site 1311759003760 catalytic residues [active] 1311759003761 dimer interface [polypeptide binding]; other site 1311759003762 glutathionine S-transferase; Provisional; Region: PRK10542 1311759003763 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 1311759003764 C-terminal domain interface [polypeptide binding]; other site 1311759003765 GSH binding site (G-site) [chemical binding]; other site 1311759003766 dimer interface [polypeptide binding]; other site 1311759003767 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1311759003768 dimer interface [polypeptide binding]; other site 1311759003769 N-terminal domain interface [polypeptide binding]; other site 1311759003770 substrate binding pocket (H-site) [chemical binding]; other site 1311759003771 protease TldD; Provisional; Region: tldD; PRK10735 1311759003772 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1311759003773 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1311759003774 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 1311759003775 Iron-sulfur protein interface; other site 1311759003776 proximal quinone binding site [chemical binding]; other site 1311759003777 C-subunit interface; other site 1311759003778 distal quinone binding site; other site 1311759003779 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 1311759003780 D-subunit interface [polypeptide binding]; other site 1311759003781 Iron-sulfur protein interface; other site 1311759003782 proximal quinone binding site [chemical binding]; other site 1311759003783 distal quinone binding site [chemical binding]; other site 1311759003784 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1311759003785 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 1311759003786 catalytic loop [active] 1311759003787 iron binding site [ion binding]; other site 1311759003788 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1311759003789 L-aspartate oxidase; Provisional; Region: PRK06175 1311759003790 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1311759003791 poxB regulator PoxA; Provisional; Region: PRK09350 1311759003792 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 1311759003793 motif 1; other site 1311759003794 dimer interface [polypeptide binding]; other site 1311759003795 active site 1311759003796 motif 2; other site 1311759003797 motif 3; other site 1311759003798 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1311759003799 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1311759003800 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 1311759003801 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 1311759003802 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1311759003803 BCCT family transporter; Region: BCCT; pfam02028 1311759003804 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1311759003805 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1311759003806 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1311759003807 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1311759003808 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1311759003809 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1311759003810 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1311759003811 hypothetical protein; Provisional; Region: PRK11568 1311759003812 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1311759003813 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1311759003814 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1311759003815 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1311759003816 putative active site [active] 1311759003817 substrate binding site [chemical binding]; other site 1311759003818 putative cosubstrate binding site; other site 1311759003819 catalytic site [active] 1311759003820 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1311759003821 substrate binding site [chemical binding]; other site 1311759003822 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1311759003823 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759003824 Walker A/P-loop; other site 1311759003825 ATP binding site [chemical binding]; other site 1311759003826 Q-loop/lid; other site 1311759003827 ABC transporter signature motif; other site 1311759003828 Walker B; other site 1311759003829 D-loop; other site 1311759003830 H-loop/switch region; other site 1311759003831 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759003832 Walker A/P-loop; other site 1311759003833 ATP binding site [chemical binding]; other site 1311759003834 Q-loop/lid; other site 1311759003835 ABC transporter signature motif; other site 1311759003836 Walker B; other site 1311759003837 D-loop; other site 1311759003838 H-loop/switch region; other site 1311759003839 Protein of unknown function, DUF479; Region: DUF479; cl01203 1311759003840 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1311759003841 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 1311759003842 putative PBP binding regions; other site 1311759003843 ABC-ATPase subunit interface; other site 1311759003844 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 1311759003845 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1311759003846 intersubunit interface [polypeptide binding]; other site 1311759003847 lipoyl synthase; Provisional; Region: PRK05481 1311759003848 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 1311759003849 FeS/SAM binding site; other site 1311759003850 lipoate-protein ligase B; Provisional; Region: PRK14342 1311759003851 hypothetical protein; Provisional; Region: PRK04998 1311759003852 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1311759003853 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1311759003854 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1311759003855 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1311759003856 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1311759003857 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1311759003858 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1311759003859 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1311759003860 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1311759003861 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 1311759003862 Oligomerisation domain; Region: Oligomerisation; cl00519 1311759003863 EamA-like transporter family; Region: EamA; cl17759 1311759003864 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1311759003865 EamA-like transporter family; Region: EamA; pfam00892 1311759003866 mannonate dehydratase; Provisional; Region: PRK03906 1311759003867 mannonate dehydratase; Region: uxuA; TIGR00695 1311759003868 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1311759003869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311759003870 DNA-binding site [nucleotide binding]; DNA binding site 1311759003871 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1311759003872 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1311759003873 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 1311759003874 putative NAD(P) binding site [chemical binding]; other site 1311759003875 active site 1311759003876 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1311759003877 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311759003878 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1311759003879 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1311759003880 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1311759003881 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1311759003882 Glucuronate isomerase; Region: UxaC; pfam02614 1311759003883 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1311759003884 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1311759003885 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1311759003886 active site 1311759003887 intersubunit interface [polypeptide binding]; other site 1311759003888 catalytic residue [active] 1311759003889 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1311759003890 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1311759003891 MutS domain I; Region: MutS_I; pfam01624 1311759003892 MutS domain II; Region: MutS_II; pfam05188 1311759003893 MutS domain III; Region: MutS_III; pfam05192 1311759003894 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1311759003895 Walker A/P-loop; other site 1311759003896 ATP binding site [chemical binding]; other site 1311759003897 Q-loop/lid; other site 1311759003898 ABC transporter signature motif; other site 1311759003899 Walker B; other site 1311759003900 D-loop; other site 1311759003901 H-loop/switch region; other site 1311759003902 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1311759003903 Helix-hairpin-helix motif; Region: HHH; pfam00633 1311759003904 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1311759003905 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1311759003906 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 1311759003907 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1311759003908 catalytic residues [active] 1311759003909 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1311759003910 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1311759003911 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1311759003912 G1 box; other site 1311759003913 GTP/Mg2+ binding site [chemical binding]; other site 1311759003914 Switch I region; other site 1311759003915 G2 box; other site 1311759003916 Switch II region; other site 1311759003917 G3 box; other site 1311759003918 G4 box; other site 1311759003919 G5 box; other site 1311759003920 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1311759003921 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1311759003922 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 1311759003923 Ligand Binding Site [chemical binding]; other site 1311759003924 TilS substrate binding domain; Region: TilS; pfam09179 1311759003925 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1311759003926 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1311759003927 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 1311759003928 active site 1311759003929 Int/Topo IB signature motif; other site 1311759003930 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 1311759003931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311759003932 DNA-binding site [nucleotide binding]; DNA binding site 1311759003933 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 1311759003934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759003935 homodimer interface [polypeptide binding]; other site 1311759003936 catalytic residue [active] 1311759003937 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1311759003938 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 1311759003939 active site 1311759003940 multimer interface [polypeptide binding]; other site 1311759003941 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1311759003942 predicted active site [active] 1311759003943 catalytic triad [active] 1311759003944 transaldolase-like protein; Provisional; Region: PTZ00411 1311759003945 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1311759003946 active site 1311759003947 dimer interface [polypeptide binding]; other site 1311759003948 catalytic residue [active] 1311759003949 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1311759003950 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1311759003951 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 1311759003952 putative metal binding site [ion binding]; other site 1311759003953 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1311759003954 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1311759003955 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1311759003956 active site 1311759003957 HIGH motif; other site 1311759003958 KMSK motif region; other site 1311759003959 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1311759003960 tRNA binding surface [nucleotide binding]; other site 1311759003961 anticodon binding site; other site 1311759003962 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1311759003963 GTP1/OBG; Region: GTP1_OBG; pfam01018 1311759003964 Obg GTPase; Region: Obg; cd01898 1311759003965 G1 box; other site 1311759003966 GTP/Mg2+ binding site [chemical binding]; other site 1311759003967 Switch I region; other site 1311759003968 G2 box; other site 1311759003969 G3 box; other site 1311759003970 Switch II region; other site 1311759003971 G4 box; other site 1311759003972 G5 box; other site 1311759003973 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1311759003974 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1311759003975 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1311759003976 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1311759003977 heme exporter protein CcmC; Region: ccmC; TIGR01191 1311759003978 heme exporter protein CcmB; Region: ccmB; TIGR01190 1311759003979 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1311759003980 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1311759003981 Walker A/P-loop; other site 1311759003982 ATP binding site [chemical binding]; other site 1311759003983 Q-loop/lid; other site 1311759003984 ABC transporter signature motif; other site 1311759003985 Walker B; other site 1311759003986 D-loop; other site 1311759003987 H-loop/switch region; other site 1311759003988 DNA replication initiation factor; Validated; Region: PRK06893 1311759003989 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1311759003990 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1311759003991 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1311759003992 peptide binding site [polypeptide binding]; other site 1311759003993 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1311759003994 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 1311759003995 dimer interface [polypeptide binding]; other site 1311759003996 conserved gate region; other site 1311759003997 putative PBP binding loops; other site 1311759003998 ABC-ATPase subunit interface; other site 1311759003999 dipeptide transporter; Provisional; Region: PRK10913 1311759004000 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1311759004001 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 1311759004002 dimer interface [polypeptide binding]; other site 1311759004003 conserved gate region; other site 1311759004004 putative PBP binding loops; other site 1311759004005 ABC-ATPase subunit interface; other site 1311759004006 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1311759004007 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759004008 Walker A/P-loop; other site 1311759004009 ATP binding site [chemical binding]; other site 1311759004010 Q-loop/lid; other site 1311759004011 ABC transporter signature motif; other site 1311759004012 Walker B; other site 1311759004013 D-loop; other site 1311759004014 H-loop/switch region; other site 1311759004015 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1311759004016 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1311759004017 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759004018 Walker A/P-loop; other site 1311759004019 ATP binding site [chemical binding]; other site 1311759004020 Q-loop/lid; other site 1311759004021 ABC transporter signature motif; other site 1311759004022 Walker B; other site 1311759004023 D-loop; other site 1311759004024 H-loop/switch region; other site 1311759004025 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1311759004026 Putative zinc-finger; Region: zf-HC2; pfam13490 1311759004027 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1311759004028 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1311759004029 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1311759004030 SelR domain; Region: SelR; pfam01641 1311759004031 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1311759004032 catalytic residues [active] 1311759004033 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759004034 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759004035 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759004036 glutamate racemase; Provisional; Region: PRK00865 1311759004037 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1311759004038 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1311759004039 Chorismate lyase; Region: Chor_lyase; cl01230 1311759004040 uridine phosphorylase; Provisional; Region: PRK11178 1311759004041 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1311759004042 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 1311759004043 motif II; other site 1311759004044 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1311759004045 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 1311759004046 active site 1311759004047 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1311759004048 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 1311759004049 dimer interface [polypeptide binding]; other site 1311759004050 motif 1; other site 1311759004051 active site 1311759004052 motif 2; other site 1311759004053 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 1311759004054 putative deacylase active site [active] 1311759004055 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 1311759004056 active site 1311759004057 motif 3; other site 1311759004058 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 1311759004059 anticodon binding site; other site 1311759004060 heat shock protein 90; Provisional; Region: PRK05218 1311759004061 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 1311759004062 ATP binding site [chemical binding]; other site 1311759004063 Mg2+ binding site [ion binding]; other site 1311759004064 G-X-G motif; other site 1311759004065 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1311759004066 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 1311759004067 oligomeric interface; other site 1311759004068 putative active site [active] 1311759004069 homodimer interface [polypeptide binding]; other site 1311759004070 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1311759004071 Pathogenicity locus; Region: Cdd1; pfam11731 1311759004072 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 1311759004073 generic binding surface II; other site 1311759004074 ssDNA binding site; other site 1311759004075 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 1311759004076 ATP binding site [chemical binding]; other site 1311759004077 putative Mg++ binding site [ion binding]; other site 1311759004078 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 1311759004079 nucleotide binding region [chemical binding]; other site 1311759004080 ATP-binding site [chemical binding]; other site 1311759004081 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1311759004082 active site 1311759004083 tetramer interface [polypeptide binding]; other site 1311759004084 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1311759004085 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 1311759004086 active site 1311759004087 substrate binding site [chemical binding]; other site 1311759004088 metal binding site [ion binding]; metal-binding site 1311759004089 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1311759004090 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 1311759004091 P-loop; other site 1311759004092 Magnesium ion binding site [ion binding]; other site 1311759004093 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 1311759004094 Magnesium ion binding site [ion binding]; other site 1311759004095 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1311759004096 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1311759004097 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 1311759004098 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 1311759004099 binding surface 1311759004100 TPR motif; other site 1311759004101 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 1311759004102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759004103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759004104 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1311759004105 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1311759004106 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1311759004107 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1311759004108 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1311759004109 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1311759004110 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1311759004111 Walker A/P-loop; other site 1311759004112 ATP binding site [chemical binding]; other site 1311759004113 Q-loop/lid; other site 1311759004114 ABC transporter signature motif; other site 1311759004115 Walker B; other site 1311759004116 D-loop; other site 1311759004117 H-loop/switch region; other site 1311759004118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1311759004119 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1311759004120 putative metal binding site [ion binding]; other site 1311759004121 hypothetical protein; Provisional; Region: PRK01752 1311759004122 SEC-C motif; Region: SEC-C; pfam02810 1311759004123 SEC-C motif; Region: SEC-C; pfam02810 1311759004124 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1311759004125 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1311759004126 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1311759004127 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1311759004128 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1311759004129 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 1311759004130 S-adenosylmethionine binding site [chemical binding]; other site 1311759004131 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 1311759004132 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1311759004133 active site 1311759004134 catalytic tetrad [active] 1311759004135 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1311759004136 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 1311759004137 putative substrate translocation pore; other site 1311759004138 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1311759004139 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1311759004140 active site 1311759004141 catalytic site [active] 1311759004142 metal binding site [ion binding]; metal-binding site 1311759004143 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 1311759004144 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 1311759004145 putative substrate translocation pore; other site 1311759004146 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 1311759004147 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1311759004148 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1311759004149 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1311759004150 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1311759004151 putative N- and C-terminal domain interface [polypeptide binding]; other site 1311759004152 putative active site [active] 1311759004153 MgATP binding site [chemical binding]; other site 1311759004154 catalytic site [active] 1311759004155 metal binding site [ion binding]; metal-binding site 1311759004156 putative xylulose binding site [chemical binding]; other site 1311759004157 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1311759004158 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1311759004159 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1311759004160 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 1311759004161 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311759004162 TM-ABC transporter signature motif; other site 1311759004163 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1311759004164 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1311759004165 Walker A/P-loop; other site 1311759004166 ATP binding site [chemical binding]; other site 1311759004167 Q-loop/lid; other site 1311759004168 ABC transporter signature motif; other site 1311759004169 Walker B; other site 1311759004170 D-loop; other site 1311759004171 H-loop/switch region; other site 1311759004172 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1311759004173 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1311759004174 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1311759004175 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1311759004176 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1311759004177 DctM-like transporters; Region: DctM; pfam06808 1311759004178 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1311759004179 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1311759004180 Domain of unknown function (DUF386); Region: DUF386; pfam04074 1311759004181 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 1311759004182 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 1311759004183 substrate binding site [chemical binding]; other site 1311759004184 Mn binding site [ion binding]; other site 1311759004185 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1311759004186 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1311759004187 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1311759004188 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1311759004189 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1311759004190 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1311759004191 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 1311759004192 IMP binding site; other site 1311759004193 dimer interface [polypeptide binding]; other site 1311759004194 interdomain contacts; other site 1311759004195 partial ornithine binding site; other site 1311759004196 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1311759004197 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1311759004198 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1311759004199 catalytic site [active] 1311759004200 subunit interface [polypeptide binding]; other site 1311759004201 ATP synthase I chain; Region: ATP_synt_I; cl09170 1311759004202 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1311759004203 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1311759004204 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1311759004205 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1311759004206 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1311759004207 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1311759004208 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1311759004209 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1311759004210 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1311759004211 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 1311759004212 beta subunit interaction interface [polypeptide binding]; other site 1311759004213 Walker A motif; other site 1311759004214 ATP binding site [chemical binding]; other site 1311759004215 Walker B motif; other site 1311759004216 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1311759004217 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1311759004218 core domain interface [polypeptide binding]; other site 1311759004219 delta subunit interface [polypeptide binding]; other site 1311759004220 epsilon subunit interface [polypeptide binding]; other site 1311759004221 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1311759004222 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1311759004223 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 1311759004224 alpha subunit interaction interface [polypeptide binding]; other site 1311759004225 Walker A motif; other site 1311759004226 ATP binding site [chemical binding]; other site 1311759004227 Walker B motif; other site 1311759004228 inhibitor binding site; inhibition site 1311759004229 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1311759004230 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1311759004231 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1311759004232 gamma subunit interface [polypeptide binding]; other site 1311759004233 epsilon subunit interface [polypeptide binding]; other site 1311759004234 LBP interface [polypeptide binding]; other site 1311759004235 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 1311759004236 dimer interface [polypeptide binding]; other site 1311759004237 active site 1311759004238 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1311759004239 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 1311759004240 dimerization interface [polypeptide binding]; other site 1311759004241 putative DNA binding site [nucleotide binding]; other site 1311759004242 putative Zn2+ binding site [ion binding]; other site 1311759004243 AsnC family; Region: AsnC_trans_reg; pfam01037 1311759004244 FMN-binding protein MioC; Provisional; Region: PRK09004 1311759004245 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1311759004246 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1311759004247 peptide binding site [polypeptide binding]; other site 1311759004248 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1311759004249 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1311759004250 inhibitor site; inhibition site 1311759004251 active site 1311759004252 dimer interface [polypeptide binding]; other site 1311759004253 catalytic residue [active] 1311759004254 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1311759004255 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1311759004256 nucleotide binding site [chemical binding]; other site 1311759004257 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1311759004258 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 1311759004259 putative active site cavity [active] 1311759004260 selenocysteine synthase; Provisional; Region: PRK04311 1311759004261 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1311759004262 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1311759004263 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311759004264 catalytic residue [active] 1311759004265 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1311759004266 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1311759004267 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1311759004268 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1311759004269 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1311759004270 G1 box; other site 1311759004271 putative GEF interaction site [polypeptide binding]; other site 1311759004272 GTP/Mg2+ binding site [chemical binding]; other site 1311759004273 Switch I region; other site 1311759004274 G2 box; other site 1311759004275 G3 box; other site 1311759004276 Switch II region; other site 1311759004277 G4 box; other site 1311759004278 G5 box; other site 1311759004279 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 1311759004280 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 1311759004281 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1311759004282 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1311759004283 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1311759004284 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1311759004285 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1311759004286 DctM-like transporters; Region: DctM; pfam06808 1311759004287 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1311759004288 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1311759004289 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 1311759004290 Ligand Binding Site [chemical binding]; other site 1311759004291 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1311759004292 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 1311759004293 putative RNA binding site [nucleotide binding]; other site 1311759004294 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 1311759004295 S-adenosylmethionine binding site [chemical binding]; other site 1311759004296 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1311759004297 TrkA-N domain; Region: TrkA_N; pfam02254 1311759004298 TrkA-C domain; Region: TrkA_C; pfam02080 1311759004299 TrkA-N domain; Region: TrkA_N; pfam02254 1311759004300 TrkA-C domain; Region: TrkA_C; pfam02080 1311759004301 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1311759004302 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1311759004303 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1311759004304 NAD binding site [chemical binding]; other site 1311759004305 catalytic residues [active] 1311759004306 substrate binding site [chemical binding]; other site 1311759004307 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1311759004308 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1311759004309 dimer interface [polypeptide binding]; other site 1311759004310 active site 1311759004311 metal binding site [ion binding]; metal-binding site 1311759004312 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 1311759004313 active site turn [active] 1311759004314 phosphorylation site [posttranslational modification] 1311759004315 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1311759004316 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 1311759004317 putative ligand binding site [chemical binding]; other site 1311759004318 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311759004319 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 1311759004320 TM-ABC transporter signature motif; other site 1311759004321 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1311759004322 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1311759004323 Walker A/P-loop; other site 1311759004324 ATP binding site [chemical binding]; other site 1311759004325 Q-loop/lid; other site 1311759004326 ABC transporter signature motif; other site 1311759004327 Walker B; other site 1311759004328 D-loop; other site 1311759004329 H-loop/switch region; other site 1311759004330 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1311759004331 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 1311759004332 intersubunit interface [polypeptide binding]; other site 1311759004333 active site 1311759004334 Zn2+ binding site [ion binding]; other site 1311759004335 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1311759004336 L-fuculokinase; Provisional; Region: PRK10331 1311759004337 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1311759004338 nucleotide binding site [chemical binding]; other site 1311759004339 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1311759004340 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 1311759004341 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1311759004342 trimer interface [polypeptide binding]; other site 1311759004343 substrate binding site [chemical binding]; other site 1311759004344 Mn binding site [ion binding]; other site 1311759004345 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1311759004346 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1311759004347 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1311759004348 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 1311759004349 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1311759004350 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1311759004351 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1311759004352 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 1311759004353 dimerization interface [polypeptide binding]; other site 1311759004354 ATP binding site [chemical binding]; other site 1311759004355 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 1311759004356 dimerization interface [polypeptide binding]; other site 1311759004357 ATP binding site [chemical binding]; other site 1311759004358 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1311759004359 putative active site [active] 1311759004360 catalytic triad [active] 1311759004361 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 1311759004362 Transposase IS200 like; Region: Y1_Tnp; cl00848 1311759004363 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1311759004364 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1311759004365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759004366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759004367 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1311759004368 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1311759004369 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1311759004370 Glutamate binding site [chemical binding]; other site 1311759004371 NAD binding site [chemical binding]; other site 1311759004372 catalytic residues [active] 1311759004373 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1311759004374 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 1311759004375 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 1311759004376 inhibitor-cofactor binding pocket; inhibition site 1311759004377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759004378 catalytic residue [active] 1311759004379 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1311759004380 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1311759004381 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 1311759004382 Moco binding site; other site 1311759004383 metal coordination site [ion binding]; other site 1311759004384 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 1311759004385 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1311759004386 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 1311759004387 DNA binding residues [nucleotide binding] 1311759004388 putative oxidoreductase; Provisional; Region: PRK11579 1311759004389 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1311759004390 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1311759004391 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1311759004392 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1311759004393 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 1311759004394 metal-binding site [ion binding] 1311759004395 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 1311759004396 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1311759004397 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1311759004398 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1311759004399 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1311759004400 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1311759004401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1311759004402 NAD(P) binding site [chemical binding]; other site 1311759004403 active site 1311759004404 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 1311759004405 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1311759004406 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 1311759004407 motif II; other site 1311759004408 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1311759004409 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1311759004410 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1311759004411 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1311759004412 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 1311759004413 putative active site [active] 1311759004414 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 1311759004415 Transposase IS200 like; Region: Y1_Tnp; cl00848 1311759004416 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1311759004417 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1311759004418 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 1311759004419 active site 1311759004420 P-loop; other site 1311759004421 phosphorylation site [posttranslational modification] 1311759004422 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 1311759004423 active site 1311759004424 phosphorylation site [posttranslational modification] 1311759004425 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1311759004426 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1311759004427 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1311759004428 Mannitol repressor; Region: MtlR; cl11450 1311759004429 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1311759004430 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 1311759004431 transmembrane helices; other site 1311759004432 TrkA-C domain; Region: TrkA_C; pfam02080 1311759004433 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1311759004434 TrkA-C domain; Region: TrkA_C; pfam02080 1311759004435 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 1311759004436 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311759004437 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 1311759004438 TM-ABC transporter signature motif; other site 1311759004439 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1311759004440 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1311759004441 Walker A/P-loop; other site 1311759004442 ATP binding site [chemical binding]; other site 1311759004443 Q-loop/lid; other site 1311759004444 ABC transporter signature motif; other site 1311759004445 Walker B; other site 1311759004446 D-loop; other site 1311759004447 H-loop/switch region; other site 1311759004448 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1311759004449 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1311759004450 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 1311759004451 putative ligand binding site [chemical binding]; other site 1311759004452 xylose isomerase; Provisional; Region: PRK05474 1311759004453 xylose isomerase; Region: xylose_isom_A; TIGR02630 1311759004454 xylulokinase; Provisional; Region: PRK15027 1311759004455 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1311759004456 N- and C-terminal domain interface [polypeptide binding]; other site 1311759004457 active site 1311759004458 MgATP binding site [chemical binding]; other site 1311759004459 catalytic site [active] 1311759004460 metal binding site [ion binding]; metal-binding site 1311759004461 xylulose binding site [chemical binding]; other site 1311759004462 homodimer interface [polypeptide binding]; other site 1311759004463 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1311759004464 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1311759004465 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1311759004466 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1311759004467 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1311759004468 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1311759004469 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1311759004470 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1311759004471 CrcB-like protein; Region: CRCB; cl09114 1311759004472 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 1311759004473 amphipathic channel; other site 1311759004474 Asn-Pro-Ala signature motifs; other site 1311759004475 glycerol kinase; Provisional; Region: glpK; PRK00047 1311759004476 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1311759004477 N- and C-terminal domain interface [polypeptide binding]; other site 1311759004478 active site 1311759004479 MgATP binding site [chemical binding]; other site 1311759004480 catalytic site [active] 1311759004481 metal binding site [ion binding]; metal-binding site 1311759004482 glycerol binding site [chemical binding]; other site 1311759004483 homotetramer interface [polypeptide binding]; other site 1311759004484 homodimer interface [polypeptide binding]; other site 1311759004485 FBP binding site [chemical binding]; other site 1311759004486 protein IIAGlc interface [polypeptide binding]; other site 1311759004487 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1311759004488 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1311759004489 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1311759004490 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1311759004491 active site 1311759004492 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1311759004493 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 1311759004494 dimer interface [polypeptide binding]; other site 1311759004495 conserved gate region; other site 1311759004496 putative PBP binding loops; other site 1311759004497 ABC-ATPase subunit interface; other site 1311759004498 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1311759004499 NMT1-like family; Region: NMT1_2; pfam13379 1311759004500 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1311759004501 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1311759004502 Walker A/P-loop; other site 1311759004503 ATP binding site [chemical binding]; other site 1311759004504 Q-loop/lid; other site 1311759004505 ABC transporter signature motif; other site 1311759004506 Walker B; other site 1311759004507 D-loop; other site 1311759004508 H-loop/switch region; other site 1311759004509 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1311759004510 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1311759004511 HlyD family secretion protein; Region: HlyD_3; pfam13437 1311759004512 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 1311759004513 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1311759004514 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311759004515 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 1311759004516 Walker A/P-loop; other site 1311759004517 ATP binding site [chemical binding]; other site 1311759004518 Q-loop/lid; other site 1311759004519 ABC transporter signature motif; other site 1311759004520 Walker B; other site 1311759004521 D-loop; other site 1311759004522 H-loop/switch region; other site 1311759004523 RTX N-terminal domain; Region: RTX; pfam02382 1311759004524 RTX C-terminal domain; Region: RTX_C; pfam08339 1311759004525 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1311759004526 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1311759004527 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 1311759004528 substrate binding pocket [chemical binding]; other site 1311759004529 membrane-bound complex binding site; other site 1311759004530 hinge residues; other site 1311759004531 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1311759004532 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1311759004533 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 1311759004534 Walker A motif; other site 1311759004535 ATP binding site [chemical binding]; other site 1311759004536 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 1311759004537 Walker B motif; other site 1311759004538 arginine finger; other site 1311759004539 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1311759004540 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 1311759004541 active site 1311759004542 HslU subunit interaction site [polypeptide binding]; other site 1311759004543 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1311759004544 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1311759004545 EamA-like transporter family; Region: EamA; pfam00892 1311759004546 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 1311759004547 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1311759004548 putative metal binding site [ion binding]; other site 1311759004549 adenine DNA glycosylase; Provisional; Region: PRK10880 1311759004550 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1311759004551 minor groove reading motif; other site 1311759004552 helix-hairpin-helix signature motif; other site 1311759004553 substrate binding pocket [chemical binding]; other site 1311759004554 active site 1311759004555 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1311759004556 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 1311759004557 DNA binding and oxoG recognition site [nucleotide binding] 1311759004558 oxidative damage protection protein; Provisional; Region: PRK05408 1311759004559 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1311759004560 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1311759004561 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 1311759004562 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 1311759004563 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1311759004564 catalytic residue [active] 1311759004565 signal recognition particle protein; Provisional; Region: PRK10867 1311759004566 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1311759004567 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 1311759004568 P loop; other site 1311759004569 GTP binding site [chemical binding]; other site 1311759004570 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1311759004571 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1311759004572 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1311759004573 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1311759004574 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1311759004575 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1311759004576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1311759004577 putative aldolase; Validated; Region: PRK08130 1311759004578 intersubunit interface [polypeptide binding]; other site 1311759004579 active site 1311759004580 Zn2+ binding site [ion binding]; other site 1311759004581 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1311759004582 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 1311759004583 Metal-binding active site; metal-binding site 1311759004584 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1311759004585 GntP family permease; Region: GntP_permease; pfam02447 1311759004586 Predicted peptidase [General function prediction only]; Region: COG4099 1311759004587 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1311759004588 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 1311759004589 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 1311759004590 FeS/SAM binding site; other site 1311759004591 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 1311759004592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1311759004593 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1311759004594 NAD(P) binding site [chemical binding]; other site 1311759004595 active site 1311759004596 Dihaem cytochrome c; Region: DHC; pfam09626 1311759004597 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 1311759004598 dimer interface [polypeptide binding]; other site 1311759004599 motif 1; other site 1311759004600 active site 1311759004601 motif 2; other site 1311759004602 motif 3; other site 1311759004603 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 1311759004604 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1311759004605 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1311759004606 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1311759004607 DALR anticodon binding domain; Region: DALR_1; pfam05746 1311759004608 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1311759004609 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1311759004610 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1311759004611 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1311759004612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1311759004613 YheO-like PAS domain; Region: PAS_6; pfam08348 1311759004614 HTH domain; Region: HTH_22; pfam13309 1311759004615 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1311759004616 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 1311759004617 active site 1311759004618 Int/Topo IB signature motif; other site 1311759004619 Protein of unknown function (DUF454); Region: DUF454; cl01063 1311759004620 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1311759004621 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 1311759004622 S-adenosylmethionine binding site [chemical binding]; other site 1311759004623 hypothetical protein; Provisional; Region: PRK11027 1311759004624 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1311759004625 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1311759004626 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1311759004627 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1311759004628 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1311759004629 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1311759004630 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 1311759004631 MPT binding site; other site 1311759004632 trimer interface [polypeptide binding]; other site 1311759004633 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1311759004634 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1311759004635 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 1311759004636 binding surface 1311759004637 TPR motif; other site 1311759004638 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1311759004639 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1311759004640 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 1311759004641 catalytic residues [active] 1311759004642 central insert; other site 1311759004643 pantothenate kinase; Provisional; Region: PRK05439 1311759004644 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 1311759004645 ATP-binding site [chemical binding]; other site 1311759004646 CoA-binding site [chemical binding]; other site 1311759004647 Mg2+-binding site [ion binding]; other site 1311759004648 elongation factor Tu; Reviewed; Region: PRK00049 1311759004649 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1311759004650 G1 box; other site 1311759004651 GEF interaction site [polypeptide binding]; other site 1311759004652 GTP/Mg2+ binding site [chemical binding]; other site 1311759004653 Switch I region; other site 1311759004654 G2 box; other site 1311759004655 G3 box; other site 1311759004656 Switch II region; other site 1311759004657 G4 box; other site 1311759004658 G5 box; other site 1311759004659 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 1311759004660 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 1311759004661 Antibiotic Binding Site [chemical binding]; other site 1311759004662 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 1311759004663 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1311759004664 Walker A/P-loop; other site 1311759004665 ATP binding site [chemical binding]; other site 1311759004666 Q-loop/lid; other site 1311759004667 ABC transporter signature motif; other site 1311759004668 Walker B; other site 1311759004669 D-loop; other site 1311759004670 H-loop/switch region; other site 1311759004671 TOBE domain; Region: TOBE_2; pfam08402 1311759004672 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1311759004673 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 1311759004674 dimer interface [polypeptide binding]; other site 1311759004675 conserved gate region; other site 1311759004676 putative PBP binding loops; other site 1311759004677 ABC-ATPase subunit interface; other site 1311759004678 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 1311759004679 dimer interface [polypeptide binding]; other site 1311759004680 conserved gate region; other site 1311759004681 putative PBP binding loops; other site 1311759004682 ABC-ATPase subunit interface; other site 1311759004683 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1311759004684 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1311759004685 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1311759004686 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1311759004687 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1311759004688 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1311759004689 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 1311759004690 glutaminase active site [active] 1311759004691 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 1311759004692 dimer interface [polypeptide binding]; other site 1311759004693 active site 1311759004694 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 1311759004695 dimer interface [polypeptide binding]; other site 1311759004696 active site 1311759004697 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1311759004698 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1311759004699 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1311759004700 RNA binding site [nucleotide binding]; other site 1311759004701 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1311759004702 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1311759004703 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1311759004704 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1311759004705 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1311759004706 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1311759004707 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1311759004708 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1311759004709 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 1311759004710 23S rRNA interface [nucleotide binding]; other site 1311759004711 L21e interface [polypeptide binding]; other site 1311759004712 5S rRNA interface [nucleotide binding]; other site 1311759004713 L27 interface [polypeptide binding]; other site 1311759004714 L5 interface [polypeptide binding]; other site 1311759004715 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1311759004716 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1311759004717 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1311759004718 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 1311759004719 23S rRNA binding site [nucleotide binding]; other site 1311759004720 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1311759004721 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1311759004722 SecY translocase; Region: SecY; pfam00344 1311759004723 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1311759004724 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1311759004725 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1311759004726 30S ribosomal protein S11; Validated; Region: PRK05309 1311759004727 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1311759004728 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1311759004729 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 1311759004730 RNA binding surface [nucleotide binding]; other site 1311759004731 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1311759004732 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1311759004733 alphaNTD homodimer interface [polypeptide binding]; other site 1311759004734 alphaNTD - beta interaction site [polypeptide binding]; other site 1311759004735 alphaNTD - beta' interaction site [polypeptide binding]; other site 1311759004736 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1311759004737 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1311759004738 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1311759004739 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1311759004740 putative dimerization interface [polypeptide binding]; other site 1311759004741 putative ligand binding site [chemical binding]; other site 1311759004742 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759004743 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1311759004744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759004745 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1311759004746 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311759004747 DNA binding site [nucleotide binding] 1311759004748 domain linker motif; other site 1311759004749 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 1311759004750 putative ligand binding site [chemical binding]; other site 1311759004751 putative dimerization interface [polypeptide binding]; other site 1311759004752 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 1311759004753 Shikimate kinase; Region: SKI; pfam01202 1311759004754 ATP-binding site [chemical binding]; other site 1311759004755 Gluconate-6-phosphate binding site [chemical binding]; other site 1311759004756 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1311759004757 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1311759004758 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1311759004759 cell density-dependent motility repressor; Provisional; Region: PRK10082 1311759004760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311759004761 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1311759004762 aspartate racemase; Region: asp_race; TIGR00035 1311759004763 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1311759004764 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1311759004765 succinic semialdehyde dehydrogenase; Region: PLN02278 1311759004766 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1311759004767 tetramerization interface [polypeptide binding]; other site 1311759004768 NAD(P) binding site [chemical binding]; other site 1311759004769 catalytic residues [active] 1311759004770 KduI/IolB family; Region: KduI; cl01508 1311759004771 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1311759004772 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1311759004773 tetrameric interface [polypeptide binding]; other site 1311759004774 NAD binding site [chemical binding]; other site 1311759004775 catalytic residues [active] 1311759004776 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1311759004777 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 1311759004778 ligand binding site [chemical binding]; other site 1311759004779 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1311759004780 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1311759004781 Walker A/P-loop; other site 1311759004782 ATP binding site [chemical binding]; other site 1311759004783 Q-loop/lid; other site 1311759004784 ABC transporter signature motif; other site 1311759004785 Walker B; other site 1311759004786 D-loop; other site 1311759004787 H-loop/switch region; other site 1311759004788 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1311759004789 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311759004790 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 1311759004791 TM-ABC transporter signature motif; other site 1311759004792 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1311759004793 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1311759004794 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1311759004795 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1311759004796 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1311759004797 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1311759004798 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1311759004799 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 1311759004800 Metal-binding active site; metal-binding site 1311759004801 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1311759004802 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1311759004803 PYR/PP interface [polypeptide binding]; other site 1311759004804 dimer interface [polypeptide binding]; other site 1311759004805 TPP binding site [chemical binding]; other site 1311759004806 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1311759004807 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 1311759004808 TPP-binding site; other site 1311759004809 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1311759004810 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 1311759004811 substrate binding site [chemical binding]; other site 1311759004812 ATP binding site [chemical binding]; other site 1311759004813 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1311759004814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1311759004815 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 1311759004816 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1311759004817 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1311759004818 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1311759004819 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1311759004820 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1311759004821 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 1311759004822 putative active site [active] 1311759004823 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 1311759004824 active site turn [active] 1311759004825 phosphorylation site [posttranslational modification] 1311759004826 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1311759004827 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1311759004828 RimM N-terminal domain; Region: RimM; pfam01782 1311759004829 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1311759004830 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1311759004831 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 1311759004832 metal binding site [ion binding]; metal-binding site 1311759004833 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1311759004834 Cupin domain; Region: Cupin_2; cl17218 1311759004835 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1311759004836 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1311759004837 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1311759004838 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1311759004839 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1311759004840 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 1311759004841 carboxyltransferase (CT) interaction site; other site 1311759004842 biotinylation site [posttranslational modification]; other site 1311759004843 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 1311759004844 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1311759004845 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1311759004846 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 1311759004847 active site 1311759004848 trimer interface [polypeptide binding]; other site 1311759004849 dimer interface [polypeptide binding]; other site 1311759004850 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1311759004851 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311759004852 Coenzyme A binding pocket [chemical binding]; other site 1311759004853 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1311759004854 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 1311759004855 trimer interface [polypeptide binding]; other site 1311759004856 active site 1311759004857 substrate binding site [chemical binding]; other site 1311759004858 CoA binding site [chemical binding]; other site 1311759004859 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1311759004860 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1311759004861 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1311759004862 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 1311759004863 S-adenosylmethionine binding site [chemical binding]; other site 1311759004864 Sporulation related domain; Region: SPOR; pfam05036 1311759004865 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1311759004866 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1311759004867 Mg chelatase-related protein; Region: TIGR00368 1311759004868 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1311759004869 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 1311759004870 Walker A motif; other site 1311759004871 ATP binding site [chemical binding]; other site 1311759004872 Walker B motif; other site 1311759004873 arginine finger; other site 1311759004874 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1311759004875 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1311759004876 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 1311759004877 dimer interface [polypeptide binding]; other site 1311759004878 tetramer interface [polypeptide binding]; other site 1311759004879 PYR/PP interface [polypeptide binding]; other site 1311759004880 TPP binding site [chemical binding]; other site 1311759004881 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 1311759004882 TPP-binding site; other site 1311759004883 DctM-like transporters; Region: DctM; pfam06808 1311759004884 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1311759004885 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1311759004886 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1311759004887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1311759004888 B-Box C-terminal domain; Region: BBC; smart00502 1311759004889 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1311759004890 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1311759004891 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1311759004892 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1311759004893 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1311759004894 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1311759004895 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1311759004896 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 1311759004897 ligand binding site [chemical binding]; other site 1311759004898 calcium binding site [ion binding]; other site 1311759004899 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1311759004900 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 1311759004901 ligand binding site [chemical binding]; other site 1311759004902 calcium binding site [ion binding]; other site 1311759004903 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1311759004904 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1311759004905 Walker A/P-loop; other site 1311759004906 ATP binding site [chemical binding]; other site 1311759004907 Q-loop/lid; other site 1311759004908 ABC transporter signature motif; other site 1311759004909 Walker B; other site 1311759004910 D-loop; other site 1311759004911 H-loop/switch region; other site 1311759004912 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1311759004913 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311759004914 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 1311759004915 TM-ABC transporter signature motif; other site 1311759004916 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1311759004917 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1311759004918 hypothetical protein; Provisional; Region: PRK10506 1311759004919 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1311759004920 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1311759004921 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1311759004922 protease3; Provisional; Region: PRK15101 1311759004923 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1311759004924 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1311759004925 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1311759004926 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1311759004927 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1311759004928 peptide binding site [polypeptide binding]; other site 1311759004929 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1311759004930 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1311759004931 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 1311759004932 N-terminal plug; other site 1311759004933 ligand-binding site [chemical binding]; other site 1311759004934 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1311759004935 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1311759004936 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1311759004937 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1311759004938 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759004939 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1311759004940 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1311759004941 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1311759004942 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1311759004943 FAD binding domain; Region: FAD_binding_4; pfam01565 1311759004944 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1311759004945 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1311759004946 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 1311759004947 ligand binding site [chemical binding]; other site 1311759004948 flexible hinge region; other site 1311759004949 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 1311759004950 putative switch regulator; other site 1311759004951 non-specific DNA interactions [nucleotide binding]; other site 1311759004952 DNA binding site [nucleotide binding] 1311759004953 sequence specific DNA binding site [nucleotide binding]; other site 1311759004954 putative cAMP binding site [chemical binding]; other site 1311759004955 hypothetical protein; Provisional; Region: PRK04966 1311759004956 division inhibitor protein; Provisional; Region: slmA; PRK09480 1311759004957 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1311759004958 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1311759004959 trimer interface [polypeptide binding]; other site 1311759004960 active site 1311759004961 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 1311759004962 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1311759004963 Ligand binding site; other site 1311759004964 metal-binding site 1311759004965 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1311759004966 Src Homology 3 domain superfamily; Region: SH3; cl17036 1311759004967 peptide ligand binding site [polypeptide binding]; other site 1311759004968 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1311759004969 Flavoprotein; Region: Flavoprotein; pfam02441 1311759004970 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1311759004971 hypothetical protein; Reviewed; Region: PRK00024 1311759004972 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1311759004973 MPN+ (JAMM) motif; other site 1311759004974 Zinc-binding site [ion binding]; other site 1311759004975 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1311759004976 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1311759004977 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1311759004978 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1311759004979 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1311759004980 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1311759004981 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1311759004982 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1311759004983 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1311759004984 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 1311759004985 inhibitor-cofactor binding pocket; inhibition site 1311759004986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759004987 catalytic residue [active] 1311759004988 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 1311759004989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759004990 catalytic residue [active] 1311759004991 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1311759004992 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1311759004993 ferredoxin-type protein NapF; Region: napF; TIGR00402 1311759004994 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1311759004995 4Fe-4S binding domain; Region: Fer4; cl02805 1311759004996 NapD protein; Region: NapD; pfam03927 1311759004997 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1311759004998 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 1311759004999 [4Fe-4S] binding site [ion binding]; other site 1311759005000 molybdopterin cofactor binding site; other site 1311759005001 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 1311759005002 molybdopterin cofactor binding site; other site 1311759005003 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1311759005004 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1311759005005 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1311759005006 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1311759005007 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1311759005008 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1311759005009 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1311759005010 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1311759005011 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1311759005012 active site 1311759005013 metal binding site [ion binding]; metal-binding site 1311759005014 hexamer interface [polypeptide binding]; other site 1311759005015 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 1311759005016 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1311759005017 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1311759005018 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 1311759005019 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 1311759005020 molybdopterin cofactor binding site [chemical binding]; other site 1311759005021 substrate binding site [chemical binding]; other site 1311759005022 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 1311759005023 molybdopterin cofactor binding site; other site 1311759005024 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1311759005025 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1311759005026 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1311759005027 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 1311759005028 dimer interface [polypeptide binding]; other site 1311759005029 ADP-ribose binding site [chemical binding]; other site 1311759005030 active site 1311759005031 nudix motif; other site 1311759005032 metal binding site [ion binding]; metal-binding site 1311759005033 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1311759005034 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1311759005035 Predicted membrane protein [Function unknown]; Region: COG2510 1311759005036 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1311759005037 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1311759005038 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1311759005039 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1311759005040 Na binding site [ion binding]; other site 1311759005041 Protein of unknown function (DUF997); Region: DUF997; pfam06196 1311759005042 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 1311759005043 dimerization interface [polypeptide binding]; other site 1311759005044 DNA binding site [nucleotide binding] 1311759005045 corepressor binding sites; other site 1311759005046 VacJ like lipoprotein; Region: VacJ; cl01073 1311759005047 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1311759005048 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1311759005049 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311759005050 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1311759005051 Virulence protein [General function prediction only]; Region: COG3943 1311759005052 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1311759005053 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1311759005054 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1311759005055 trimer interface [polypeptide binding]; other site 1311759005056 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1311759005057 trimer interface [polypeptide binding]; other site 1311759005058 Haemagglutinin; Region: HIM; pfam05662 1311759005059 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759005060 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759005061 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759005062 Integrase core domain; Region: rve; pfam00665 1311759005063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759005064 Integrase core domain; Region: rve_3; pfam13683 1311759005065 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1311759005066 Haemagglutinin; Region: HIM; pfam05662 1311759005067 YadA-like C-terminal region; Region: YadA; pfam03895 1311759005068 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 1311759005069 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1311759005070 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1311759005071 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1311759005072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311759005073 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 1311759005074 dimerization interface [polypeptide binding]; other site 1311759005075 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 1311759005076 catalytic triad [active] 1311759005077 dimer interface [polypeptide binding]; other site 1311759005078 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1311759005079 threonine synthase; Validated; Region: PRK09225 1311759005080 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1311759005081 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311759005082 catalytic residue [active] 1311759005083 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 1311759005084 active site 1311759005085 dimer interfaces [polypeptide binding]; other site 1311759005086 catalytic residues [active] 1311759005087 TIGR01666 family membrane protein; Region: YCCS 1311759005088 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1311759005089 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1311759005090 Transposase IS200 like; Region: Y1_Tnp; cl00848 1311759005091 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1311759005092 Paraquat-inducible protein A; Region: PqiA; pfam04403 1311759005093 Paraquat-inducible protein A; Region: PqiA; pfam04403 1311759005094 ketol-acid reductoisomerase; Validated; Region: PRK05225 1311759005095 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1311759005096 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1311759005097 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1311759005098 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1311759005099 ATP binding site [chemical binding]; other site 1311759005100 active site 1311759005101 substrate binding site [chemical binding]; other site 1311759005102 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1311759005103 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1311759005104 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1311759005105 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1311759005106 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 1311759005107 NAD binding site [chemical binding]; other site 1311759005108 dimerization interface [polypeptide binding]; other site 1311759005109 product binding site; other site 1311759005110 substrate binding site [chemical binding]; other site 1311759005111 zinc binding site [ion binding]; other site 1311759005112 catalytic residues [active] 1311759005113 putative phosphate acyltransferase; Provisional; Region: PRK05331 1311759005114 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1311759005115 hypothetical protein; Provisional; Region: PRK11193 1311759005116 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1311759005117 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1311759005118 Domain of unknown function DUF21; Region: DUF21; pfam01595 1311759005119 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 1311759005120 Transporter associated domain; Region: CorC_HlyC; smart01091 1311759005121 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1311759005122 Na2 binding site [ion binding]; other site 1311759005123 putative substrate binding site 1 [chemical binding]; other site 1311759005124 Na binding site 1 [ion binding]; other site 1311759005125 putative substrate binding site 2 [chemical binding]; other site 1311759005126 glutaredoxin 1; Provisional; Region: grxA; PRK11200 1311759005127 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1311759005128 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 1311759005129 ATP binding site [chemical binding]; other site 1311759005130 Mg++ binding site [ion binding]; other site 1311759005131 motif III; other site 1311759005132 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 1311759005133 nucleotide binding region [chemical binding]; other site 1311759005134 ATP-binding site [chemical binding]; other site 1311759005135 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759005136 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759005137 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759005138 Integrase core domain; Region: rve; pfam00665 1311759005139 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759005140 Integrase core domain; Region: rve_3; pfam13683 1311759005141 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1311759005142 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1311759005143 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1311759005144 Predicted transcriptional regulator [Transcription]; Region: COG2932 1311759005145 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 1311759005146 Catalytic site [active] 1311759005147 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1311759005148 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 1311759005149 AMP binding site [chemical binding]; other site 1311759005150 metal binding site [ion binding]; metal-binding site 1311759005151 active site 1311759005152 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1311759005153 active site 1311759005154 phosphate binding residues; other site 1311759005155 catalytic residues [active] 1311759005156 Pirin-related protein [General function prediction only]; Region: COG1741 1311759005157 Pirin; Region: Pirin; pfam02678 1311759005158 hypothetical protein; Provisional; Region: PRK11212 1311759005159 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 1311759005160 active site 1311759005161 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1311759005162 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 1311759005163 active site turn [active] 1311759005164 phosphorylation site [posttranslational modification] 1311759005165 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1311759005166 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1311759005167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759005168 Walker A/P-loop; other site 1311759005169 ATP binding site [chemical binding]; other site 1311759005170 Q-loop/lid; other site 1311759005171 ABC transporter signature motif; other site 1311759005172 Walker B; other site 1311759005173 D-loop; other site 1311759005174 H-loop/switch region; other site 1311759005175 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1311759005176 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 1311759005177 dimer interface [polypeptide binding]; other site 1311759005178 conserved gate region; other site 1311759005179 putative PBP binding loops; other site 1311759005180 ABC-ATPase subunit interface; other site 1311759005181 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 1311759005182 dimerization domain swap beta strand [polypeptide binding]; other site 1311759005183 regulatory protein interface [polypeptide binding]; other site 1311759005184 active site 1311759005185 regulatory phosphorylation site [posttranslational modification]; other site 1311759005186 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1311759005187 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1311759005188 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1311759005189 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1311759005190 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 1311759005191 HPr interaction site; other site 1311759005192 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1311759005193 active site 1311759005194 phosphorylation site [posttranslational modification] 1311759005195 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1311759005196 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1311759005197 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 1311759005198 FeS/SAM binding site; other site 1311759005199 TRAM domain; Region: TRAM; pfam01938 1311759005200 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1311759005201 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 1311759005202 putative substrate binding site [chemical binding]; other site 1311759005203 putative ATP binding site [chemical binding]; other site 1311759005204 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1311759005205 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1311759005206 substrate binding [chemical binding]; other site 1311759005207 active site 1311759005208 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1311759005209 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1311759005210 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311759005211 DNA binding site [nucleotide binding] 1311759005212 domain linker motif; other site 1311759005213 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1311759005214 dimerization interface [polypeptide binding]; other site 1311759005215 ligand binding site [chemical binding]; other site 1311759005216 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1311759005217 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1311759005218 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1311759005219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1311759005220 Zn2+ binding site [ion binding]; other site 1311759005221 Mg2+ binding site [ion binding]; other site 1311759005222 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1311759005223 synthetase active site [active] 1311759005224 NTP binding site [chemical binding]; other site 1311759005225 metal binding site [ion binding]; metal-binding site 1311759005226 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 1311759005227 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1311759005228 Abi-like protein; Region: Abi_2; cl01988 1311759005229 ferrochelatase; Reviewed; Region: hemH; PRK00035 1311759005230 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 1311759005231 C-terminal domain interface [polypeptide binding]; other site 1311759005232 active site 1311759005233 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 1311759005234 active site 1311759005235 N-terminal domain interface [polypeptide binding]; other site 1311759005236 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1311759005237 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1311759005238 Haemolytic domain; Region: Haemolytic; pfam01809 1311759005239 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1311759005240 Chain length determinant protein; Region: Wzz; pfam02706 1311759005241 Core-2/I-Branching enzyme; Region: Branch; pfam02485 1311759005242 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1311759005243 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1311759005244 UDP-galactopyranose mutase; Region: GLF; pfam03275 1311759005245 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 1311759005246 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1311759005247 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1311759005248 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1311759005249 NAD binding site [chemical binding]; other site 1311759005250 substrate binding site [chemical binding]; other site 1311759005251 homodimer interface [polypeptide binding]; other site 1311759005252 active site 1311759005253 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1311759005254 O-Antigen ligase; Region: Wzy_C; pfam04932 1311759005255 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 1311759005256 putative active site [active] 1311759005257 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1311759005258 DNA primase; Validated; Region: dnaG; PRK05667 1311759005259 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1311759005260 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1311759005261 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 1311759005262 active site 1311759005263 metal binding site [ion binding]; metal-binding site 1311759005264 interdomain interaction site; other site 1311759005265 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1311759005266 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1311759005267 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1311759005268 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1311759005269 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1311759005270 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1311759005271 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1311759005272 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1311759005273 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 1311759005274 DNA binding residues [nucleotide binding] 1311759005275 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1311759005276 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1311759005277 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1311759005278 UbiA prenyltransferase family; Region: UbiA; pfam01040 1311759005279 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1311759005280 homodimer interaction site [polypeptide binding]; other site 1311759005281 cofactor binding site; other site 1311759005282 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1311759005283 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1311759005284 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 1311759005285 amphipathic channel; other site 1311759005286 Asn-Pro-Ala signature motifs; other site 1311759005287 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 1311759005288 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1311759005289 threonine dehydratase; Reviewed; Region: PRK09224 1311759005290 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 1311759005291 tetramer interface [polypeptide binding]; other site 1311759005292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759005293 catalytic residue [active] 1311759005294 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1311759005295 putative Ile/Val binding site [chemical binding]; other site 1311759005296 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1311759005297 putative Ile/Val binding site [chemical binding]; other site 1311759005298 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1311759005299 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 1311759005300 active site 1311759005301 substrate binding site [chemical binding]; other site 1311759005302 metal binding site [ion binding]; metal-binding site 1311759005303 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 1311759005304 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1311759005305 active site 1311759005306 dimer interface [polypeptide binding]; other site 1311759005307 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1311759005308 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1311759005309 ligand binding site [chemical binding]; other site 1311759005310 NAD binding site [chemical binding]; other site 1311759005311 tetramer interface [polypeptide binding]; other site 1311759005312 catalytic site [active] 1311759005313 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1311759005314 L-serine binding site [chemical binding]; other site 1311759005315 ACT domain interface; other site 1311759005316 two-component response regulator; Provisional; Region: PRK11173 1311759005317 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 1311759005318 active site 1311759005319 phosphorylation site [posttranslational modification] 1311759005320 intermolecular recognition site; other site 1311759005321 dimerization interface [polypeptide binding]; other site 1311759005322 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 1311759005323 DNA binding site [nucleotide binding] 1311759005324 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1311759005325 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1311759005326 active site 1311759005327 metal binding site [ion binding]; metal-binding site 1311759005328 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1311759005329 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1311759005330 active site 1311759005331 nucleotide binding site [chemical binding]; other site 1311759005332 HIGH motif; other site 1311759005333 KMSKS motif; other site 1311759005334 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1311759005335 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1311759005336 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1311759005337 active site 1311759005338 Riboflavin kinase; Region: Flavokinase; smart00904 1311759005339 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1311759005340 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1311759005341 active site 1311759005342 HIGH motif; other site 1311759005343 nucleotide binding site [chemical binding]; other site 1311759005344 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1311759005345 active site 1311759005346 KMSKS motif; other site 1311759005347 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1311759005348 tRNA binding surface [nucleotide binding]; other site 1311759005349 anticodon binding site; other site 1311759005350 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1311759005351 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1311759005352 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1311759005353 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1311759005354 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1311759005355 domain interface [polypeptide binding]; other site 1311759005356 putative active site [active] 1311759005357 catalytic site [active] 1311759005358 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1311759005359 domain interface [polypeptide binding]; other site 1311759005360 putative active site [active] 1311759005361 catalytic site [active] 1311759005362 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1311759005363 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1311759005364 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1311759005365 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1311759005366 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759005367 Walker A/P-loop; other site 1311759005368 ATP binding site [chemical binding]; other site 1311759005369 Q-loop/lid; other site 1311759005370 ABC transporter signature motif; other site 1311759005371 Walker B; other site 1311759005372 D-loop; other site 1311759005373 H-loop/switch region; other site 1311759005374 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1311759005375 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759005376 Walker A/P-loop; other site 1311759005377 ATP binding site [chemical binding]; other site 1311759005378 Q-loop/lid; other site 1311759005379 ABC transporter signature motif; other site 1311759005380 Walker B; other site 1311759005381 D-loop; other site 1311759005382 H-loop/switch region; other site 1311759005383 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1311759005384 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 1311759005385 dimer interface [polypeptide binding]; other site 1311759005386 conserved gate region; other site 1311759005387 putative PBP binding loops; other site 1311759005388 ABC-ATPase subunit interface; other site 1311759005389 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1311759005390 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 1311759005391 dimer interface [polypeptide binding]; other site 1311759005392 conserved gate region; other site 1311759005393 putative PBP binding loops; other site 1311759005394 ABC-ATPase subunit interface; other site 1311759005395 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1311759005396 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 1311759005397 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1311759005398 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1311759005399 G1 box; other site 1311759005400 putative GEF interaction site [polypeptide binding]; other site 1311759005401 GTP/Mg2+ binding site [chemical binding]; other site 1311759005402 Switch I region; other site 1311759005403 G2 box; other site 1311759005404 G3 box; other site 1311759005405 Switch II region; other site 1311759005406 G4 box; other site 1311759005407 G5 box; other site 1311759005408 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 1311759005409 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1311759005410 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1311759005411 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 1311759005412 putative active site [active] 1311759005413 catalytic residue [active] 1311759005414 GTP-binding protein YchF; Reviewed; Region: PRK09601 1311759005415 YchF GTPase; Region: YchF; cd01900 1311759005416 G1 box; other site 1311759005417 GTP/Mg2+ binding site [chemical binding]; other site 1311759005418 Switch I region; other site 1311759005419 G2 box; other site 1311759005420 Switch II region; other site 1311759005421 G3 box; other site 1311759005422 G4 box; other site 1311759005423 G5 box; other site 1311759005424 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 1311759005425 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1311759005426 L-lactate permease; Region: Lactate_perm; cl00701 1311759005427 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1311759005428 Cysteine-rich domain; Region: CCG; pfam02754 1311759005429 Cysteine-rich domain; Region: CCG; pfam02754 1311759005430 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1311759005431 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1311759005432 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 1311759005433 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1311759005434 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1311759005435 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1311759005436 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 1311759005437 ribonuclease PH; Reviewed; Region: rph; PRK00173 1311759005438 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1311759005439 hexamer interface [polypeptide binding]; other site 1311759005440 active site 1311759005441 hypothetical protein; Provisional; Region: PRK11820 1311759005442 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1311759005443 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1311759005444 putative global regulator; Reviewed; Region: PRK09559 1311759005445 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1311759005446 ferredoxin; Validated; Region: PRK07118 1311759005447 D-ribose pyranase; Provisional; Region: PRK11797 1311759005448 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1311759005449 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1311759005450 Walker A/P-loop; other site 1311759005451 ATP binding site [chemical binding]; other site 1311759005452 Q-loop/lid; other site 1311759005453 ABC transporter signature motif; other site 1311759005454 Walker B; other site 1311759005455 D-loop; other site 1311759005456 H-loop/switch region; other site 1311759005457 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1311759005458 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311759005459 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 1311759005460 TM-ABC transporter signature motif; other site 1311759005461 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1311759005462 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1311759005463 ligand binding site [chemical binding]; other site 1311759005464 dimerization interface [polypeptide binding]; other site 1311759005465 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1311759005466 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 1311759005467 substrate binding site [chemical binding]; other site 1311759005468 dimer interface [polypeptide binding]; other site 1311759005469 ATP binding site [chemical binding]; other site 1311759005470 transcriptional repressor RbsR; Provisional; Region: PRK10423 1311759005471 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311759005472 DNA binding site [nucleotide binding] 1311759005473 domain linker motif; other site 1311759005474 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 1311759005475 dimerization interface [polypeptide binding]; other site 1311759005476 ligand binding site [chemical binding]; other site 1311759005477 transcriptional regulator NarP; Provisional; Region: PRK10403 1311759005478 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 1311759005479 active site 1311759005480 phosphorylation site [posttranslational modification] 1311759005481 intermolecular recognition site; other site 1311759005482 dimerization interface [polypeptide binding]; other site 1311759005483 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 1311759005484 DNA binding residues [nucleotide binding] 1311759005485 dimerization interface [polypeptide binding]; other site 1311759005486 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1311759005487 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1311759005488 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1311759005489 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1311759005490 putative RNA binding site [nucleotide binding]; other site 1311759005491 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 1311759005492 S-adenosylmethionine binding site [chemical binding]; other site 1311759005493 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1311759005494 BRO family, N-terminal domain; Region: Bro-N; smart01040 1311759005495 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1311759005496 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 1311759005497 active site 1311759005498 trimer interface [polypeptide binding]; other site 1311759005499 allosteric site; other site 1311759005500 active site lid [active] 1311759005501 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1311759005502 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1311759005503 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 1311759005504 active site 1311759005505 dimer interface [polypeptide binding]; other site 1311759005506 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1311759005507 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1311759005508 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1311759005509 active site 1311759005510 HIGH motif; other site 1311759005511 dimer interface [polypeptide binding]; other site 1311759005512 KMSKS motif; other site 1311759005513 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 1311759005514 RNA binding surface [nucleotide binding]; other site 1311759005515 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1311759005516 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1311759005517 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1311759005518 active site 1311759005519 catalytic residues [active] 1311759005520 metal binding site [ion binding]; metal-binding site 1311759005521 homodimer binding site [polypeptide binding]; other site 1311759005522 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 1311759005523 carboxyltransferase (CT) interaction site; other site 1311759005524 biotinylation site [posttranslational modification]; other site 1311759005525 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1311759005526 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1311759005527 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1311759005528 putative active site [active] 1311759005529 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1311759005530 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1311759005531 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1311759005532 DNA ligase; Provisional; Region: PRK09125 1311759005533 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1311759005534 DNA binding site [nucleotide binding] 1311759005535 active site 1311759005536 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 1311759005537 DNA binding site [nucleotide binding] 1311759005538 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1311759005539 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1311759005540 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1311759005541 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1311759005542 G1 box; other site 1311759005543 GTP/Mg2+ binding site [chemical binding]; other site 1311759005544 Switch I region; other site 1311759005545 G2 box; other site 1311759005546 G3 box; other site 1311759005547 Switch II region; other site 1311759005548 G4 box; other site 1311759005549 G5 box; other site 1311759005550 RNase E inhibitor protein; Provisional; Region: PRK11191 1311759005551 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1311759005552 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 1311759005553 CPxP motif; other site 1311759005554 proline dipeptidase; Provisional; Region: PRK13607 1311759005555 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 1311759005556 active site 1311759005557 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1311759005558 EamA-like transporter family; Region: EamA; pfam00892 1311759005559 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1311759005560 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1311759005561 active site 1311759005562 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1311759005563 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1311759005564 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1311759005565 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 1311759005566 putative NADH binding site [chemical binding]; other site 1311759005567 putative active site [active] 1311759005568 nudix motif; other site 1311759005569 putative metal binding site [ion binding]; other site 1311759005570 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1311759005571 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1311759005572 active site 1311759005573 dimer interface [polypeptide binding]; other site 1311759005574 catalytic residues [active] 1311759005575 effector binding site; other site 1311759005576 R2 peptide binding site; other site 1311759005577 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1311759005578 dimer interface [polypeptide binding]; other site 1311759005579 putative radical transfer pathway; other site 1311759005580 diiron center [ion binding]; other site 1311759005581 tyrosyl radical; other site 1311759005582 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1311759005583 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 1311759005584 FMN binding site [chemical binding]; other site 1311759005585 active site 1311759005586 catalytic residues [active] 1311759005587 substrate binding site [chemical binding]; other site 1311759005588 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 1311759005589 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1311759005590 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 1311759005591 substrate binding site [chemical binding]; other site 1311759005592 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1311759005593 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1311759005594 substrate binding site [chemical binding]; other site 1311759005595 ligand binding site [chemical binding]; other site 1311759005596 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1311759005597 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1311759005598 peptide binding site [polypeptide binding]; other site 1311759005599 Acylphosphatase; Region: Acylphosphatase; cl00551 1311759005600 aminopeptidase N; Provisional; Region: pepN; PRK14015 1311759005601 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1311759005602 active site 1311759005603 Zn binding site [ion binding]; other site 1311759005604 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1311759005605 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1311759005606 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1311759005607 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1311759005608 aromatic amino acid transport protein; Region: araaP; TIGR00837 1311759005609 transcription-repair coupling factor; Provisional; Region: PRK10689 1311759005610 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1311759005611 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 1311759005612 ATP binding site [chemical binding]; other site 1311759005613 putative Mg++ binding site [ion binding]; other site 1311759005614 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 1311759005615 nucleotide binding region [chemical binding]; other site 1311759005616 ATP-binding site [chemical binding]; other site 1311759005617 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1311759005618 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1311759005619 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1311759005620 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1311759005621 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 1311759005622 oligomeric interface; other site 1311759005623 putative active site [active] 1311759005624 homodimer interface [polypeptide binding]; other site 1311759005625 peptidase T; Region: peptidase-T; TIGR01882 1311759005626 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1311759005627 metal binding site [ion binding]; metal-binding site 1311759005628 dimer interface [polypeptide binding]; other site 1311759005629 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1311759005630 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1311759005631 putative NAD(P) binding site [chemical binding]; other site 1311759005632 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1311759005633 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 1311759005634 ABC-ATPase subunit interface; other site 1311759005635 dimer interface [polypeptide binding]; other site 1311759005636 putative PBP binding regions; other site 1311759005637 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1311759005638 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 1311759005639 ABC-ATPase subunit interface; other site 1311759005640 dimer interface [polypeptide binding]; other site 1311759005641 putative PBP binding regions; other site 1311759005642 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1311759005643 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 1311759005644 metal binding site [ion binding]; metal-binding site 1311759005645 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1311759005646 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 1311759005647 FeS/SAM binding site; other site 1311759005648 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 1311759005649 non-specific DNA binding site [nucleotide binding]; other site 1311759005650 salt bridge; other site 1311759005651 sequence-specific DNA binding site [nucleotide binding]; other site 1311759005652 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1311759005653 TPR repeat; Region: TPR_11; pfam13414 1311759005654 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 1311759005655 binding surface 1311759005656 TPR motif; other site 1311759005657 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1311759005658 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1311759005659 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1311759005660 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 1311759005661 RNA binding site [nucleotide binding]; other site 1311759005662 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 1311759005663 putative FMN binding site [chemical binding]; other site 1311759005664 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1311759005665 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1311759005666 Na binding site [ion binding]; other site 1311759005667 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 1311759005668 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 1311759005669 dimer interface [polypeptide binding]; other site 1311759005670 substrate binding site [chemical binding]; other site 1311759005671 ATP binding site [chemical binding]; other site 1311759005672 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 1311759005673 thiamine phosphate binding site [chemical binding]; other site 1311759005674 active site 1311759005675 pyrophosphate binding site [ion binding]; other site 1311759005676 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 1311759005677 metabolite-proton symporter; Region: 2A0106; TIGR00883 1311759005678 putative substrate translocation pore; other site 1311759005679 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 1311759005680 substrate binding site [chemical binding]; other site 1311759005681 multimerization interface [polypeptide binding]; other site 1311759005682 ATP binding site [chemical binding]; other site 1311759005683 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 1311759005684 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1311759005685 effector binding site; other site 1311759005686 active site 1311759005687 Zn binding site [ion binding]; other site 1311759005688 glycine loop; other site 1311759005689 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1311759005690 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1311759005691 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1311759005692 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1311759005693 PYR/PP interface [polypeptide binding]; other site 1311759005694 dimer interface [polypeptide binding]; other site 1311759005695 TPP binding site [chemical binding]; other site 1311759005696 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1311759005697 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 1311759005698 TPP-binding site [chemical binding]; other site 1311759005699 dimer interface [polypeptide binding]; other site 1311759005700 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1311759005701 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1311759005702 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1311759005703 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 1311759005704 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1311759005705 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 1311759005706 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1311759005707 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1311759005708 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 1311759005709 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 1311759005710 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 1311759005711 binding surface 1311759005712 TPR motif; other site 1311759005713 serine endoprotease; Provisional; Region: PRK10942 1311759005714 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1311759005715 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 1311759005716 protein binding site [polypeptide binding]; other site 1311759005717 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 1311759005718 protein binding site [polypeptide binding]; other site 1311759005719 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1311759005720 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1311759005721 Walker A/P-loop; other site 1311759005722 ATP binding site [chemical binding]; other site 1311759005723 Q-loop/lid; other site 1311759005724 ABC transporter signature motif; other site 1311759005725 Walker B; other site 1311759005726 D-loop; other site 1311759005727 H-loop/switch region; other site 1311759005728 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1311759005729 conserved hypothetical integral membrane protein; Region: TIGR00056 1311759005730 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1311759005731 mce related protein; Region: MCE; pfam02470 1311759005732 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1311759005733 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 1311759005734 anti sigma factor interaction site; other site 1311759005735 regulatory phosphorylation site [posttranslational modification]; other site 1311759005736 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1311759005737 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1311759005738 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 1311759005739 hinge; other site 1311759005740 active site 1311759005741 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 1311759005742 active site 1311759005743 putative DNA-binding cleft [nucleotide binding]; other site 1311759005744 dimer interface [polypeptide binding]; other site 1311759005745 hypothetical protein; Validated; Region: PRK00110 1311759005746 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 1311759005747 nudix motif; other site 1311759005748 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1311759005749 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1311759005750 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 1311759005751 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1311759005752 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1311759005753 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1311759005754 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 1311759005755 dimer interface [polypeptide binding]; other site 1311759005756 anticodon binding site; other site 1311759005757 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 1311759005758 homodimer interface [polypeptide binding]; other site 1311759005759 motif 1; other site 1311759005760 active site 1311759005761 motif 2; other site 1311759005762 GAD domain; Region: GAD; pfam02938 1311759005763 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 1311759005764 active site 1311759005765 motif 3; other site 1311759005766 Predicted membrane protein [Function unknown]; Region: COG2431 1311759005767 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1311759005768 active site 1311759005769 DNA polymerase IV; Validated; Region: PRK02406 1311759005770 DNA binding site [nucleotide binding] 1311759005771 heat shock protein HtpX; Provisional; Region: PRK05457 1311759005772 Predicted membrane protein [Function unknown]; Region: COG1238 1311759005773 formate transporter FocA; Region: formate_focA; TIGR04060 1311759005774 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1311759005775 Pyruvate formate lyase 1; Region: PFL1; cd01678 1311759005776 coenzyme A binding site [chemical binding]; other site 1311759005777 active site 1311759005778 catalytic residues [active] 1311759005779 glycine loop; other site 1311759005780 Virulence protein [General function prediction only]; Region: COG3943 1311759005781 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1311759005782 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1311759005783 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 1311759005784 FeS/SAM binding site; other site 1311759005785 oligopeptidase A; Provisional; Region: PRK10911 1311759005786 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1311759005787 active site 1311759005788 Zn binding site [ion binding]; other site 1311759005789 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1311759005790 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1311759005791 Prephenate dehydratase; Region: PDT; pfam00800 1311759005792 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 1311759005793 putative L-Phe binding site [chemical binding]; other site 1311759005794 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1311759005795 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; cl00258 1311759005796 dimerization interface [polypeptide binding]; other site 1311759005797 metal binding site [ion binding]; metal-binding site 1311759005798 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759005799 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759005800 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759005801 Integrase core domain; Region: rve; pfam00665 1311759005802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759005803 Integrase core domain; Region: rve_3; pfam13683 1311759005804 adenylate kinase; Reviewed; Region: adk; PRK00279 1311759005805 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 1311759005806 AMP-binding site [chemical binding]; other site 1311759005807 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1311759005808 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1311759005809 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 1311759005810 N-terminal plug; other site 1311759005811 ligand-binding site [chemical binding]; other site 1311759005812 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1311759005813 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 1311759005814 ABC-ATPase subunit interface; other site 1311759005815 dimer interface [polypeptide binding]; other site 1311759005816 putative PBP binding regions; other site 1311759005817 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 1311759005818 ABC-ATPase subunit interface; other site 1311759005819 dimer interface [polypeptide binding]; other site 1311759005820 putative PBP binding regions; other site 1311759005821 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 1311759005822 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1311759005823 intersubunit interface [polypeptide binding]; other site 1311759005824 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1311759005825 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1311759005826 Walker A/P-loop; other site 1311759005827 ATP binding site [chemical binding]; other site 1311759005828 Q-loop/lid; other site 1311759005829 ABC transporter signature motif; other site 1311759005830 Walker B; other site 1311759005831 D-loop; other site 1311759005832 H-loop/switch region; other site 1311759005833 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1311759005834 AmpG-like permease; Region: 2A0125; TIGR00901 1311759005835 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 1311759005836 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1311759005837 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1311759005838 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759005839 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1311759005840 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759005841 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1311759005842 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759005843 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1311759005844 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1311759005845 Walker A/P-loop; other site 1311759005846 ATP binding site [chemical binding]; other site 1311759005847 Q-loop/lid; other site 1311759005848 ABC transporter signature motif; other site 1311759005849 Walker B; other site 1311759005850 D-loop; other site 1311759005851 H-loop/switch region; other site 1311759005852 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1311759005853 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 1311759005854 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 1311759005855 putative PBP binding regions; other site 1311759005856 ABC-ATPase subunit interface; other site 1311759005857 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1311759005858 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1311759005859 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1311759005860 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1311759005861 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 1311759005862 intersubunit interface [polypeptide binding]; other site 1311759005863 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 1311759005864 FAD binding site [chemical binding]; other site 1311759005865 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1311759005866 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1311759005867 NAD binding site [chemical binding]; other site 1311759005868 homodimer interface [polypeptide binding]; other site 1311759005869 active site 1311759005870 substrate binding site [chemical binding]; other site 1311759005871 Trm112p-like protein; Region: Trm112p; cl01066 1311759005872 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1311759005873 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1311759005874 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1311759005875 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 1311759005876 non-specific DNA binding site [nucleotide binding]; other site 1311759005877 salt bridge; other site 1311759005878 sequence-specific DNA binding site [nucleotide binding]; other site 1311759005879 Fic family protein [Function unknown]; Region: COG3177 1311759005880 Fic/DOC family; Region: Fic; pfam02661 1311759005881 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1311759005882 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1311759005883 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 1311759005884 Walker A motif; other site 1311759005885 ATP binding site [chemical binding]; other site 1311759005886 Walker B motif; other site 1311759005887 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1311759005888 Clp protease; Region: CLP_protease; pfam00574 1311759005889 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1311759005890 oligomer interface [polypeptide binding]; other site 1311759005891 active site residues [active] 1311759005892 Fe-S metabolism associated domain; Region: SufE; cl00951 1311759005893 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1311759005894 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 1311759005895 S-adenosylmethionine binding site [chemical binding]; other site 1311759005896 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1311759005897 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1311759005898 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1311759005899 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 1311759005900 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1311759005901 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1311759005902 glutamine binding [chemical binding]; other site 1311759005903 catalytic triad [active] 1311759005904 anthranilate synthase component I; Provisional; Region: PRK13564 1311759005905 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1311759005906 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1311759005907 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1311759005908 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1311759005909 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 1311759005910 RNA binding surface [nucleotide binding]; other site 1311759005911 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1311759005912 probable active site [active] 1311759005913 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 1311759005914 transmembrane helices; other site 1311759005915 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1311759005916 TrkA-C domain; Region: TrkA_C; pfam02080 1311759005917 TrkA-C domain; Region: TrkA_C; pfam02080 1311759005918 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1311759005919 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 1311759005920 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1311759005921 trimer interface [polypeptide binding]; other site 1311759005922 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1311759005923 trimer interface [polypeptide binding]; other site 1311759005924 YadA-like C-terminal region; Region: YadA; pfam03895 1311759005925 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1311759005926 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1311759005927 trimer interface [polypeptide binding]; other site 1311759005928 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1311759005929 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1311759005930 Colicin pore forming domain; Region: Colicin; pfam01024 1311759005931 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1311759005932 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1311759005933 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1311759005934 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1311759005935 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1311759005936 primosomal replication protein N; Provisional; Region: PRK02801 1311759005937 generic binding surface II; other site 1311759005938 generic binding surface I; other site 1311759005939 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1311759005940 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1311759005941 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1311759005942 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1311759005943 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1311759005944 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 1311759005945 active site 1311759005946 catalytic site [active] 1311759005947 substrate binding site [chemical binding]; other site 1311759005948 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1311759005949 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311759005950 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311759005951 ABC transporter; Region: ABC_tran_2; pfam12848 1311759005952 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311759005953 electron transport complex protein RsxA; Provisional; Region: PRK05151 1311759005954 ferredoxin; Provisional; Region: PRK08764 1311759005955 Putative Fe-S cluster; Region: FeS; pfam04060 1311759005956 4Fe-4S binding domain; Region: Fer4; pfam00037 1311759005957 4Fe-4S binding domain; Region: Fer4; cl02805 1311759005958 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1311759005959 SLBB domain; Region: SLBB; pfam10531 1311759005960 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 1311759005961 Predicted membrane protein [Function unknown]; Region: COG2860 1311759005962 UPF0126 domain; Region: UPF0126; pfam03458 1311759005963 UPF0126 domain; Region: UPF0126; pfam03458 1311759005964 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1311759005965 electron transport complex protein RnfG; Validated; Region: PRK01908 1311759005966 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1311759005967 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1311759005968 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1311759005969 putative acyl-acceptor binding pocket; other site 1311759005970 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311759005971 active site 1311759005972 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1311759005973 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1311759005974 Walker A/P-loop; other site 1311759005975 ATP binding site [chemical binding]; other site 1311759005976 Q-loop/lid; other site 1311759005977 ABC transporter signature motif; other site 1311759005978 Walker B; other site 1311759005979 D-loop; other site 1311759005980 H-loop/switch region; other site 1311759005981 inner membrane transport permease; Provisional; Region: PRK15066 1311759005982 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1311759005983 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1311759005984 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1311759005985 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1311759005986 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 1311759005987 putative PBP binding loops; other site 1311759005988 dimer interface [polypeptide binding]; other site 1311759005989 ABC-ATPase subunit interface; other site 1311759005990 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1311759005991 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759005992 Walker A/P-loop; other site 1311759005993 ATP binding site [chemical binding]; other site 1311759005994 Q-loop/lid; other site 1311759005995 ABC transporter signature motif; other site 1311759005996 Walker B; other site 1311759005997 D-loop; other site 1311759005998 H-loop/switch region; other site 1311759005999 TOBE domain; Region: TOBE; cl01440 1311759006000 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1311759006001 putative coenzyme Q binding site [chemical binding]; other site 1311759006002 hypothetical protein; Validated; Region: PRK01777 1311759006003 benzoate transport; Region: 2A0115; TIGR00895 1311759006004 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 1311759006005 putative substrate translocation pore; other site 1311759006006 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 1311759006007 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1311759006008 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1311759006009 metal binding site [ion binding]; metal-binding site 1311759006010 dimer interface [polypeptide binding]; other site 1311759006011 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1311759006012 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1311759006013 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1311759006014 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311759006015 active site 1311759006016 Guanylate kinase; Region: Guanylate_kin; pfam00625 1311759006017 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 1311759006018 catalytic site [active] 1311759006019 G-X2-G-X-G-K; other site 1311759006020 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1311759006021 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1311759006022 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1311759006023 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1311759006024 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1311759006025 4Fe-4S binding domain; Region: Fer4; pfam00037 1311759006026 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1311759006027 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1311759006028 PIN domain; Region: PIN_3; cl17397 1311759006029 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1311759006030 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 1311759006031 dimer interface [polypeptide binding]; other site 1311759006032 phosphorylation site [posttranslational modification] 1311759006033 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 1311759006034 ATP binding site [chemical binding]; other site 1311759006035 Mg2+ binding site [ion binding]; other site 1311759006036 G-X-G motif; other site 1311759006037 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1311759006038 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 1311759006039 active site 1311759006040 phosphorylation site [posttranslational modification] 1311759006041 intermolecular recognition site; other site 1311759006042 dimerization interface [polypeptide binding]; other site 1311759006043 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 1311759006044 DNA binding residues [nucleotide binding] 1311759006045 dimerization interface [polypeptide binding]; other site 1311759006046 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1311759006047 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 1311759006048 Ligand Binding Site [chemical binding]; other site 1311759006049 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1311759006050 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 1311759006051 S-adenosylmethionine binding site [chemical binding]; other site 1311759006052 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1311759006053 DNA gyrase subunit A; Validated; Region: PRK05560 1311759006054 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 1311759006055 CAP-like domain; other site 1311759006056 active site 1311759006057 primary dimer interface [polypeptide binding]; other site 1311759006058 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311759006059 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311759006060 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311759006061 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311759006062 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311759006063 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311759006064 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 1311759006065 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1311759006066 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 1311759006067 S-adenosylmethionine binding site [chemical binding]; other site 1311759006068 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759006069 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1311759006070 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311759006071 AAA domain; Region: AAA_13; pfam13166 1311759006072 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1311759006073 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1311759006074 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 1311759006075 ATP binding site [chemical binding]; other site 1311759006076 putative Mg++ binding site [ion binding]; other site 1311759006077 ABC transporter ATPase component; Reviewed; Region: PRK11147 1311759006078 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311759006079 Walker A/P-loop; other site 1311759006080 ATP binding site [chemical binding]; other site 1311759006081 ABC transporter signature motif; other site 1311759006082 Walker B; other site 1311759006083 D-loop; other site 1311759006084 H-loop/switch region; other site 1311759006085 ABC transporter; Region: ABC_tran_2; pfam12848 1311759006086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311759006087 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1311759006088 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 1311759006089 putative ATP binding site [chemical binding]; other site 1311759006090 putative substrate interface [chemical binding]; other site 1311759006091 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1311759006092 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1311759006093 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1311759006094 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1311759006095 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 1311759006096 putative active site [active] 1311759006097 putative metal-binding site [ion binding]; other site 1311759006098 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1311759006099 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1311759006100 Walker A/P-loop; other site 1311759006101 ATP binding site [chemical binding]; other site 1311759006102 Q-loop/lid; other site 1311759006103 ABC transporter signature motif; other site 1311759006104 Walker B; other site 1311759006105 D-loop; other site 1311759006106 H-loop/switch region; other site 1311759006107 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 1311759006108 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 1311759006109 dimer interface [polypeptide binding]; other site 1311759006110 conserved gate region; other site 1311759006111 ABC-ATPase subunit interface; other site 1311759006112 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1311759006113 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1311759006114 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1311759006115 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1311759006116 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1311759006117 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1311759006118 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1311759006119 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1311759006120 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1311759006121 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1311759006122 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1311759006123 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1311759006124 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 1311759006125 CAS motifs; other site 1311759006126 active site 1311759006127 hypothetical protein; Provisional; Region: PRK04860 1311759006128 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1311759006129 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1311759006130 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1311759006131 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1311759006132 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1311759006133 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1311759006134 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1311759006135 Protein export membrane protein; Region: SecD_SecF; pfam02355 1311759006136 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1311759006137 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1311759006138 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1311759006139 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1311759006140 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1311759006141 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1311759006142 active site 1311759006143 catalytic residues [active] 1311759006144 galactokinase; Provisional; Region: PRK05101 1311759006145 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1311759006146 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1311759006147 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1311759006148 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1311759006149 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 1311759006150 dimer interface [polypeptide binding]; other site 1311759006151 active site 1311759006152 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 1311759006153 phosphodiesterase YaeI; Provisional; Region: PRK11340 1311759006154 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1311759006155 putative active site [active] 1311759006156 putative metal binding site [ion binding]; other site 1311759006157 Predicted permeases [General function prediction only]; Region: COG0679 1311759006158 peptide chain release factor 2; Provisional; Region: PRK08787 1311759006159 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1311759006160 RF-1 domain; Region: RF-1; pfam00472 1311759006161 WYL domain; Region: WYL; pfam13280 1311759006162 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 1311759006163 active site 1311759006164 NAD-dependent deacetylase; Provisional; Region: PRK14138 1311759006165 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; cd00296 1311759006166 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759006167 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759006168 Integrase core domain; Region: rve; pfam00665 1311759006169 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759006170 Integrase core domain; Region: rve_3; pfam13683 1311759006171 Protein of unknown function DUF262; Region: DUF262; pfam03235 1311759006172 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1311759006173 selenophosphate synthetase; Provisional; Region: PRK00943 1311759006174 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 1311759006175 dimerization interface [polypeptide binding]; other site 1311759006176 putative ATP binding site [chemical binding]; other site 1311759006177 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 1311759006178 nudix motif; other site 1311759006179 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1311759006180 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1311759006181 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1311759006182 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 1311759006183 active site 1311759006184 FMN binding site [chemical binding]; other site 1311759006185 substrate binding site [chemical binding]; other site 1311759006186 catalytic residues [active] 1311759006187 homodimer interface [polypeptide binding]; other site 1311759006188 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 1311759006189 enolase; Provisional; Region: eno; PRK00077 1311759006190 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 1311759006191 dimer interface [polypeptide binding]; other site 1311759006192 metal binding site [ion binding]; metal-binding site 1311759006193 substrate binding pocket [chemical binding]; other site 1311759006194 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 1311759006195 sequence-specific DNA binding site [nucleotide binding]; other site 1311759006196 Predicted transcriptional regulator [Transcription]; Region: COG2932 1311759006197 salt bridge; other site 1311759006198 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 1311759006199 Catalytic site [active] 1311759006200 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1311759006201 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1311759006202 Integrase core domain; Region: rve; pfam00665 1311759006203 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1311759006204 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1311759006205 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311759006206 DNA binding site [nucleotide binding] 1311759006207 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 1311759006208 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1311759006209 AntA/AntB antirepressor; Region: AntA; pfam08346 1311759006210 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1311759006211 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1311759006212 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1311759006213 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1311759006214 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1311759006215 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1311759006216 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 1311759006217 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1311759006218 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1311759006219 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1311759006220 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 1311759006221 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 1311759006222 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 1311759006223 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 1311759006224 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1311759006225 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 1311759006226 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 1311759006227 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 1311759006228 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1311759006229 Phage tail tube protein; Region: Tail_tube; pfam10618 1311759006230 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1311759006231 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 1311759006232 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 1311759006233 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 1311759006234 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1311759006235 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 1311759006236 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1311759006237 Phage protein GP46; Region: GP46; cl01814 1311759006238 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1311759006239 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 1311759006240 Catalytic beta propeller domain of bacteriophage endosialidase; Region: End_beta_propel; cl12167 1311759006241 Catalytic domain of bacteriophage endosialidase; Region: End_tail_spike; pfam12219 1311759006242 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 1311759006243 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1311759006244 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1311759006245 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 1311759006246 active site 1311759006247 catalytic residues [active] 1311759006248 DNA binding site [nucleotide binding] 1311759006249 Int/Topo IB signature motif; other site 1311759006250 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1311759006251 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1311759006252 E-class dimer interface [polypeptide binding]; other site 1311759006253 P-class dimer interface [polypeptide binding]; other site 1311759006254 active site 1311759006255 Cu2+ binding site [ion binding]; other site 1311759006256 Zn2+ binding site [ion binding]; other site 1311759006257 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 1311759006258 beta-hexosaminidase; Provisional; Region: PRK05337 1311759006259 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1311759006260 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1311759006261 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 1311759006262 putative DNA-binding cleft [nucleotide binding]; other site 1311759006263 putative DNA clevage site; other site 1311759006264 molecular lever; other site 1311759006265 LexA repressor; Validated; Region: PRK00215 1311759006266 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1311759006267 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 1311759006268 Catalytic site [active] 1311759006269 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1311759006270 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1311759006271 putative acyl-acceptor binding pocket; other site 1311759006272 Predicted membrane protein [Function unknown]; Region: COG1584 1311759006273 Cupin; Region: Cupin_6; pfam12852 1311759006274 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759006275 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1311759006276 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311759006277 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1311759006278 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 1311759006279 active site residue [active] 1311759006280 Predicted membrane protein [Function unknown]; Region: COG3059 1311759006281 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1311759006282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1311759006283 ATP-grasp domain; Region: ATP-grasp; pfam02222 1311759006284 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1311759006285 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1311759006286 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 1311759006287 active site turn [active] 1311759006288 phosphorylation site [posttranslational modification] 1311759006289 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1311759006290 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1311759006291 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1311759006292 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1311759006293 YccA-like proteins; Region: YccA_like; cd10433 1311759006294 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1311759006295 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1311759006296 GIY-YIG motif/motif A; other site 1311759006297 active site 1311759006298 catalytic site [active] 1311759006299 putative DNA binding site [nucleotide binding]; other site 1311759006300 metal binding site [ion binding]; metal-binding site 1311759006301 UvrB/uvrC motif; Region: UVR; pfam02151 1311759006302 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1311759006303 Helix-hairpin-helix motif; Region: HHH; pfam00633 1311759006304 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1311759006305 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1311759006306 23S rRNA binding site [nucleotide binding]; other site 1311759006307 L21 binding site [polypeptide binding]; other site 1311759006308 L13 binding site [polypeptide binding]; other site 1311759006309 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1311759006310 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1311759006311 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 1311759006312 ATP binding site [chemical binding]; other site 1311759006313 putative Mg++ binding site [ion binding]; other site 1311759006314 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 1311759006315 nucleotide binding region [chemical binding]; other site 1311759006316 ATP-binding site [chemical binding]; other site 1311759006317 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1311759006318 HRDC domain; Region: HRDC; pfam00570 1311759006319 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1311759006320 putative iron binding site [ion binding]; other site 1311759006321 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 1311759006322 UGMP family protein; Validated; Region: PRK09604 1311759006323 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1311759006324 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1311759006325 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1311759006326 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 1311759006327 RNA binding surface [nucleotide binding]; other site 1311759006328 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1311759006329 active site 1311759006330 Entericidin EcnA/B family; Region: Entericidin; cl02322 1311759006331 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 1311759006332 30S subunit binding site; other site 1311759006333 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1311759006334 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1311759006335 putative acyl-acceptor binding pocket; other site 1311759006336 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1311759006337 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1311759006338 dimer interface [polypeptide binding]; other site 1311759006339 active site 1311759006340 catalytic residue [active] 1311759006341 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1311759006342 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1311759006343 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1311759006344 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1311759006345 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 1311759006346 purine monophosphate binding site [chemical binding]; other site 1311759006347 dimer interface [polypeptide binding]; other site 1311759006348 putative catalytic residues [active] 1311759006349 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1311759006350 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1311759006351 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1311759006352 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1311759006353 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1311759006354 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1311759006355 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1311759006356 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1311759006357 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 1311759006358 active site 1311759006359 multimer interface [polypeptide binding]; other site 1311759006360 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1311759006361 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1311759006362 active site 1311759006363 HIGH motif; other site 1311759006364 KMSKS motif; other site 1311759006365 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1311759006366 tRNA binding surface [nucleotide binding]; other site 1311759006367 anticodon binding site; other site 1311759006368 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 1311759006369 dimer interface [polypeptide binding]; other site 1311759006370 putative tRNA-binding site [nucleotide binding]; other site 1311759006371 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1311759006372 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 1311759006373 active site 1311759006374 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1311759006375 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 1311759006376 RNA binding surface [nucleotide binding]; other site 1311759006377 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1311759006378 active site 1311759006379 uracil binding [chemical binding]; other site 1311759006380 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1311759006381 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 1311759006382 putative substrate translocation pore; other site 1311759006383 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1311759006384 TRAM domain; Region: TRAM; pfam01938 1311759006385 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 1311759006386 S-adenosylmethionine binding site [chemical binding]; other site 1311759006387 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1311759006388 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1311759006389 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1311759006390 ATP-dependent helicase HepA; Validated; Region: PRK04914 1311759006391 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 1311759006392 ATP binding site [chemical binding]; other site 1311759006393 putative Mg++ binding site [ion binding]; other site 1311759006394 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 1311759006395 nucleotide binding region [chemical binding]; other site 1311759006396 ATP-binding site [chemical binding]; other site 1311759006397 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1311759006398 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1311759006399 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1311759006400 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1311759006401 active site 1311759006402 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1311759006403 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 1311759006404 amidase catalytic site [active] 1311759006405 Zn binding residues [ion binding]; other site 1311759006406 substrate binding site [chemical binding]; other site 1311759006407 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1311759006408 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311759006409 active site 1311759006410 cystathionine beta-lyase; Provisional; Region: PRK08114 1311759006411 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 1311759006412 homodimer interface [polypeptide binding]; other site 1311759006413 substrate-cofactor binding pocket; other site 1311759006414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311759006415 catalytic residue [active] 1311759006416 disulfide bond formation protein B; Provisional; Region: PRK01749 1311759006417 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1311759006418 fatty acid metabolism regulator; Provisional; Region: PRK04984 1311759006419 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311759006420 DNA-binding site [nucleotide binding]; DNA binding site 1311759006421 FadR C-terminal domain; Region: FadR_C; pfam07840 1311759006422 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1311759006423 PhoH-like protein; Region: PhoH; pfam02562 1311759006424 transketolase; Reviewed; Region: PRK12753 1311759006425 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 1311759006426 TPP-binding site [chemical binding]; other site 1311759006427 dimer interface [polypeptide binding]; other site 1311759006428 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 1311759006429 PYR/PP interface [polypeptide binding]; other site 1311759006430 dimer interface [polypeptide binding]; other site 1311759006431 TPP binding site [chemical binding]; other site 1311759006432 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1311759006433 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1311759006434 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1311759006435 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 1311759006436 putative active site [active] 1311759006437 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1311759006438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311759006439 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 1311759006440 putative dimerization interface [polypeptide binding]; other site 1311759006441 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1311759006442 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1311759006443 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 1311759006444 Walker A motif; other site 1311759006445 ATP binding site [chemical binding]; other site 1311759006446 Walker B motif; other site 1311759006447 arginine finger; other site 1311759006448 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1311759006449 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1311759006450 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 1311759006451 catalytic motif [active] 1311759006452 Zn binding site [ion binding]; other site 1311759006453 RibD C-terminal domain; Region: RibD_C; cl17279 1311759006454 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1311759006455 Lumazine binding domain; Region: Lum_binding; pfam00677 1311759006456 Lumazine binding domain; Region: Lum_binding; pfam00677 1311759006457 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1311759006458 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1311759006459 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 1311759006460 dimerization interface [polypeptide binding]; other site 1311759006461 active site 1311759006462 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 1311759006463 homopentamer interface [polypeptide binding]; other site 1311759006464 active site 1311759006465 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1311759006466 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1311759006467 putative active site [active] 1311759006468 catalytic triad [active] 1311759006469 putative dimer interface [polypeptide binding]; other site 1311759006470 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1311759006471 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 1311759006472 Transporter associated domain; Region: CorC_HlyC; smart01091 1311759006473 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 1311759006474 hypothetical protein; Provisional; Region: PRK03641 1311759006475 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759006476 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759006477 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759006478 Integrase core domain; Region: rve; pfam00665 1311759006479 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759006480 Integrase core domain; Region: rve_3; pfam13683 1311759006481 polysaccharide export protein Wza; Provisional; Region: PRK15078 1311759006482 methionine aminopeptidase; Provisional; Region: PLN03158 1311759006483 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1311759006484 endonuclease IV; Provisional; Region: PRK01060 1311759006485 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 1311759006486 AP (apurinic/apyrimidinic) site pocket; other site 1311759006487 DNA interaction; other site 1311759006488 Metal-binding active site; metal-binding site 1311759006489 NlpC/P60 family; Region: NLPC_P60; pfam00877 1311759006490 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 1311759006491 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1311759006492 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1311759006493 ligand binding site [chemical binding]; other site 1311759006494 active site 1311759006495 UGI interface [polypeptide binding]; other site 1311759006496 catalytic site [active] 1311759006497 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1311759006498 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 1311759006499 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1311759006500 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1311759006501 catalytic triad [active] 1311759006502 putative active site [active] 1311759006503 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1311759006504 Predicted membrane protein [Function unknown]; Region: COG2707 1311759006505 GrpE; Region: GrpE; pfam01025 1311759006506 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 1311759006507 dimer interface [polypeptide binding]; other site 1311759006508 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1311759006509 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1311759006510 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1311759006511 multidrug efflux protein; Reviewed; Region: PRK01766 1311759006512 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1311759006513 cation binding site [ion binding]; other site 1311759006514 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1311759006515 Part of AAA domain; Region: AAA_19; pfam13245 1311759006516 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1311759006517 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1311759006518 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1311759006519 aminopeptidase B; Provisional; Region: PRK05015 1311759006520 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 1311759006521 interface (dimer of trimers) [polypeptide binding]; other site 1311759006522 Substrate-binding/catalytic site; other site 1311759006523 Zn-binding sites [ion binding]; other site 1311759006524 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 1311759006525 Sodium Bile acid symporter family; Region: SBF; pfam01758 1311759006526 bile acid transporter; Region: bass; TIGR00841 1311759006527 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1311759006528 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1311759006529 HlyD family secretion protein; Region: HlyD_3; pfam13437 1311759006530 putative hydrolase; Provisional; Region: PRK10976 1311759006531 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 1311759006532 active site 1311759006533 motif I; other site 1311759006534 motif II; other site 1311759006535 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311759006536 2-isopropylmalate synthase; Validated; Region: PRK00915 1311759006537 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1311759006538 active site 1311759006539 catalytic residues [active] 1311759006540 metal binding site [ion binding]; metal-binding site 1311759006541 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1311759006542 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1311759006543 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1311759006544 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 1311759006545 DNA binding residues [nucleotide binding] 1311759006546 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1311759006547 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1311759006548 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1311759006549 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1311759006550 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1311759006551 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1311759006552 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1311759006553 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1311759006554 acyl-activating enzyme (AAE) consensus motif; other site 1311759006555 putative AMP binding site [chemical binding]; other site 1311759006556 putative active site [active] 1311759006557 putative CoA binding site [chemical binding]; other site 1311759006558 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311759006559 active site 1311759006560 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1311759006561 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 1311759006562 S-adenosylmethionine binding site [chemical binding]; other site 1311759006563 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1311759006564 SurA N-terminal domain; Region: SurA_N; pfam09312 1311759006565 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1311759006566 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1311759006567 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311759006568 active site 1311759006569 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1311759006570 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 1311759006571 putative ribose interaction site [chemical binding]; other site 1311759006572 putative ADP binding site [chemical binding]; other site 1311759006573 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1311759006574 active site 1311759006575 nucleotide binding site [chemical binding]; other site 1311759006576 HIGH motif; other site 1311759006577 KMSKS motif; other site 1311759006578 GTP-binding protein Der; Reviewed; Region: PRK00093 1311759006579 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1311759006580 G1 box; other site 1311759006581 GTP/Mg2+ binding site [chemical binding]; other site 1311759006582 Switch I region; other site 1311759006583 G2 box; other site 1311759006584 Switch II region; other site 1311759006585 G3 box; other site 1311759006586 G4 box; other site 1311759006587 G5 box; other site 1311759006588 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1311759006589 G1 box; other site 1311759006590 GTP/Mg2+ binding site [chemical binding]; other site 1311759006591 Switch I region; other site 1311759006592 G2 box; other site 1311759006593 G3 box; other site 1311759006594 Switch II region; other site 1311759006595 G4 box; other site 1311759006596 G5 box; other site 1311759006597 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1311759006598 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1311759006599 tRNA; other site 1311759006600 putative tRNA binding site [nucleotide binding]; other site 1311759006601 putative NADP binding site [chemical binding]; other site 1311759006602 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1311759006603 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1311759006604 HD domain; Region: HD_4; pfam13328 1311759006605 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1311759006606 synthetase active site [active] 1311759006607 NTP binding site [chemical binding]; other site 1311759006608 metal binding site [ion binding]; metal-binding site 1311759006609 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 1311759006610 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1311759006611 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1311759006612 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1311759006613 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1311759006614 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1311759006615 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1311759006616 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1311759006617 L-aspartate oxidase; Provisional; Region: PRK06175 1311759006618 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1311759006619 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759006620 Walker A/P-loop; other site 1311759006621 ATP binding site [chemical binding]; other site 1311759006622 Q-loop/lid; other site 1311759006623 ABC transporter signature motif; other site 1311759006624 Walker B; other site 1311759006625 D-loop; other site 1311759006626 H-loop/switch region; other site 1311759006627 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1311759006628 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1311759006629 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1311759006630 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 1311759006631 dimer interface [polypeptide binding]; other site 1311759006632 conserved gate region; other site 1311759006633 putative PBP binding loops; other site 1311759006634 ABC-ATPase subunit interface; other site 1311759006635 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1311759006636 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311759006637 Walker A/P-loop; other site 1311759006638 ATP binding site [chemical binding]; other site 1311759006639 Q-loop/lid; other site 1311759006640 ABC transporter signature motif; other site 1311759006641 Walker B; other site 1311759006642 D-loop; other site 1311759006643 H-loop/switch region; other site 1311759006644 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1311759006645 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1311759006646 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 1311759006647 dimer interface [polypeptide binding]; other site 1311759006648 conserved gate region; other site 1311759006649 putative PBP binding loops; other site 1311759006650 ABC-ATPase subunit interface; other site 1311759006651 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1311759006652 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 1311759006653 HemN family oxidoreductase; Provisional; Region: PRK05660 1311759006654 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 1311759006655 FeS/SAM binding site; other site 1311759006656 HemN C-terminal domain; Region: HemN_C; pfam06969 1311759006657 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1311759006658 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1311759006659 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1311759006660 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 1311759006661 catalytic triad [active] 1311759006662 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1311759006663 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 1311759006664 active site 1311759006665 motif I; other site 1311759006666 motif II; other site 1311759006667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1311759006668 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1311759006669 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1311759006670 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1311759006671 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759006672 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759006673 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759006674 Integrase core domain; Region: rve; pfam00665 1311759006675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759006676 Integrase core domain; Region: rve_3; pfam13683 1311759006677 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1311759006678 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 1311759006679 putative active site [active] 1311759006680 HemK family putative methylases; Region: hemK_fam; TIGR00536 1311759006681 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 1311759006682 S-adenosylmethionine binding site [chemical binding]; other site 1311759006683 hypothetical protein; Provisional; Region: PRK04946 1311759006684 Smr domain; Region: Smr; pfam01713 1311759006685 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 1311759006686 putative deacylase active site [active] 1311759006687 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1311759006688 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1311759006689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1311759006690 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 1311759006691 dimer interface [polypeptide binding]; other site 1311759006692 phosphorylation site [posttranslational modification] 1311759006693 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 1311759006694 ATP binding site [chemical binding]; other site 1311759006695 Mg2+ binding site [ion binding]; other site 1311759006696 G-X-G motif; other site 1311759006697 Response regulator receiver domain; Region: Response_reg; pfam00072 1311759006698 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 1311759006699 active site 1311759006700 phosphorylation site [posttranslational modification] 1311759006701 intermolecular recognition site; other site 1311759006702 dimerization interface [polypeptide binding]; other site 1311759006703 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 1311759006704 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1311759006705 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1311759006706 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 1311759006707 DNA binding site [nucleotide binding] 1311759006708 active site 1311759006709 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1311759006710 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1311759006711 Rrf2 family protein; Region: rrf2_super; TIGR00738 1311759006712 cysteine desulfurase; Provisional; Region: PRK14012 1311759006713 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1311759006714 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311759006715 catalytic residue [active] 1311759006716 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1311759006717 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1311759006718 trimerization site [polypeptide binding]; other site 1311759006719 active site 1311759006720 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1311759006721 co-chaperone HscB; Provisional; Region: hscB; PRK01773 1311759006722 DnaJ domain; Region: DnaJ; pfam00226 1311759006723 HSP70 interaction site [polypeptide binding]; other site 1311759006724 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1311759006725 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 1311759006726 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1311759006727 putative active site [active] 1311759006728 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1311759006729 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1311759006730 nucleotide binding site [chemical binding]; other site 1311759006731 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1311759006732 SBD interface [polypeptide binding]; other site 1311759006733 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1311759006734 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 1311759006735 catalytic loop [active] 1311759006736 iron binding site [ion binding]; other site 1311759006737 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1311759006738 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1311759006739 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 1311759006740 gating phenylalanine in ion channel; other site 1311759006741 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1311759006742 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1311759006743 active site 1311759006744 NTP binding site [chemical binding]; other site 1311759006745 metal binding triad [ion binding]; metal-binding site 1311759006746 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1311759006747 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1311759006748 Zn2+ binding site [ion binding]; other site 1311759006749 Mg2+ binding site [ion binding]; other site 1311759006750 endonuclease III; Provisional; Region: PRK10702 1311759006751 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1311759006752 minor groove reading motif; other site 1311759006753 helix-hairpin-helix signature motif; other site 1311759006754 substrate binding pocket [chemical binding]; other site 1311759006755 active site 1311759006756 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1311759006757 hypothetical protein; Provisional; Region: PRK10621 1311759006758 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1311759006759 gamma-glutamyl kinase; Provisional; Region: PRK05429 1311759006760 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 1311759006761 nucleotide binding site [chemical binding]; other site 1311759006762 homotetrameric interface [polypeptide binding]; other site 1311759006763 putative phosphate binding site [ion binding]; other site 1311759006764 putative allosteric binding site; other site 1311759006765 PUA domain; Region: PUA; pfam01472 1311759006766 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1311759006767 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 1311759006768 folate binding site [chemical binding]; other site 1311759006769 NADP+ binding site [chemical binding]; other site 1311759006770 DNA repair protein RadA; Provisional; Region: PRK11823 1311759006771 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 1311759006772 Walker A motif/ATP binding site; other site 1311759006773 ATP binding site [chemical binding]; other site 1311759006774 Walker B motif; other site 1311759006775 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1311759006776 putative major pilin subunit; Provisional; Region: PRK10574 1311759006777 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1311759006778 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1311759006779 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 1311759006780 Walker A motif; other site 1311759006781 ATP binding site [chemical binding]; other site 1311759006782 Walker B motif; other site 1311759006783 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1311759006784 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1311759006785 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1311759006786 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1311759006787 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 1311759006788 CoA-binding site [chemical binding]; other site 1311759006789 ATP-binding [chemical binding]; other site 1311759006790 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1311759006791 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1311759006792 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1311759006793 Lipopolysaccharide-assembly; Region: LptE; cl01125 1311759006794 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1311759006795 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1311759006796 HIGH motif; other site 1311759006797 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1311759006798 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1311759006799 active site 1311759006800 KMSKS motif; other site 1311759006801 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1311759006802 tRNA binding surface [nucleotide binding]; other site 1311759006803 seryl-tRNA synthetase; Provisional; Region: PRK05431 1311759006804 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1311759006805 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 1311759006806 dimer interface [polypeptide binding]; other site 1311759006807 active site 1311759006808 motif 1; other site 1311759006809 motif 2; other site 1311759006810 motif 3; other site 1311759006811 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 1311759006812 SmpB-tmRNA interface; other site 1311759006813 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 1311759006814 salt bridge; other site 1311759006815 non-specific DNA binding site [nucleotide binding]; other site 1311759006816 sequence-specific DNA binding site [nucleotide binding]; other site 1311759006817 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1311759006818 YcjX-like family, DUF463; Region: DUF463; pfam04317 1311759006819 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1311759006820 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1311759006821 putative active site [active] 1311759006822 putative metal binding residues [ion binding]; other site 1311759006823 signature motif; other site 1311759006824 putative triphosphate binding site [ion binding]; other site 1311759006825 hypothetical protein; Provisional; Region: PRK05114 1311759006826 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1311759006827 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1311759006828 probable active site [active] 1311759006829 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1311759006830 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1311759006831 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1311759006832 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1311759006833 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 1311759006834 active site 1311759006835 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 1311759006836 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1311759006837 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1311759006838 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 1311759006839 trimer interface [polypeptide binding]; other site 1311759006840 active site 1311759006841 UDP-GlcNAc binding site [chemical binding]; other site 1311759006842 lipid binding site [chemical binding]; lipid-binding site 1311759006843 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1311759006844 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1311759006845 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1311759006846 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1311759006847 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1311759006848 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1311759006849 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1311759006850 Surface antigen; Region: Bac_surface_Ag; pfam01103 1311759006851 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1311759006852 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 1311759006853 active site 1311759006854 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 1311759006855 protein binding site [polypeptide binding]; other site 1311759006856 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 1311759006857 protein binding site [polypeptide binding]; other site 1311759006858 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 1311759006859 putative substrate binding region [chemical binding]; other site 1311759006860 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1311759006861 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1311759006862 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1311759006863 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 1311759006864 catalytic residue [active] 1311759006865 putative FPP diphosphate binding site; other site 1311759006866 putative FPP binding hydrophobic cleft; other site 1311759006867 dimer interface [polypeptide binding]; other site 1311759006868 putative IPP diphosphate binding site; other site 1311759006869 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1311759006870 biotin synthase; Region: bioB; TIGR00433 1311759006871 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 1311759006872 FeS/SAM binding site; other site 1311759006873 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1311759006874 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1311759006875 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 1311759006876 active site 1311759006877 substrate-binding site [chemical binding]; other site 1311759006878 metal-binding site [ion binding] 1311759006879 ATP binding site [chemical binding]; other site 1311759006880 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1311759006881 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1311759006882 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1311759006883 substrate binding site; other site 1311759006884 dimer interface; other site 1311759006885 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 1311759006886 homotrimer interaction site [polypeptide binding]; other site 1311759006887 zinc binding site [ion binding]; other site 1311759006888 CDP-binding sites; other site 1311759006889 Repair protein; Region: Repair_PSII; pfam04536 1311759006890 Repair protein; Region: Repair_PSII; cl01535 1311759006891 LemA family; Region: LemA; pfam04011 1311759006892 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1311759006893 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1311759006894 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1311759006895 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 1311759006896 active site 1311759006897 P-loop; other site 1311759006898 phosphorylation site [posttranslational modification] 1311759006899 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1311759006900 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1311759006901 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 1311759006902 putative substrate binding site [chemical binding]; other site 1311759006903 putative ATP binding site [chemical binding]; other site 1311759006904 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 1311759006905 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 1311759006906 active site 1311759006907 phosphorylation site [posttranslational modification] 1311759006908 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 1311759006909 dimerization domain swap beta strand [polypeptide binding]; other site 1311759006910 regulatory protein interface [polypeptide binding]; other site 1311759006911 active site 1311759006912 regulatory phosphorylation site [posttranslational modification]; other site 1311759006913 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 1311759006914 dimerization domain swap beta strand [polypeptide binding]; other site 1311759006915 regulatory protein interface [polypeptide binding]; other site 1311759006916 active site 1311759006917 regulatory phosphorylation site [posttranslational modification]; other site 1311759006918 glycogen branching enzyme; Provisional; Region: PRK05402 1311759006919 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1311759006920 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1311759006921 active site 1311759006922 catalytic site [active] 1311759006923 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1311759006924 glycogen debranching enzyme; Provisional; Region: PRK03705 1311759006925 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 1311759006926 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1311759006927 active site 1311759006928 catalytic site [active] 1311759006929 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1311759006930 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1311759006931 ligand binding site; other site 1311759006932 oligomer interface; other site 1311759006933 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 1311759006934 dimer interface [polypeptide binding]; other site 1311759006935 N-terminal domain interface [polypeptide binding]; other site 1311759006936 sulfate 1 binding site; other site 1311759006937 glycogen synthase; Provisional; Region: glgA; PRK00654 1311759006938 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 1311759006939 ADP-binding pocket [chemical binding]; other site 1311759006940 homodimer interface [polypeptide binding]; other site 1311759006941 glycogen phosphorylase; Provisional; Region: PRK14986 1311759006942 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 1311759006943 homodimer interface [polypeptide binding]; other site 1311759006944 active site pocket [active] 1311759006945 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1311759006946 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1311759006947 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1311759006948 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1311759006949 ligand binding site [chemical binding]; other site 1311759006950 homodimer interface [polypeptide binding]; other site 1311759006951 NAD(P) binding site [chemical binding]; other site 1311759006952 trimer interface B [polypeptide binding]; other site 1311759006953 trimer interface A [polypeptide binding]; other site 1311759006954 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1311759006955 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1311759006956 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1311759006957 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1311759006958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311759006959 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 1311759006960 putative dimerization interface [polypeptide binding]; other site 1311759006961 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1311759006962 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1311759006963 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1311759006964 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1311759006965 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 1311759006966 non-specific DNA binding site [nucleotide binding]; other site 1311759006967 salt bridge; other site 1311759006968 sequence-specific DNA binding site [nucleotide binding]; other site 1311759006969 Phage associated DNA primase [General function prediction only]; Region: COG3378 1311759006970 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 1311759006971 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 1311759006972 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1311759006973 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1311759006974 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 1311759006975 non-specific DNA binding site [nucleotide binding]; other site 1311759006976 salt bridge; other site 1311759006977 sequence-specific DNA binding site [nucleotide binding]; other site 1311759006978 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1311759006979 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 1311759006980 active site 1311759006981 DNA binding site [nucleotide binding] 1311759006982 Int/Topo IB signature motif; other site 1311759006983 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 1311759006984 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1311759006985 DNA topoisomerase III; Provisional; Region: PRK07726 1311759006986 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 1311759006987 active site 1311759006988 putative interdomain interaction site [polypeptide binding]; other site 1311759006989 putative metal-binding site [ion binding]; other site 1311759006990 putative nucleotide binding site [chemical binding]; other site 1311759006991 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 1311759006992 domain I; other site 1311759006993 DNA binding groove [nucleotide binding] 1311759006994 phosphate binding site [ion binding]; other site 1311759006995 domain II; other site 1311759006996 domain III; other site 1311759006997 nucleotide binding site [chemical binding]; other site 1311759006998 catalytic site [active] 1311759006999 domain IV; other site 1311759007000 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1311759007001 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1311759007002 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1311759007003 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1311759007004 Tetramer interface [polypeptide binding]; other site 1311759007005 active site 1311759007006 FMN-binding site [chemical binding]; other site 1311759007007 hypothetical protein; Provisional; Region: PRK11281 1311759007008 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1311759007009 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1311759007010 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1311759007011 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1311759007012 acyl-activating enzyme (AAE) consensus motif; other site 1311759007013 putative AMP binding site [chemical binding]; other site 1311759007014 putative active site [active] 1311759007015 putative CoA binding site [chemical binding]; other site 1311759007016 SeqA protein; Region: SeqA; pfam03925 1311759007017 acyl-CoA esterase; Provisional; Region: PRK10673 1311759007018 PGAP1-like protein; Region: PGAP1; pfam07819 1311759007019 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 1311759007020 S-adenosylmethionine binding site [chemical binding]; other site 1311759007021 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1311759007022 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311759007023 DNA binding site [nucleotide binding] 1311759007024 domain linker motif; other site 1311759007025 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 1311759007026 dimerization interface [polypeptide binding]; other site 1311759007027 ligand binding site [chemical binding]; other site 1311759007028 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1311759007029 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1311759007030 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1311759007031 trimer interface [polypeptide binding]; other site 1311759007032 active site 1311759007033 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1311759007034 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 1311759007035 Sugar specificity; other site 1311759007036 Pyrimidine base specificity; other site 1311759007037 ATP-binding site [chemical binding]; other site 1311759007038 Lysine efflux permease [General function prediction only]; Region: COG1279 1311759007039 rod shape-determining protein MreB; Provisional; Region: PRK13927 1311759007040 MreB and similar proteins; Region: MreB_like; cd10225 1311759007041 nucleotide binding site [chemical binding]; other site 1311759007042 Mg binding site [ion binding]; other site 1311759007043 putative protofilament interaction site [polypeptide binding]; other site 1311759007044 RodZ interaction site [polypeptide binding]; other site 1311759007045 rod shape-determining protein MreC; Provisional; Region: PRK13922 1311759007046 rod shape-determining protein MreC; Region: MreC; pfam04085 1311759007047 rod shape-determining protein MreD; Region: MreD; cl01087 1311759007048 recombination factor protein RarA; Reviewed; Region: PRK13342 1311759007049 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 1311759007050 Walker A motif; other site 1311759007051 ATP binding site [chemical binding]; other site 1311759007052 Walker B motif; other site 1311759007053 arginine finger; other site 1311759007054 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1311759007055 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1311759007056 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 1311759007057 ABC-ATPase subunit interface; other site 1311759007058 dimer interface [polypeptide binding]; other site 1311759007059 putative PBP binding regions; other site 1311759007060 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759007061 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1311759007062 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1311759007063 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 1311759007064 putative active site [active] 1311759007065 putative dimer interface [polypeptide binding]; other site 1311759007066 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1311759007067 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1311759007068 substrate binding pocket [chemical binding]; other site 1311759007069 chain length determination region; other site 1311759007070 substrate-Mg2+ binding site; other site 1311759007071 catalytic residues [active] 1311759007072 aspartate-rich region 1; other site 1311759007073 active site lid residues [active] 1311759007074 aspartate-rich region 2; other site 1311759007075 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1311759007076 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1311759007077 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1311759007078 MOSC domain; Region: MOSC; pfam03473 1311759007079 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1311759007080 Sulfatase; Region: Sulfatase; pfam00884 1311759007081 fructokinase; Reviewed; Region: PRK09557 1311759007082 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1311759007083 nucleotide binding site [chemical binding]; other site 1311759007084 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 1311759007085 active site 1311759007086 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1311759007087 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1311759007088 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1311759007089 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1311759007090 putative metal binding site; other site 1311759007091 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1311759007092 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 1311759007093 putative active site [active] 1311759007094 argininosuccinate synthase; Validated; Region: PRK05370 1311759007095 argininosuccinate synthase; Provisional; Region: PRK13820 1311759007096 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1311759007097 RNA/DNA hybrid binding site [nucleotide binding]; other site 1311759007098 active site 1311759007099 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1311759007100 Colicin V production protein; Region: Colicin_V; cl00567 1311759007101 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1311759007102 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 1311759007103 active site 1311759007104 tetramer interface [polypeptide binding]; other site 1311759007105 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311759007106 active site 1311759007107 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1311759007108 MltA specific insert domain; Region: MltA; smart00925 1311759007109 3D domain; Region: 3D; pfam06725 1311759007110 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1311759007111 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 1311759007112 P-loop; other site 1311759007113 Magnesium ion binding site [ion binding]; other site 1311759007114 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1311759007115 replicative DNA helicase; Region: DnaB; TIGR00665 1311759007116 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 1311759007117 Walker A motif; other site 1311759007118 ATP binding site [chemical binding]; other site 1311759007119 Walker B motif; other site 1311759007120 DNA binding loops [nucleotide binding] 1311759007121 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1311759007122 ParB-like nuclease domain; Region: ParBc; pfam02195 1311759007123 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1311759007124 Winged helix-turn helix; Region: HTH_29; pfam13551 1311759007125 Helix-turn-helix domain; Region: HTH_28; pfam13518 1311759007126 Homeodomain-like domain; Region: HTH_32; pfam13565 1311759007127 Integrase core domain; Region: rve; pfam00665 1311759007128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1311759007129 Integrase core domain; Region: rve_3; pfam13683 1311759007130 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1311759007131 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1311759007132 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892