-- dump date 20140619_135116 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1261126000001 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1261126000002 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1261126000003 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1261126000004 Putative helicase; Region: TraI_2; pfam07514 1261126000005 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1261126000006 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 1261126000007 active site 1261126000008 catalytic residues [active] 1261126000009 DNA binding site [nucleotide binding] 1261126000010 Int/Topo IB signature motif; other site 1261126000011 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1261126000012 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126000013 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126000014 Integrase core domain; Region: rve; pfam00665 1261126000015 Integrase core domain; Region: rve_3; pfam13683 1261126000016 D-lactate dehydrogenase; Provisional; Region: PRK11183 1261126000017 FAD binding domain; Region: FAD_binding_4; pfam01565 1261126000018 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1261126000019 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126000020 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126000021 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126000022 Integrase core domain; Region: rve; pfam00665 1261126000023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126000024 Integrase core domain; Region: rve_3; pfam13683 1261126000025 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1261126000026 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1261126000027 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1261126000028 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 1261126000029 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1261126000030 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 1261126000031 dimer interface [polypeptide binding]; other site 1261126000032 ssDNA binding site [nucleotide binding]; other site 1261126000033 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1261126000034 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1261126000035 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1261126000036 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1261126000037 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1261126000038 putative transporter; Provisional; Region: PRK11660 1261126000039 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1261126000040 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1261126000041 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 1261126000042 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1261126000043 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 1261126000044 TM-ABC transporter signature motif; other site 1261126000045 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1261126000046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126000047 Walker A/P-loop; other site 1261126000048 ATP binding site [chemical binding]; other site 1261126000049 Q-loop/lid; other site 1261126000050 ABC transporter signature motif; other site 1261126000051 Walker B; other site 1261126000052 D-loop; other site 1261126000053 H-loop/switch region; other site 1261126000054 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1261126000055 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 1261126000056 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1261126000057 LrgA family; Region: LrgA; cl00608 1261126000058 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1261126000059 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1261126000060 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1261126000061 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1261126000062 Walker A/P-loop; other site 1261126000063 ATP binding site [chemical binding]; other site 1261126000064 Q-loop/lid; other site 1261126000065 ABC transporter signature motif; other site 1261126000066 Walker B; other site 1261126000067 D-loop; other site 1261126000068 H-loop/switch region; other site 1261126000069 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1261126000070 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1261126000071 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1261126000072 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1261126000073 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1261126000074 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1261126000075 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1261126000076 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1261126000077 active site 1261126000078 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1261126000079 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 1261126000080 quinone interaction residues [chemical binding]; other site 1261126000081 active site 1261126000082 catalytic residues [active] 1261126000083 FMN binding site [chemical binding]; other site 1261126000084 substrate binding site [chemical binding]; other site 1261126000085 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1261126000086 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 1261126000087 dimer interface [polypeptide binding]; other site 1261126000088 TPP-binding site [chemical binding]; other site 1261126000089 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1261126000090 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 1261126000091 E3 interaction surface; other site 1261126000092 lipoyl attachment site [posttranslational modification]; other site 1261126000093 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 1261126000094 E3 interaction surface; other site 1261126000095 lipoyl attachment site [posttranslational modification]; other site 1261126000096 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 1261126000097 E3 interaction surface; other site 1261126000098 lipoyl attachment site [posttranslational modification]; other site 1261126000099 e3 binding domain; Region: E3_binding; pfam02817 1261126000100 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1261126000101 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1261126000102 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1261126000103 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1261126000104 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1261126000105 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1261126000106 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1261126000107 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1261126000108 trimer interface [polypeptide binding]; other site 1261126000109 eyelet of channel; other site 1261126000110 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1261126000111 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1261126000112 Substrate binding site; other site 1261126000113 Mg++ binding site; other site 1261126000114 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 1261126000115 active site 1261126000116 substrate binding site [chemical binding]; other site 1261126000117 CoA binding site [chemical binding]; other site 1261126000118 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1261126000119 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1261126000120 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1261126000121 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 1261126000122 S-adenosylmethionine binding site [chemical binding]; other site 1261126000123 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1261126000124 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 1261126000125 Walker A motif; other site 1261126000126 ATP binding site [chemical binding]; other site 1261126000127 Walker B motif; other site 1261126000128 arginine finger; other site 1261126000129 Peptidase family M41; Region: Peptidase_M41; pfam01434 1261126000130 xanthine permease; Region: pbuX; TIGR03173 1261126000131 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1261126000132 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 1261126000133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126000134 homodimer interface [polypeptide binding]; other site 1261126000135 catalytic residue [active] 1261126000136 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1261126000137 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 1261126000138 hinge; other site 1261126000139 active site 1261126000140 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1261126000141 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1261126000142 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1261126000143 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1261126000144 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 1261126000145 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 1261126000146 homodimer interface [polypeptide binding]; other site 1261126000147 substrate-cofactor binding pocket; other site 1261126000148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126000149 catalytic residue [active] 1261126000150 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1261126000151 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1261126000152 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1261126000153 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 1261126000154 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1261126000155 metal binding triad; other site 1261126000156 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1261126000157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1261126000158 Zn2+ binding site [ion binding]; other site 1261126000159 Mg2+ binding site [ion binding]; other site 1261126000160 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 1261126000161 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 1261126000162 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1261126000163 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1261126000164 Walker A/P-loop; other site 1261126000165 ATP binding site [chemical binding]; other site 1261126000166 Q-loop/lid; other site 1261126000167 ABC transporter signature motif; other site 1261126000168 Walker B; other site 1261126000169 D-loop; other site 1261126000170 H-loop/switch region; other site 1261126000171 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1261126000172 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 1261126000173 ABC-ATPase subunit interface; other site 1261126000174 dimer interface [polypeptide binding]; other site 1261126000175 putative PBP binding regions; other site 1261126000176 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 1261126000177 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1261126000178 putative ligand binding residues [chemical binding]; other site 1261126000179 replicative DNA helicase; Validated; Region: PRK06904 1261126000180 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1261126000181 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 1261126000182 Walker A motif; other site 1261126000183 ATP binding site [chemical binding]; other site 1261126000184 Walker B motif; other site 1261126000185 DNA binding loops [nucleotide binding] 1261126000186 YcgL domain; Region: YcgL; pfam05166 1261126000187 transcriptional regulator NrdR; Region: TIGR00244 1261126000188 ATP cone domain; Region: ATP-cone; pfam03477 1261126000189 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1261126000190 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1261126000191 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126000192 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1261126000193 dimerization interface [polypeptide binding]; other site 1261126000194 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1261126000195 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 1261126000196 FMN binding site [chemical binding]; other site 1261126000197 substrate binding site [chemical binding]; other site 1261126000198 putative catalytic residue [active] 1261126000199 hypothetical protein; Provisional; Region: PRK11018 1261126000200 CPxP motif; other site 1261126000201 putative inner membrane protein; Provisional; Region: PRK11099 1261126000202 putative inner membrane protein; Provisional; Region: PRK11099 1261126000203 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1261126000204 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1261126000205 putative N- and C-terminal domain interface [polypeptide binding]; other site 1261126000206 putative active site [active] 1261126000207 MgATP binding site [chemical binding]; other site 1261126000208 catalytic site [active] 1261126000209 metal binding site [ion binding]; metal-binding site 1261126000210 putative carbohydrate binding site [chemical binding]; other site 1261126000211 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1261126000212 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 1261126000213 TM-ABC transporter signature motif; other site 1261126000214 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 1261126000215 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1261126000216 TM-ABC transporter signature motif; other site 1261126000217 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1261126000218 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1261126000219 Walker A/P-loop; other site 1261126000220 ATP binding site [chemical binding]; other site 1261126000221 Q-loop/lid; other site 1261126000222 ABC transporter signature motif; other site 1261126000223 Walker B; other site 1261126000224 D-loop; other site 1261126000225 H-loop/switch region; other site 1261126000226 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1261126000227 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1261126000228 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1261126000229 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1261126000230 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1261126000231 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126000232 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126000233 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 1261126000234 DNA-binding site [nucleotide binding]; DNA binding site 1261126000235 RNA-binding motif; other site 1261126000236 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1261126000237 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1261126000238 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1261126000239 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 1261126000240 CPxP motif; other site 1261126000241 Predicted transcriptional regulator [Transcription]; Region: COG2932 1261126000242 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 1261126000243 Catalytic site [active] 1261126000244 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1261126000245 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126000246 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126000247 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1261126000248 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1261126000249 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1261126000250 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 1261126000251 N-terminal plug; other site 1261126000252 ligand-binding site [chemical binding]; other site 1261126000253 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1261126000254 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126000255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 1261126000256 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1261126000257 Flavoprotein; Region: Flavoprotein; pfam02441 1261126000258 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1261126000259 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1261126000260 hypothetical protein; Provisional; Region: PRK05255 1261126000261 peptidase PmbA; Provisional; Region: PRK11040 1261126000262 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1261126000263 active site 1261126000264 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 1261126000265 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 1261126000266 catalytic site [active] 1261126000267 Asp-box motif; other site 1261126000268 Autotransporter beta-domain; Region: Autotransporter; cl17461 1261126000269 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1261126000270 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1261126000271 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1261126000272 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1261126000273 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 1261126000274 active site 1261126000275 Int/Topo IB signature motif; other site 1261126000276 Domain of unknown function (DUF927); Region: DUF927; cl12098 1261126000277 silicon transporter; Region: sit; TIGR00811 1261126000278 Ash protein family; Region: Phage_ASH; pfam10554 1261126000279 Ash protein family; Region: Phage_ASH; pfam10554 1261126000280 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1261126000281 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 1261126000282 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1261126000283 integrase; Provisional; Region: PRK09692 1261126000284 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 1261126000285 active site 1261126000286 Int/Topo IB signature motif; other site 1261126000287 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1261126000288 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1261126000289 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 1261126000290 homotrimer interaction site [polypeptide binding]; other site 1261126000291 putative active site [active] 1261126000292 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1261126000293 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1261126000294 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1261126000295 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1261126000296 glutamate dehydrogenase; Provisional; Region: PRK09414 1261126000297 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1261126000298 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1261126000299 NAD(P) binding site [chemical binding]; other site 1261126000300 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1261126000301 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1261126000302 DNA binding site [nucleotide binding] 1261126000303 domain linker motif; other site 1261126000304 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1261126000305 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1261126000306 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1261126000307 active site 1261126000308 HIGH motif; other site 1261126000309 nucleotide binding site [chemical binding]; other site 1261126000310 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1261126000311 KMSKS motif; other site 1261126000312 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1261126000313 SnoaL-like domain; Region: SnoaL_4; pfam13577 1261126000314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1261126000315 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1261126000316 NAD(P) binding site [chemical binding]; other site 1261126000317 active site 1261126000318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1261126000319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126000320 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 1261126000321 putative effector binding pocket; other site 1261126000322 putative dimerization interface [polypeptide binding]; other site 1261126000323 elongation factor P; Validated; Region: PRK00529 1261126000324 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1261126000325 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 1261126000326 RNA binding site [nucleotide binding]; other site 1261126000327 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 1261126000328 RNA binding site [nucleotide binding]; other site 1261126000329 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 1261126000330 FeS/SAM binding site; other site 1261126000331 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1261126000332 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1261126000333 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 1261126000334 putative dimer interface [polypeptide binding]; other site 1261126000335 putative anticodon binding site; other site 1261126000336 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 1261126000337 homodimer interface [polypeptide binding]; other site 1261126000338 motif 1; other site 1261126000339 motif 2; other site 1261126000340 active site 1261126000341 motif 3; other site 1261126000342 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1261126000343 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 1261126000344 active site 1261126000345 DNA binding site [nucleotide binding] 1261126000346 Int/Topo IB signature motif; other site 1261126000347 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1261126000348 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1261126000349 putative metal binding site [ion binding]; other site 1261126000350 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1261126000351 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1261126000352 RecT family; Region: RecT; pfam03837 1261126000353 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1261126000354 metal binding site [ion binding]; metal-binding site 1261126000355 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1261126000356 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 1261126000357 sequence-specific DNA binding site [nucleotide binding]; other site 1261126000358 salt bridge; other site 1261126000359 Haemolysin XhlA; Region: XhlA; pfam10779 1261126000360 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 1261126000361 non-specific DNA binding site [nucleotide binding]; other site 1261126000362 salt bridge; other site 1261126000363 sequence-specific DNA binding site [nucleotide binding]; other site 1261126000364 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 1261126000365 Catalytic site [active] 1261126000366 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 1261126000367 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1261126000368 non-specific DNA binding site [nucleotide binding]; other site 1261126000369 salt bridge; other site 1261126000370 sequence-specific DNA binding site [nucleotide binding]; other site 1261126000371 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1261126000372 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1261126000373 replicative DNA helicase; Region: DnaB; TIGR00665 1261126000374 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 1261126000375 Walker A motif; other site 1261126000376 ATP binding site [chemical binding]; other site 1261126000377 Walker B motif; other site 1261126000378 MT-A70; Region: MT-A70; cl01947 1261126000379 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 1261126000380 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126000381 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126000382 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126000383 Integrase core domain; Region: rve; pfam00665 1261126000384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126000385 Integrase core domain; Region: rve_3; pfam13683 1261126000386 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1261126000387 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1261126000388 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1261126000389 catalytic residues [active] 1261126000390 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1261126000391 Terminase small subunit; Region: Terminase_2; pfam03592 1261126000392 Phage terminase large subunit; Region: Terminase_3; cl12054 1261126000393 Terminase-like family; Region: Terminase_6; pfam03237 1261126000394 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1261126000395 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1261126000396 Encapsulating protein for peroxidase; Region: Linocin_M18; cl17804 1261126000397 Phage major tail protein 2; Region: Phage_tail_2; cl11463 1261126000398 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1261126000399 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 1261126000400 YcfA-like protein; Region: YcfA; pfam07927 1261126000401 Phage-related protein [Function unknown]; Region: gp18; COG4672 1261126000402 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 1261126000403 MPN+ (JAMM) motif; other site 1261126000404 Zinc-binding site [ion binding]; other site 1261126000405 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1261126000406 NlpC/P60 family; Region: NLPC_P60; cl17555 1261126000407 Phage-related protein, tail component [Function unknown]; Region: COG4723 1261126000408 Phage-related protein, tail component [Function unknown]; Region: COG4733 1261126000409 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1261126000410 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1261126000411 exonuclease I; Provisional; Region: sbcB; PRK11779 1261126000412 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1261126000413 active site 1261126000414 catalytic site [active] 1261126000415 substrate binding site [chemical binding]; other site 1261126000416 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1261126000417 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1261126000418 putative active site [active] 1261126000419 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1261126000420 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1261126000421 active site 1261126000422 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1261126000423 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1261126000424 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1261126000425 Imelysin; Region: Peptidase_M75; pfam09375 1261126000426 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1261126000427 excinuclease ABC subunit B; Provisional; Region: PRK05298 1261126000428 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 1261126000429 ATP binding site [chemical binding]; other site 1261126000430 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 1261126000431 nucleotide binding region [chemical binding]; other site 1261126000432 ATP-binding site [chemical binding]; other site 1261126000433 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1261126000434 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1261126000435 ATP-grasp domain; Region: ATP-grasp; pfam02222 1261126000436 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1261126000437 active site 1261126000438 homodimer interface [polypeptide binding]; other site 1261126000439 homotetramer interface [polypeptide binding]; other site 1261126000440 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1261126000441 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1261126000442 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 1261126000443 C-terminal domain interface [polypeptide binding]; other site 1261126000444 putative GSH binding site (G-site) [chemical binding]; other site 1261126000445 dimer interface [polypeptide binding]; other site 1261126000446 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1261126000447 dimer interface [polypeptide binding]; other site 1261126000448 N-terminal domain interface [polypeptide binding]; other site 1261126000449 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1261126000450 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 1261126000451 zinc binding site [ion binding]; other site 1261126000452 putative ligand binding site [chemical binding]; other site 1261126000453 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1261126000454 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126000455 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 1261126000456 putative effector binding pocket; other site 1261126000457 dimerization interface [polypeptide binding]; other site 1261126000458 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1261126000459 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 1261126000460 active site 1261126000461 interdomain interaction site; other site 1261126000462 putative metal-binding site [ion binding]; other site 1261126000463 nucleotide binding site [chemical binding]; other site 1261126000464 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 1261126000465 domain I; other site 1261126000466 DNA binding groove [nucleotide binding] 1261126000467 phosphate binding site [ion binding]; other site 1261126000468 domain II; other site 1261126000469 domain III; other site 1261126000470 nucleotide binding site [chemical binding]; other site 1261126000471 catalytic site [active] 1261126000472 domain IV; other site 1261126000473 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1261126000474 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1261126000475 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1261126000476 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1261126000477 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1261126000478 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1261126000479 putative substrate binding pocket [chemical binding]; other site 1261126000480 dimer interface [polypeptide binding]; other site 1261126000481 phosphate binding site [ion binding]; other site 1261126000482 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1261126000483 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1261126000484 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1261126000485 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 1261126000486 S-adenosylmethionine binding site [chemical binding]; other site 1261126000487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1261126000488 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1261126000489 AAA domain; Region: AAA_26; pfam13500 1261126000490 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1261126000491 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1261126000492 ribonuclease D; Provisional; Region: PRK10829 1261126000493 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1261126000494 catalytic site [active] 1261126000495 putative active site [active] 1261126000496 putative substrate binding site [chemical binding]; other site 1261126000497 HRDC domain; Region: HRDC; pfam00570 1261126000498 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1261126000499 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 1261126000500 dimerization interface [polypeptide binding]; other site 1261126000501 putative DNA binding site [nucleotide binding]; other site 1261126000502 putative Zn2+ binding site [ion binding]; other site 1261126000503 AsnC family; Region: AsnC_trans_reg; pfam01037 1261126000504 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1261126000505 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1261126000506 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1261126000507 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1261126000508 Predicted metalloprotease [General function prediction only]; Region: COG2321 1261126000509 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1261126000510 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1261126000511 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1261126000512 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1261126000513 Glycoprotease family; Region: Peptidase_M22; pfam00814 1261126000514 Predicted permeases [General function prediction only]; Region: COG0730 1261126000515 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1261126000516 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 1261126000517 ligand binding site [chemical binding]; other site 1261126000518 flexible hinge region; other site 1261126000519 putative transporter; Provisional; Region: PRK10484 1261126000520 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1261126000521 Na binding site [ion binding]; other site 1261126000522 Sulfatase; Region: Sulfatase; cl17466 1261126000523 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1261126000524 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1261126000525 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1261126000526 thymidine kinase; Provisional; Region: PRK04296 1261126000527 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1261126000528 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 1261126000529 proline aminopeptidase P II; Provisional; Region: PRK10879 1261126000530 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1261126000531 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 1261126000532 active site 1261126000533 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1261126000534 N-acetylglutamate synthase; Validated; Region: PRK05279 1261126000535 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 1261126000536 putative feedback inhibition sensing region; other site 1261126000537 putative nucleotide binding site [chemical binding]; other site 1261126000538 putative substrate binding site [chemical binding]; other site 1261126000539 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1261126000540 Coenzyme A binding pocket [chemical binding]; other site 1261126000541 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126000542 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126000543 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126000544 Integrase core domain; Region: rve; pfam00665 1261126000545 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126000546 Integrase core domain; Region: rve_3; pfam13683 1261126000547 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1261126000548 EamA-like transporter family; Region: EamA; pfam00892 1261126000549 EamA-like transporter family; Region: EamA; pfam00892 1261126000550 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1261126000551 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1261126000552 putative valine binding site [chemical binding]; other site 1261126000553 dimer interface [polypeptide binding]; other site 1261126000554 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1261126000555 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 1261126000556 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1261126000557 PYR/PP interface [polypeptide binding]; other site 1261126000558 dimer interface [polypeptide binding]; other site 1261126000559 TPP binding site [chemical binding]; other site 1261126000560 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1261126000561 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 1261126000562 TPP-binding site [chemical binding]; other site 1261126000563 dimer interface [polypeptide binding]; other site 1261126000564 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 1261126000565 active site clefts [active] 1261126000566 zinc binding site [ion binding]; other site 1261126000567 dimer interface [polypeptide binding]; other site 1261126000568 phosphate acetyltransferase; Reviewed; Region: PRK05632 1261126000569 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 1261126000570 DRTGG domain; Region: DRTGG; pfam07085 1261126000571 phosphate acetyltransferase; Region: pta; TIGR00651 1261126000572 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1261126000573 propionate/acetate kinase; Provisional; Region: PRK12379 1261126000574 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1261126000575 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1261126000576 active site 1261126000577 metal binding site [ion binding]; metal-binding site 1261126000578 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1261126000579 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1261126000580 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 1261126000581 active site 1261126000582 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 1261126000583 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126000584 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126000585 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126000586 Integrase core domain; Region: rve; pfam00665 1261126000587 Integrase core domain; Region: rve_3; pfam13683 1261126000588 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126000589 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126000590 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126000591 Integrase core domain; Region: rve; pfam00665 1261126000592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126000593 Integrase core domain; Region: rve_3; pfam13683 1261126000594 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1261126000595 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1261126000596 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1261126000597 chloroplast protein import component Toc86/159, G and M domains; Region: 3a0901s04IAP86; TIGR00993 1261126000598 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1261126000599 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 1261126000600 homodimer interface [polypeptide binding]; other site 1261126000601 substrate-cofactor binding pocket; other site 1261126000602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126000603 catalytic residue [active] 1261126000604 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1261126000605 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1261126000606 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1261126000607 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1261126000608 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1261126000609 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1261126000610 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1261126000611 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 1261126000612 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 1261126000613 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1261126000614 molybdopterin cofactor binding site [chemical binding]; other site 1261126000615 substrate binding site [chemical binding]; other site 1261126000616 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 1261126000617 molybdopterin cofactor binding site; other site 1261126000618 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1261126000619 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 1261126000620 substrate binding site [chemical binding]; other site 1261126000621 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1261126000622 substrate binding site [chemical binding]; other site 1261126000623 ligand binding site [chemical binding]; other site 1261126000624 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1261126000625 isocitrate dehydrogenase; Validated; Region: PRK07362 1261126000626 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 1261126000627 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1261126000628 dimer interface [polypeptide binding]; other site 1261126000629 active site 1261126000630 citrylCoA binding site [chemical binding]; other site 1261126000631 NADH binding [chemical binding]; other site 1261126000632 cationic pore residues; other site 1261126000633 oxalacetate/citrate binding site [chemical binding]; other site 1261126000634 coenzyme A binding site [chemical binding]; other site 1261126000635 catalytic triad [active] 1261126000636 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1261126000637 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1261126000638 DNA methylase; Region: N6_N4_Mtase; pfam01555 1261126000639 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 1261126000640 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1261126000641 molybdopterin cofactor binding site [chemical binding]; other site 1261126000642 substrate binding site [chemical binding]; other site 1261126000643 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 1261126000644 molybdopterin cofactor binding site; other site 1261126000645 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1261126000646 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1261126000647 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1261126000648 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 1261126000649 DNA binding residues [nucleotide binding] 1261126000650 dimerization interface [polypeptide binding]; other site 1261126000651 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1261126000652 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 1261126000653 ligand binding site [chemical binding]; other site 1261126000654 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1261126000655 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 1261126000656 FeS/SAM binding site; other site 1261126000657 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1261126000658 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 1261126000659 trimer interface [polypeptide binding]; other site 1261126000660 dimer interface [polypeptide binding]; other site 1261126000661 putative active site [active] 1261126000662 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1261126000663 MoaE interaction surface [polypeptide binding]; other site 1261126000664 MoeB interaction surface [polypeptide binding]; other site 1261126000665 thiocarboxylated glycine; other site 1261126000666 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 1261126000667 MoaE homodimer interface [polypeptide binding]; other site 1261126000668 MoaD interaction [polypeptide binding]; other site 1261126000669 active site residues [active] 1261126000670 metal-binding heat shock protein; Provisional; Region: PRK00016 1261126000671 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1261126000672 Helicase; Region: Helicase_RecD; pfam05127 1261126000673 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1261126000674 Coenzyme A binding pocket [chemical binding]; other site 1261126000675 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1261126000676 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 1261126000677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126000678 homodimer interface [polypeptide binding]; other site 1261126000679 catalytic residue [active] 1261126000680 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1261126000681 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1261126000682 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1261126000683 G4 box; other site 1261126000684 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1261126000685 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1261126000686 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1261126000687 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 1261126000688 active site 1261126000689 phosphorylation site [posttranslational modification] 1261126000690 intermolecular recognition site; other site 1261126000691 dimerization interface [polypeptide binding]; other site 1261126000692 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 1261126000693 DNA binding site [nucleotide binding] 1261126000694 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126000695 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126000696 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126000697 Integrase core domain; Region: rve; pfam00665 1261126000698 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126000699 Integrase core domain; Region: rve_3; pfam13683 1261126000700 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1261126000701 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 1261126000702 dimerization interface [polypeptide binding]; other site 1261126000703 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 1261126000704 dimer interface [polypeptide binding]; other site 1261126000705 phosphorylation site [posttranslational modification] 1261126000706 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 1261126000707 ATP binding site [chemical binding]; other site 1261126000708 Mg2+ binding site [ion binding]; other site 1261126000709 G-X-G motif; other site 1261126000710 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1261126000711 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1261126000712 Walker A/P-loop; other site 1261126000713 ATP binding site [chemical binding]; other site 1261126000714 Q-loop/lid; other site 1261126000715 ABC transporter signature motif; other site 1261126000716 Walker B; other site 1261126000717 D-loop; other site 1261126000718 H-loop/switch region; other site 1261126000719 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1261126000720 FtsX-like permease family; Region: FtsX; pfam02687 1261126000721 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1261126000722 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1261126000723 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1261126000724 dimer interface [polypeptide binding]; other site 1261126000725 putative radical transfer pathway; other site 1261126000726 diiron center [ion binding]; other site 1261126000727 tyrosyl radical; other site 1261126000728 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1261126000729 ATP cone domain; Region: ATP-cone; pfam03477 1261126000730 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1261126000731 active site 1261126000732 dimer interface [polypeptide binding]; other site 1261126000733 catalytic residues [active] 1261126000734 effector binding site; other site 1261126000735 R2 peptide binding site; other site 1261126000736 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1261126000737 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 1261126000738 TPR repeat; Region: TPR_11; pfam13414 1261126000739 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 1261126000740 binding surface 1261126000741 TPR motif; other site 1261126000742 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1261126000743 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 1261126000744 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1261126000745 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 1261126000746 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 1261126000747 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126000748 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126000749 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126000750 Integrase core domain; Region: rve; pfam00665 1261126000751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126000752 Integrase core domain; Region: rve_3; pfam13683 1261126000753 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1261126000754 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1261126000755 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1261126000756 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1261126000757 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1261126000758 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1261126000759 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 1261126000760 protein-splicing catalytic site; other site 1261126000761 thioester formation/cholesterol transfer; other site 1261126000762 Pretoxin HINT domain; Region: PT-HINT; pfam07591 1261126000763 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1261126000764 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1261126000765 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1261126000766 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1261126000767 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1261126000768 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1261126000769 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1261126000770 Competence protein; Region: Competence; pfam03772 1261126000771 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1261126000772 serine/threonine transporter SstT; Provisional; Region: PRK13628 1261126000773 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1261126000774 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1261126000775 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1261126000776 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1261126000777 active site 1261126000778 metal binding site [ion binding]; metal-binding site 1261126000779 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1261126000780 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1261126000781 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1261126000782 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 1261126000783 putative active site [active] 1261126000784 Domain of unknown function (DUF386); Region: DUF386; cl01047 1261126000785 exopolyphosphatase; Provisional; Region: PRK10854 1261126000786 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1261126000787 hypothetical protein; Provisional; Region: PRK05423 1261126000788 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1261126000789 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1261126000790 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 1261126000791 active site turn [active] 1261126000792 phosphorylation site [posttranslational modification] 1261126000793 aspartate kinase III; Validated; Region: PRK09084 1261126000794 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 1261126000795 nucleotide binding site [chemical binding]; other site 1261126000796 substrate binding site [chemical binding]; other site 1261126000797 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1261126000798 lysine allosteric regulatory site; other site 1261126000799 dimer interface [polypeptide binding]; other site 1261126000800 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1261126000801 dimer interface [polypeptide binding]; other site 1261126000802 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1261126000803 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 1261126000804 CAP-like domain; other site 1261126000805 active site 1261126000806 primary dimer interface [polypeptide binding]; other site 1261126000807 PBP superfamily domain; Region: PBP_like_2; cl17296 1261126000808 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 1261126000809 dimer interface [polypeptide binding]; other site 1261126000810 conserved gate region; other site 1261126000811 putative PBP binding loops; other site 1261126000812 ABC-ATPase subunit interface; other site 1261126000813 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1261126000814 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 1261126000815 dimer interface [polypeptide binding]; other site 1261126000816 conserved gate region; other site 1261126000817 putative PBP binding loops; other site 1261126000818 ABC-ATPase subunit interface; other site 1261126000819 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1261126000820 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1261126000821 Walker A/P-loop; other site 1261126000822 ATP binding site [chemical binding]; other site 1261126000823 Q-loop/lid; other site 1261126000824 ABC transporter signature motif; other site 1261126000825 Walker B; other site 1261126000826 D-loop; other site 1261126000827 H-loop/switch region; other site 1261126000828 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1261126000829 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 1261126000830 active site 1261126000831 phosphorylation site [posttranslational modification] 1261126000832 intermolecular recognition site; other site 1261126000833 dimerization interface [polypeptide binding]; other site 1261126000834 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 1261126000835 DNA binding site [nucleotide binding] 1261126000836 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1261126000837 PAS domain; Region: PAS; smart00091 1261126000838 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 1261126000839 dimer interface [polypeptide binding]; other site 1261126000840 phosphorylation site [posttranslational modification] 1261126000841 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 1261126000842 ATP binding site [chemical binding]; other site 1261126000843 Mg2+ binding site [ion binding]; other site 1261126000844 G-X-G motif; other site 1261126000845 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1261126000846 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1261126000847 RNase E interface [polypeptide binding]; other site 1261126000848 trimer interface [polypeptide binding]; other site 1261126000849 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1261126000850 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1261126000851 RNase E interface [polypeptide binding]; other site 1261126000852 trimer interface [polypeptide binding]; other site 1261126000853 active site 1261126000854 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 1261126000855 putative nucleic acid binding region [nucleotide binding]; other site 1261126000856 G-X-X-G motif; other site 1261126000857 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 1261126000858 RNA binding site [nucleotide binding]; other site 1261126000859 domain interface; other site 1261126000860 lipoprotein NlpI; Provisional; Region: PRK11189 1261126000861 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 1261126000862 binding surface 1261126000863 TPR motif; other site 1261126000864 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 1261126000865 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 1261126000866 ATP binding site [chemical binding]; other site 1261126000867 Mg++ binding site [ion binding]; other site 1261126000868 motif III; other site 1261126000869 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 1261126000870 nucleotide binding region [chemical binding]; other site 1261126000871 ATP-binding site [chemical binding]; other site 1261126000872 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1261126000873 putative RNA binding site [nucleotide binding]; other site 1261126000874 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 1261126000875 nucleoside/Zn binding site; other site 1261126000876 dimer interface [polypeptide binding]; other site 1261126000877 catalytic motif [active] 1261126000878 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1261126000879 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1261126000880 RNA binding site [nucleotide binding]; other site 1261126000881 active site 1261126000882 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1261126000883 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1261126000884 translation initiation factor IF-2; Region: IF-2; TIGR00487 1261126000885 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1261126000886 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1261126000887 G1 box; other site 1261126000888 putative GEF interaction site [polypeptide binding]; other site 1261126000889 GTP/Mg2+ binding site [chemical binding]; other site 1261126000890 Switch I region; other site 1261126000891 G2 box; other site 1261126000892 G3 box; other site 1261126000893 Switch II region; other site 1261126000894 G4 box; other site 1261126000895 G5 box; other site 1261126000896 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 1261126000897 Translation-initiation factor 2; Region: IF-2; pfam11987 1261126000898 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 1261126000899 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1261126000900 NusA N-terminal domain; Region: NusA_N; pfam08529 1261126000901 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 1261126000902 RNA binding site [nucleotide binding]; other site 1261126000903 homodimer interface [polypeptide binding]; other site 1261126000904 NusA-like KH domain; Region: KH_5; pfam13184 1261126000905 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 1261126000906 G-X-X-G motif; other site 1261126000907 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1261126000908 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1261126000909 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1261126000910 Sm and related proteins; Region: Sm_like; cl00259 1261126000911 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1261126000912 putative oligomer interface [polypeptide binding]; other site 1261126000913 putative RNA binding site [nucleotide binding]; other site 1261126000914 lytic murein transglycosylase; Provisional; Region: PRK11619 1261126000915 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 1261126000916 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1261126000917 catalytic residue [active] 1261126000918 translation initiation factor Sui1; Validated; Region: PRK06824 1261126000919 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1261126000920 putative rRNA binding site [nucleotide binding]; other site 1261126000921 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 1261126000922 active site 1261126000923 dimer interface [polypeptide binding]; other site 1261126000924 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1261126000925 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 1261126000926 binding surface 1261126000927 TPR motif; other site 1261126000928 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 1261126000929 TPR motif; other site 1261126000930 binding surface 1261126000931 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 1261126000932 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1261126000933 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 1261126000934 IHF dimer interface [polypeptide binding]; other site 1261126000935 IHF - DNA interface [nucleotide binding]; other site 1261126000936 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1261126000937 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 1261126000938 RNA binding site [nucleotide binding]; other site 1261126000939 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 1261126000940 RNA binding site [nucleotide binding]; other site 1261126000941 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 1261126000942 RNA binding site [nucleotide binding]; other site 1261126000943 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 1261126000944 RNA binding site [nucleotide binding]; other site 1261126000945 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 1261126000946 RNA binding site [nucleotide binding]; other site 1261126000947 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 1261126000948 RNA binding site [nucleotide binding]; other site 1261126000949 cytidylate kinase; Provisional; Region: cmk; PRK00023 1261126000950 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 1261126000951 CMP-binding site; other site 1261126000952 The sites determining sugar specificity; other site 1261126000953 serine endoprotease; Provisional; Region: PRK10898 1261126000954 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1261126000955 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 1261126000956 protein binding site [polypeptide binding]; other site 1261126000957 NlpC/P60 family; Region: NLPC_P60; pfam00877 1261126000958 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 1261126000959 IHF dimer interface [polypeptide binding]; other site 1261126000960 IHF - DNA interface [nucleotide binding]; other site 1261126000961 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1261126000962 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 1261126000963 putative tRNA-binding site [nucleotide binding]; other site 1261126000964 B3/4 domain; Region: B3_4; pfam03483 1261126000965 tRNA synthetase B5 domain; Region: B5; smart00874 1261126000966 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 1261126000967 dimer interface [polypeptide binding]; other site 1261126000968 motif 1; other site 1261126000969 motif 3; other site 1261126000970 motif 2; other site 1261126000971 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1261126000972 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1261126000973 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1261126000974 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 1261126000975 dimer interface [polypeptide binding]; other site 1261126000976 motif 1; other site 1261126000977 active site 1261126000978 motif 2; other site 1261126000979 motif 3; other site 1261126000980 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 1261126000981 dimer interface [polypeptide binding]; other site 1261126000982 FMN binding site [chemical binding]; other site 1261126000983 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1261126000984 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1261126000985 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 1261126000986 Cation efflux family; Region: Cation_efflux; cl00316 1261126000987 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1261126000988 hypothetical protein; Validated; Region: PRK02101 1261126000989 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1261126000990 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 1261126000991 active site 1261126000992 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 1261126000993 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1261126000994 putative active site [active] 1261126000995 putative nucleic acid binding site [nucleotide binding]; other site 1261126000996 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1261126000997 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1261126000998 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 1261126000999 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1261126001000 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 1261126001001 23S rRNA interface [nucleotide binding]; other site 1261126001002 L3 interface [polypeptide binding]; other site 1261126001003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1261126001004 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 1261126001005 GMP synthase; Reviewed; Region: guaA; PRK00074 1261126001006 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1261126001007 AMP/PPi binding site [chemical binding]; other site 1261126001008 candidate oxyanion hole; other site 1261126001009 catalytic triad [active] 1261126001010 potential glutamine specificity residues [chemical binding]; other site 1261126001011 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 1261126001012 ATP Binding subdomain [chemical binding]; other site 1261126001013 Ligand Binding sites [chemical binding]; other site 1261126001014 Dimerization subdomain; other site 1261126001015 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1261126001016 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 1261126001017 motif II; other site 1261126001018 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1261126001019 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 1261126001020 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 1261126001021 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 1261126001022 active site 1261126001023 multidrug efflux protein; Reviewed; Region: PRK09579 1261126001024 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1261126001025 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1261126001026 HlyD family secretion protein; Region: HlyD_3; pfam13437 1261126001027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1261126001028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1261126001029 hypothetical protein; Provisional; Region: PRK13689 1261126001030 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1261126001031 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1261126001032 Sulfatase; Region: Sulfatase; cl17466 1261126001033 condesin subunit E; Provisional; Region: PRK05256 1261126001034 condesin subunit F; Provisional; Region: PRK05260 1261126001035 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1261126001036 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1261126001037 active site 1261126001038 tetramer interface; other site 1261126001039 carbon storage regulator; Provisional; Region: PRK01712 1261126001040 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1261126001041 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 1261126001042 motif 1; other site 1261126001043 active site 1261126001044 motif 2; other site 1261126001045 motif 3; other site 1261126001046 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1261126001047 DHHA1 domain; Region: DHHA1; pfam02272 1261126001048 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 1261126001049 Ligand Binding Site [chemical binding]; other site 1261126001050 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1261126001051 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 1261126001052 ligand binding site [chemical binding]; other site 1261126001053 flexible hinge region; other site 1261126001054 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 1261126001055 putative switch regulator; other site 1261126001056 non-specific DNA interactions [nucleotide binding]; other site 1261126001057 DNA binding site [nucleotide binding] 1261126001058 sequence specific DNA binding site [nucleotide binding]; other site 1261126001059 putative cAMP binding site [chemical binding]; other site 1261126001060 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1261126001061 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1261126001062 NAD binding site [chemical binding]; other site 1261126001063 homotetramer interface [polypeptide binding]; other site 1261126001064 homodimer interface [polypeptide binding]; other site 1261126001065 substrate binding site [chemical binding]; other site 1261126001066 active site 1261126001067 Bor protein; Region: Lambda_Bor; pfam06291 1261126001068 Bor protein; Region: Lambda_Bor; pfam06291 1261126001069 exoribonuclease II; Provisional; Region: PRK05054 1261126001070 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1261126001071 RNB domain; Region: RNB; pfam00773 1261126001072 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 1261126001073 RNA binding site [nucleotide binding]; other site 1261126001074 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1261126001075 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1261126001076 active site 1261126001077 metal binding site [ion binding]; metal-binding site 1261126001078 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1261126001079 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 1261126001080 active site 1261126001081 DNA binding site [nucleotide binding] 1261126001082 Int/Topo IB signature motif; other site 1261126001083 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1261126001084 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 1261126001085 dimer interface [polypeptide binding]; other site 1261126001086 ssDNA binding site [nucleotide binding]; other site 1261126001087 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1261126001088 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1261126001089 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 1261126001090 non-specific DNA binding site [nucleotide binding]; other site 1261126001091 salt bridge; other site 1261126001092 sequence-specific DNA binding site [nucleotide binding]; other site 1261126001093 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1261126001094 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 1261126001095 non-specific DNA binding site [nucleotide binding]; other site 1261126001096 salt bridge; other site 1261126001097 sequence-specific DNA binding site [nucleotide binding]; other site 1261126001098 Predicted transcriptional regulator [Transcription]; Region: COG2932 1261126001099 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 1261126001100 Catalytic site [active] 1261126001101 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 1261126001102 Dimer interface [polypeptide binding]; other site 1261126001103 BRCT sequence motif; other site 1261126001104 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1261126001105 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1261126001106 tail protein; Provisional; Region: D; PHA02561 1261126001107 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1261126001108 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1261126001109 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1261126001110 major tail tube protein; Provisional; Region: FII; PHA02600 1261126001111 major tail sheath protein; Provisional; Region: FI; PHA02560 1261126001112 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1261126001113 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1261126001114 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1261126001115 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1261126001116 baseplate assembly protein; Provisional; Region: J; PHA02568 1261126001117 baseplate wedge subunit; Provisional; Region: W; PHA02516 1261126001118 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1261126001119 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1261126001120 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1261126001121 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1261126001122 Mu-like prophage protein [General function prediction only]; Region: COG3941 1261126001123 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1261126001124 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1261126001125 DksA-like zinc finger domain containing protein; Region: PHA00080 1261126001126 phage lambda Rz1-like protein; Region: PHA02047 1261126001127 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1261126001128 catalytic residues [active] 1261126001129 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1261126001130 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1261126001131 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1261126001132 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1261126001133 capsid protein; Provisional; Region: N; PHA02538 1261126001134 capsid-scaffolding protein; Provisional; Region: O; PHA02529 1261126001135 terminase ATPase subunit; Provisional; Region: P; PHA02535 1261126001136 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1261126001137 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1261126001138 portal vertex protein; Provisional; Region: Q; PHA02536 1261126001139 Phage portal protein; Region: Phage_portal; pfam04860 1261126001140 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1261126001141 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1261126001142 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1261126001143 SelR domain; Region: SelR; pfam01641 1261126001144 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1261126001145 tartrate dehydrogenase; Region: TTC; TIGR02089 1261126001146 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1261126001147 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1261126001148 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1261126001149 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126001150 Walker A/P-loop; other site 1261126001151 ATP binding site [chemical binding]; other site 1261126001152 Q-loop/lid; other site 1261126001153 ABC transporter signature motif; other site 1261126001154 Walker B; other site 1261126001155 D-loop; other site 1261126001156 H-loop/switch region; other site 1261126001157 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1261126001158 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 1261126001159 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 1261126001160 dimer interface [polypeptide binding]; other site 1261126001161 conserved gate region; other site 1261126001162 putative PBP binding loops; other site 1261126001163 ABC-ATPase subunit interface; other site 1261126001164 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 1261126001165 dimer interface [polypeptide binding]; other site 1261126001166 conserved gate region; other site 1261126001167 putative PBP binding loops; other site 1261126001168 ABC-ATPase subunit interface; other site 1261126001169 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1261126001170 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1261126001171 peptide binding site [polypeptide binding]; other site 1261126001172 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1261126001173 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 1261126001174 Walker A motif; other site 1261126001175 ATP binding site [chemical binding]; other site 1261126001176 Walker B motif; other site 1261126001177 arginine finger; other site 1261126001178 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 1261126001179 dimer interface [polypeptide binding]; other site 1261126001180 active site 1261126001181 hypothetical protein; Provisional; Region: PRK05170 1261126001182 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1261126001183 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 1261126001184 active site 1261126001185 dimerization interface [polypeptide binding]; other site 1261126001186 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1261126001187 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1261126001188 Coenzyme A binding pocket [chemical binding]; other site 1261126001189 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 1261126001190 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1261126001191 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 1261126001192 dimerization interface [polypeptide binding]; other site 1261126001193 Histidine kinase; Region: HisKA_3; pfam07730 1261126001194 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 1261126001195 ATP binding site [chemical binding]; other site 1261126001196 Mg2+ binding site [ion binding]; other site 1261126001197 G-X-G motif; other site 1261126001198 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1261126001199 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 1261126001200 active site 1261126001201 motif I; other site 1261126001202 motif II; other site 1261126001203 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1261126001204 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1261126001205 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1261126001206 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1261126001207 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1261126001208 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1261126001209 ligand binding site [chemical binding]; other site 1261126001210 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1261126001211 DHH family; Region: DHH; pfam01368 1261126001212 DHHA1 domain; Region: DHHA1; pfam02272 1261126001213 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1261126001214 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 1261126001215 dimerization domain [polypeptide binding]; other site 1261126001216 dimer interface [polypeptide binding]; other site 1261126001217 catalytic residues [active] 1261126001218 putative peptidase; Provisional; Region: PRK11649 1261126001219 Peptidase family M23; Region: Peptidase_M23; pfam01551 1261126001220 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1261126001221 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1261126001222 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1261126001223 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 1261126001224 TPP-binding site [chemical binding]; other site 1261126001225 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1261126001226 dimer interface [polypeptide binding]; other site 1261126001227 PYR/PP interface [polypeptide binding]; other site 1261126001228 TPP binding site [chemical binding]; other site 1261126001229 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1261126001230 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 1261126001231 E3 interaction surface; other site 1261126001232 lipoyl attachment site [posttranslational modification]; other site 1261126001233 e3 binding domain; Region: E3_binding; pfam02817 1261126001234 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1261126001235 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1261126001236 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1261126001237 CoA-ligase; Region: Ligase_CoA; pfam00549 1261126001238 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1261126001239 CoA binding domain; Region: CoA_binding; pfam02629 1261126001240 CoA-ligase; Region: Ligase_CoA; pfam00549 1261126001241 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1261126001242 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1261126001243 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1261126001244 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1261126001245 5S rRNA interface [nucleotide binding]; other site 1261126001246 CTC domain interface [polypeptide binding]; other site 1261126001247 L16 interface [polypeptide binding]; other site 1261126001248 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1261126001249 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1261126001250 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1261126001251 putative NAD(P) binding site [chemical binding]; other site 1261126001252 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 1261126001253 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1261126001254 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 1261126001255 dimer interface [polypeptide binding]; other site 1261126001256 FMN binding site [chemical binding]; other site 1261126001257 NADPH bind site [chemical binding]; other site 1261126001258 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1261126001259 Transglycosylase; Region: Transgly; cl17702 1261126001260 Trp operon repressor; Provisional; Region: PRK01381 1261126001261 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1261126001262 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1261126001263 DNA polymerase I; Provisional; Region: PRK05755 1261126001264 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1261126001265 active site 1261126001266 metal binding site 1 [ion binding]; metal-binding site 1261126001267 putative 5' ssDNA interaction site; other site 1261126001268 metal binding site 3; metal-binding site 1261126001269 metal binding site 2 [ion binding]; metal-binding site 1261126001270 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1261126001271 putative DNA binding site [nucleotide binding]; other site 1261126001272 putative metal binding site [ion binding]; other site 1261126001273 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 1261126001274 active site 1261126001275 catalytic site [active] 1261126001276 substrate binding site [chemical binding]; other site 1261126001277 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1261126001278 active site 1261126001279 DNA binding site [nucleotide binding] 1261126001280 catalytic site [active] 1261126001281 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1261126001282 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 1261126001283 non-specific DNA binding site [nucleotide binding]; other site 1261126001284 salt bridge; other site 1261126001285 sequence-specific DNA binding site [nucleotide binding]; other site 1261126001286 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1261126001287 Predicted transcriptional regulator [Transcription]; Region: COG2932 1261126001288 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 1261126001289 Catalytic site [active] 1261126001290 Haemolysin XhlA; Region: XhlA; pfam10779 1261126001291 YcfA-like protein; Region: YcfA; pfam07927 1261126001292 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1261126001293 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 1261126001294 active site 1261126001295 DNA binding site [nucleotide binding] 1261126001296 Int/Topo IB signature motif; other site 1261126001297 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126001298 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126001299 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126001300 Integrase core domain; Region: rve; pfam00665 1261126001301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126001302 Integrase core domain; Region: rve_3; pfam13683 1261126001303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1261126001304 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1261126001305 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1261126001306 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 1261126001307 substrate binding site [chemical binding]; other site 1261126001308 active site 1261126001309 catalytic residues [active] 1261126001310 heterodimer interface [polypeptide binding]; other site 1261126001311 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1261126001312 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 1261126001313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126001314 catalytic residue [active] 1261126001315 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1261126001316 malonic semialdehyde reductase; Provisional; Region: PRK10538 1261126001317 putative NAD(P) binding site [chemical binding]; other site 1261126001318 homotetramer interface [polypeptide binding]; other site 1261126001319 homodimer interface [polypeptide binding]; other site 1261126001320 active site 1261126001321 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1261126001322 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1261126001323 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1261126001324 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1261126001325 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1261126001326 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1261126001327 putative active site [active] 1261126001328 putative substrate binding site [chemical binding]; other site 1261126001329 putative cosubstrate binding site; other site 1261126001330 catalytic site [active] 1261126001331 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 1261126001332 putative active site [active] 1261126001333 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1261126001334 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1261126001335 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1261126001336 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 1261126001337 dimer interface [polypeptide binding]; other site 1261126001338 putative anticodon binding site; other site 1261126001339 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 1261126001340 motif 1; other site 1261126001341 active site 1261126001342 motif 2; other site 1261126001343 motif 3; other site 1261126001344 ribonuclease G; Provisional; Region: PRK11712 1261126001345 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 1261126001346 homodimer interface [polypeptide binding]; other site 1261126001347 oligonucleotide binding site [chemical binding]; other site 1261126001348 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1261126001349 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1261126001350 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 1261126001351 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1261126001352 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 1261126001353 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 1261126001354 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1261126001355 Domain of unknown function DUF87; Region: DUF87; pfam01935 1261126001356 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1261126001357 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1261126001358 Domain of unknown function DUF87; Region: DUF87; pfam01935 1261126001359 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1261126001360 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1261126001361 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1261126001362 Probable transposase; Region: OrfB_IS605; pfam01385 1261126001363 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1261126001364 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1261126001365 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1261126001366 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1261126001367 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 1261126001368 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1261126001369 uncharacterized domain; Region: TIGR00702 1261126001370 YcaO-like family; Region: YcaO; pfam02624 1261126001371 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1261126001372 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 1261126001373 S-adenosylmethionine binding site [chemical binding]; other site 1261126001374 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1261126001375 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 1261126001376 Mg2+ binding site [ion binding]; other site 1261126001377 G-X-G motif; other site 1261126001378 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 1261126001379 anchoring element; other site 1261126001380 dimer interface [polypeptide binding]; other site 1261126001381 ATP binding site [chemical binding]; other site 1261126001382 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 1261126001383 active site 1261126001384 putative metal-binding site [ion binding]; other site 1261126001385 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1261126001386 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1261126001387 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 1261126001388 ATP binding site [chemical binding]; other site 1261126001389 putative Mg++ binding site [ion binding]; other site 1261126001390 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1261126001391 DNA methylase; Region: N6_N4_Mtase; pfam01555 1261126001392 DNA methylase; Region: N6_N4_Mtase; cl17433 1261126001393 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1261126001394 UbiA prenyltransferase family; Region: UbiA; pfam01040 1261126001395 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1261126001396 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1261126001397 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1261126001398 adenylosuccinate lyase; Provisional; Region: PRK09285 1261126001399 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1261126001400 tetramer interface [polypeptide binding]; other site 1261126001401 active site 1261126001402 putative lysogenization regulator; Reviewed; Region: PRK00218 1261126001403 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1261126001404 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1261126001405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126001406 Walker A/P-loop; other site 1261126001407 ATP binding site [chemical binding]; other site 1261126001408 Q-loop/lid; other site 1261126001409 ABC transporter signature motif; other site 1261126001410 Walker B; other site 1261126001411 D-loop; other site 1261126001412 H-loop/switch region; other site 1261126001413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1261126001414 Family of unknown function (DUF490); Region: DUF490; pfam04357 1261126001415 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1261126001416 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1261126001417 Surface antigen; Region: Bac_surface_Ag; pfam01103 1261126001418 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1261126001419 NodB motif; other site 1261126001420 putative active site [active] 1261126001421 putative catalytic site [active] 1261126001422 Zn binding site [ion binding]; other site 1261126001423 AmiB activator; Provisional; Region: PRK11637 1261126001424 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 1261126001425 Peptidase family M23; Region: Peptidase_M23; pfam01551 1261126001426 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 1261126001427 catalytic core [active] 1261126001428 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 1261126001429 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1261126001430 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 1261126001431 hinge region; other site 1261126001432 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 1261126001433 putative nucleotide binding site [chemical binding]; other site 1261126001434 uridine monophosphate binding site [chemical binding]; other site 1261126001435 homohexameric interface [polypeptide binding]; other site 1261126001436 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1261126001437 Sulfatase; Region: Sulfatase; cl17466 1261126001438 elongation factor Ts; Provisional; Region: tsf; PRK09377 1261126001439 UBA/TS-N domain; Region: UBA; pfam00627 1261126001440 Elongation factor TS; Region: EF_TS; pfam00889 1261126001441 Elongation factor TS; Region: EF_TS; pfam00889 1261126001442 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 1261126001443 rRNA interaction site [nucleotide binding]; other site 1261126001444 S8 interaction site; other site 1261126001445 putative laminin-1 binding site; other site 1261126001446 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1261126001447 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1261126001448 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1261126001449 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 1261126001450 dimer interface [polypeptide binding]; other site 1261126001451 conserved gate region; other site 1261126001452 putative PBP binding loops; other site 1261126001453 ABC-ATPase subunit interface; other site 1261126001454 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 1261126001455 dimer interface [polypeptide binding]; other site 1261126001456 conserved gate region; other site 1261126001457 putative PBP binding loops; other site 1261126001458 ABC-ATPase subunit interface; other site 1261126001459 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1261126001460 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1261126001461 Walker A/P-loop; other site 1261126001462 ATP binding site [chemical binding]; other site 1261126001463 Q-loop/lid; other site 1261126001464 ABC transporter signature motif; other site 1261126001465 Walker B; other site 1261126001466 D-loop; other site 1261126001467 H-loop/switch region; other site 1261126001468 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1261126001469 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 1261126001470 catalytic residues [active] 1261126001471 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1261126001472 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1261126001473 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1261126001474 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 1261126001475 ATP binding site [chemical binding]; other site 1261126001476 Mg++ binding site [ion binding]; other site 1261126001477 motif III; other site 1261126001478 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 1261126001479 nucleotide binding region [chemical binding]; other site 1261126001480 ATP-binding site [chemical binding]; other site 1261126001481 Recombination protein O N terminal; Region: RecO_N; pfam11967 1261126001482 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1261126001483 Recombination protein O C terminal; Region: RecO_C; pfam02565 1261126001484 GTPase Era; Reviewed; Region: era; PRK00089 1261126001485 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1261126001486 G1 box; other site 1261126001487 GTP/Mg2+ binding site [chemical binding]; other site 1261126001488 Switch I region; other site 1261126001489 G2 box; other site 1261126001490 Switch II region; other site 1261126001491 G3 box; other site 1261126001492 G4 box; other site 1261126001493 G5 box; other site 1261126001494 KH domain; Region: KH_2; pfam07650 1261126001495 ribonuclease III; Reviewed; Region: rnc; PRK00102 1261126001496 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 1261126001497 dimerization interface [polypeptide binding]; other site 1261126001498 active site 1261126001499 metal binding site [ion binding]; metal-binding site 1261126001500 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 1261126001501 dsRNA binding site [nucleotide binding]; other site 1261126001502 signal peptidase I; Provisional; Region: PRK10861 1261126001503 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 1261126001504 Catalytic site [active] 1261126001505 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 1261126001506 GTP-binding protein LepA; Provisional; Region: PRK05433 1261126001507 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1261126001508 G1 box; other site 1261126001509 putative GEF interaction site [polypeptide binding]; other site 1261126001510 GTP/Mg2+ binding site [chemical binding]; other site 1261126001511 Switch I region; other site 1261126001512 G2 box; other site 1261126001513 G3 box; other site 1261126001514 Switch II region; other site 1261126001515 G4 box; other site 1261126001516 G5 box; other site 1261126001517 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 1261126001518 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 1261126001519 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1261126001520 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 1261126001521 homodimer interface [polypeptide binding]; other site 1261126001522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126001523 catalytic residue [active] 1261126001524 Hep_Hag; Region: Hep_Hag; pfam05658 1261126001525 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1261126001526 trimer interface [polypeptide binding]; other site 1261126001527 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126001528 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126001529 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126001530 Integrase core domain; Region: rve; pfam00665 1261126001531 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126001532 Integrase core domain; Region: rve_3; pfam13683 1261126001533 Predicted membrane protein [Function unknown]; Region: COG2259 1261126001534 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 1261126001535 Protein of unknown function (DUF692); Region: DUF692; pfam05114 1261126001536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 1261126001537 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1261126001538 RNA polymerase sigma factor; Provisional; Region: PRK12530 1261126001539 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 1261126001540 DNA binding residues [nucleotide binding] 1261126001541 Putative zinc-finger; Region: zf-HC2; pfam13490 1261126001542 Phage-related protein, tail component [Function unknown]; Region: COG4733 1261126001543 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1261126001544 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1261126001545 Phage-related protein, tail component [Function unknown]; Region: COG4723 1261126001546 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 1261126001547 MPN+ (JAMM) motif; other site 1261126001548 Zinc-binding site [ion binding]; other site 1261126001549 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1261126001550 NlpC/P60 family; Region: NLPC_P60; cl17555 1261126001551 Phage-related protein [Function unknown]; Region: gp18; COG4672 1261126001552 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1261126001553 Phage-related minor tail protein [Function unknown]; Region: COG5281 1261126001554 tape measure domain; Region: tape_meas_nterm; TIGR02675 1261126001555 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 1261126001556 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1261126001557 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1261126001558 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1261126001559 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1261126001560 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1261126001561 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 1261126001562 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 1261126001563 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1261126001564 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1261126001565 oligomer interface [polypeptide binding]; other site 1261126001566 active site residues [active] 1261126001567 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1261126001568 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1261126001569 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1261126001570 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1261126001571 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 1261126001572 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1261126001573 Predicted chitinase [General function prediction only]; Region: COG3179 1261126001574 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 1261126001575 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1261126001576 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1261126001577 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1261126001578 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1261126001579 Replication protein P; Region: Phage_lambda_P; pfam06992 1261126001580 Helix-turn-helix domain; Region: HTH_36; pfam13730 1261126001581 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1261126001582 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1261126001583 Predicted transcriptional regulator [Transcription]; Region: COG2932 1261126001584 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 1261126001585 Catalytic site [active] 1261126001586 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 1261126001587 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1261126001588 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 1261126001589 dimer interface [polypeptide binding]; other site 1261126001590 ssDNA binding site [nucleotide binding]; other site 1261126001591 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1261126001592 Uncharacterized conserved protein (DUF2303); Region: DUF2303; pfam10065 1261126001593 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1261126001594 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1261126001595 putative metal binding site [ion binding]; other site 1261126001596 KilA-N domain; Region: KilA-N; pfam04383 1261126001597 Prophage antirepressor [Transcription]; Region: COG3617 1261126001598 BRO family, N-terminal domain; Region: Bro-N; smart01040 1261126001599 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1261126001600 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1261126001601 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 1261126001602 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1261126001603 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1261126001604 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1261126001605 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 1261126001606 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 1261126001607 active site 1261126001608 DNA binding site [nucleotide binding] 1261126001609 Int/Topo IB signature motif; other site 1261126001610 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1261126001611 Na binding site [ion binding]; other site 1261126001612 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1261126001613 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1261126001614 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1261126001615 OstA-like protein; Region: OstA; pfam03968 1261126001616 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1261126001617 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1261126001618 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 1261126001619 FeS/SAM binding site; other site 1261126001620 HemN C-terminal domain; Region: HemN_C; pfam06969 1261126001621 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1261126001622 Der GTPase activator; Provisional; Region: PRK05244 1261126001623 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 1261126001624 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1261126001625 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1261126001626 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1261126001627 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1261126001628 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1261126001629 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1261126001630 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1261126001631 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 1261126001632 ATP binding site [chemical binding]; other site 1261126001633 putative Mg++ binding site [ion binding]; other site 1261126001634 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1261126001635 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1261126001636 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1261126001637 metal binding triad; other site 1261126001638 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1261126001639 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1261126001640 metal binding triad; other site 1261126001641 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1261126001642 YciI-like protein; Reviewed; Region: PRK11370 1261126001643 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 1261126001644 intracellular septation protein A; Reviewed; Region: PRK00259 1261126001645 Protein of unknown function, DUF412; Region: DUF412; cl01183 1261126001646 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1261126001647 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 1261126001648 ATP binding site [chemical binding]; other site 1261126001649 substrate interface [chemical binding]; other site 1261126001650 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1261126001651 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 1261126001652 dimer interface [polypeptide binding]; other site 1261126001653 putative functional site; other site 1261126001654 putative MPT binding site; other site 1261126001655 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1261126001656 AAA domain; Region: AAA_14; pfam13173 1261126001657 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1261126001658 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1261126001659 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126001660 Walker A/P-loop; other site 1261126001661 ATP binding site [chemical binding]; other site 1261126001662 Q-loop/lid; other site 1261126001663 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1261126001664 ABC transporter signature motif; other site 1261126001665 Walker B; other site 1261126001666 D-loop; other site 1261126001667 ABC transporter; Region: ABC_tran_2; pfam12848 1261126001668 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1261126001669 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1261126001670 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 1261126001671 putative C-terminal domain interface [polypeptide binding]; other site 1261126001672 putative GSH binding site (G-site) [chemical binding]; other site 1261126001673 putative dimer interface [polypeptide binding]; other site 1261126001674 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1261126001675 N-terminal domain interface [polypeptide binding]; other site 1261126001676 dimer interface [polypeptide binding]; other site 1261126001677 substrate binding pocket (H-site) [chemical binding]; other site 1261126001678 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1261126001679 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1261126001680 active site 1261126001681 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 1261126001682 catalytic core [active] 1261126001683 hypothetical protein; Provisional; Region: PRK05415 1261126001684 Domain of unknown function (DUF697); Region: DUF697; cl12064 1261126001685 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 1261126001686 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1261126001687 FMN binding site [chemical binding]; other site 1261126001688 active site 1261126001689 catalytic residues [active] 1261126001690 substrate binding site [chemical binding]; other site 1261126001691 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1261126001692 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1261126001693 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1261126001694 putative metal binding site [ion binding]; other site 1261126001695 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 1261126001696 HSP70 interaction site [polypeptide binding]; other site 1261126001697 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1261126001698 ligand binding site [chemical binding]; other site 1261126001699 translocation protein TolB; Provisional; Region: tolB; PRK01742 1261126001700 TolB amino-terminal domain; Region: TolB_N; pfam04052 1261126001701 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1261126001702 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1261126001703 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1261126001704 TolA C-terminal; Region: TolA; pfam06519 1261126001705 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1261126001706 colicin uptake protein TolR; Provisional; Region: PRK11024 1261126001707 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1261126001708 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 1261126001709 active site 1261126001710 cyd operon protein YbgE; Region: cyd_oper_ybgE; TIGR02112 1261126001711 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1261126001712 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1261126001713 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1261126001714 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1261126001715 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1261126001716 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1261126001717 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 1261126001718 ring oligomerisation interface [polypeptide binding]; other site 1261126001719 ATP/Mg binding site [chemical binding]; other site 1261126001720 stacking interactions; other site 1261126001721 hinge regions; other site 1261126001722 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 1261126001723 oligomerisation interface [polypeptide binding]; other site 1261126001724 mobile loop; other site 1261126001725 roof hairpin; other site 1261126001726 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126001727 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126001728 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126001729 Integrase core domain; Region: rve; pfam00665 1261126001730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126001731 Integrase core domain; Region: rve_3; pfam13683 1261126001732 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 1261126001733 active site 1261126001734 8-oxo-dGMP binding site [chemical binding]; other site 1261126001735 nudix motif; other site 1261126001736 metal binding site [ion binding]; metal-binding site 1261126001737 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1261126001738 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1261126001739 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 1261126001740 nucleotide binding region [chemical binding]; other site 1261126001741 ATP-binding site [chemical binding]; other site 1261126001742 SEC-C motif; Region: SEC-C; pfam02810 1261126001743 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 1261126001744 Protein of unknown function (DUF721); Region: DUF721; cl02324 1261126001745 NlpE N-terminal domain; Region: NlpE; pfam04170 1261126001746 BolA-like protein; Region: BolA; cl00386 1261126001747 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1261126001748 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1261126001749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1261126001750 RNA methyltransferase, RsmE family; Region: TIGR00046 1261126001751 hypothetical protein; Validated; Region: PRK00228 1261126001752 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1261126001753 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1261126001754 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1261126001755 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1261126001756 amino acid carrier protein; Region: agcS; TIGR00835 1261126001757 Staphylococcal nuclease homologues; Region: SNc; smart00318 1261126001758 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1261126001759 Catalytic site; other site 1261126001760 Excalibur calcium-binding domain; Region: Excalibur; cl05460 1261126001761 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1261126001762 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1261126001763 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 1261126001764 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1261126001765 catalytic residue [active] 1261126001766 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 1261126001767 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1261126001768 active site 1261126001769 ADP/pyrophosphate binding site [chemical binding]; other site 1261126001770 dimerization interface [polypeptide binding]; other site 1261126001771 allosteric effector site; other site 1261126001772 fructose-1,6-bisphosphate binding site; other site 1261126001773 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1261126001774 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1261126001775 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 1261126001776 Ligand Binding Site [chemical binding]; other site 1261126001777 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 1261126001778 active site residue [active] 1261126001779 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1261126001780 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1261126001781 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1261126001782 homodimer interface [polypeptide binding]; other site 1261126001783 NADP binding site [chemical binding]; other site 1261126001784 substrate binding site [chemical binding]; other site 1261126001785 Abi-like protein; Region: Abi_2; pfam07751 1261126001786 RNA polymerases N / 8 kDa subunit; Region: RNA_pol_N; cl00712 1261126001787 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 1261126001788 non-specific DNA binding site [nucleotide binding]; other site 1261126001789 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1261126001790 salt bridge; other site 1261126001791 sequence-specific DNA binding site [nucleotide binding]; other site 1261126001792 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 1261126001793 Catalytic site [active] 1261126001794 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 1261126001795 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1261126001796 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1261126001797 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 1261126001798 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1261126001799 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126001800 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126001801 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126001802 integrase; Provisional; Region: int; PHA02601 1261126001803 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 1261126001804 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1261126001805 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1261126001806 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1261126001807 RelB antitoxin; Region: RelB; cl01171 1261126001808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1261126001809 tape measure domain; Region: tape_meas_nterm; TIGR02675 1261126001810 NlpC/P60 family; Region: NLPC_P60; cl17555 1261126001811 Phage-related protein, tail component [Function unknown]; Region: COG4723 1261126001812 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 1261126001813 non-specific DNA binding site [nucleotide binding]; other site 1261126001814 salt bridge; other site 1261126001815 sequence-specific DNA binding site [nucleotide binding]; other site 1261126001816 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1261126001817 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1261126001818 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 1261126001819 GDP-binding site [chemical binding]; other site 1261126001820 ACT binding site; other site 1261126001821 IMP binding site; other site 1261126001822 FtsH protease regulator HflC; Provisional; Region: PRK11029 1261126001823 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 1261126001824 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1261126001825 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 1261126001826 HflK protein; Region: hflK; TIGR01933 1261126001827 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 1261126001828 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1261126001829 catalytic residues [active] 1261126001830 OmpW family; Region: OmpW; cl17427 1261126001831 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1261126001832 Clp amino terminal domain; Region: Clp_N; pfam02861 1261126001833 Clp amino terminal domain; Region: Clp_N; pfam02861 1261126001834 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 1261126001835 Walker A motif; other site 1261126001836 ATP binding site [chemical binding]; other site 1261126001837 Walker B motif; other site 1261126001838 arginine finger; other site 1261126001839 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 1261126001840 Walker A motif; other site 1261126001841 ATP binding site [chemical binding]; other site 1261126001842 Walker B motif; other site 1261126001843 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1261126001844 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 1261126001845 substrate binding site [chemical binding]; other site 1261126001846 THF binding site; other site 1261126001847 zinc-binding site [ion binding]; other site 1261126001848 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1261126001849 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 1261126001850 transmembrane helices; other site 1261126001851 cytidine deaminase; Provisional; Region: PRK09027 1261126001852 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1261126001853 active site 1261126001854 catalytic motif [active] 1261126001855 Zn binding site [ion binding]; other site 1261126001856 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 1261126001857 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1261126001858 EamA-like transporter family; Region: EamA; pfam00892 1261126001859 EamA-like transporter family; Region: EamA; pfam00892 1261126001860 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 1261126001861 homooctamer interface [polypeptide binding]; other site 1261126001862 active site 1261126001863 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1261126001864 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1261126001865 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 1261126001866 ATP binding site [chemical binding]; other site 1261126001867 Mg2+ binding site [ion binding]; other site 1261126001868 G-X-G motif; other site 1261126001869 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 1261126001870 anchoring element; other site 1261126001871 dimer interface [polypeptide binding]; other site 1261126001872 ATP binding site [chemical binding]; other site 1261126001873 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 1261126001874 active site 1261126001875 putative metal-binding site [ion binding]; other site 1261126001876 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1261126001877 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1261126001878 HicB family; Region: HicB; pfam05534 1261126001879 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1261126001880 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1261126001881 DNA binding residues [nucleotide binding] 1261126001882 dimer interface [polypeptide binding]; other site 1261126001883 copper binding site [ion binding]; other site 1261126001884 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 1261126001885 metal-binding site [ion binding] 1261126001886 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1261126001887 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 1261126001888 metal-binding site [ion binding] 1261126001889 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1261126001890 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 1261126001891 motif II; other site 1261126001892 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1261126001893 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1261126001894 dimerization interface 3.5A [polypeptide binding]; other site 1261126001895 active site 1261126001896 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 1261126001897 homodecamer interface [polypeptide binding]; other site 1261126001898 active site 1261126001899 putative catalytic site residues [active] 1261126001900 zinc binding site [ion binding]; other site 1261126001901 GTP-CH-I/GFRP interaction surface; other site 1261126001902 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1261126001903 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1261126001904 antiporter inner membrane protein; Provisional; Region: PRK11670 1261126001905 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 1261126001906 Walker A motif; other site 1261126001907 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1261126001908 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1261126001909 peptide binding site [polypeptide binding]; other site 1261126001910 hypothetical protein; Provisional; Region: PRK11111 1261126001911 periplasmic folding chaperone; Provisional; Region: PRK10788 1261126001912 SurA N-terminal domain; Region: SurA_N_3; cl07813 1261126001913 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1261126001914 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 1261126001915 16S/18S rRNA binding site [nucleotide binding]; other site 1261126001916 S13e-L30e interaction site [polypeptide binding]; other site 1261126001917 25S rRNA binding site [nucleotide binding]; other site 1261126001918 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1261126001919 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1261126001920 HemY protein N-terminus; Region: HemY_N; pfam07219 1261126001921 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 1261126001922 TPR motif; other site 1261126001923 binding surface 1261126001924 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1261126001925 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1261126001926 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 1261126001927 active site 1261126001928 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1261126001929 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 1261126001930 domain interfaces; other site 1261126001931 active site 1261126001932 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1261126001933 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1261126001934 putative catalytic cysteine [active] 1261126001935 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1261126001936 putative active site [active] 1261126001937 metal binding site [ion binding]; metal-binding site 1261126001938 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1261126001939 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1261126001940 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1261126001941 Spore germination protein; Region: Spore_permease; cl17796 1261126001942 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1261126001943 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 1261126001944 active site 1261126001945 metal binding site [ion binding]; metal-binding site 1261126001946 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1261126001947 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1261126001948 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1261126001949 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1261126001950 catalytic site [active] 1261126001951 putative active site [active] 1261126001952 putative substrate binding site [chemical binding]; other site 1261126001953 dimer interface [polypeptide binding]; other site 1261126001954 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1261126001955 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1261126001956 active site 1261126001957 (T/H)XGH motif; other site 1261126001958 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1261126001959 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1261126001960 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 1261126001961 putative protease; Provisional; Region: PRK15452 1261126001962 Peptidase family U32; Region: Peptidase_U32; pfam01136 1261126001963 Cytochrome b562; Region: Cytochrom_B562; pfam07361 1261126001964 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1261126001965 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1261126001966 putative active site [active] 1261126001967 putative PHP Thumb interface [polypeptide binding]; other site 1261126001968 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 1261126001969 generic binding surface II; other site 1261126001970 generic binding surface I; other site 1261126001971 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1261126001972 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1261126001973 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1261126001974 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1261126001975 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1261126001976 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 1261126001977 interface (dimer of trimers) [polypeptide binding]; other site 1261126001978 Substrate-binding/catalytic site; other site 1261126001979 Zn-binding sites [ion binding]; other site 1261126001980 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1261126001981 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 1261126001982 dimer interface [polypeptide binding]; other site 1261126001983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126001984 catalytic residue [active] 1261126001985 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1261126001986 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1261126001987 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 1261126001988 RNA binding site [nucleotide binding]; other site 1261126001989 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 1261126001990 multimer interface [polypeptide binding]; other site 1261126001991 Walker A motif; other site 1261126001992 ATP binding site [chemical binding]; other site 1261126001993 Walker B motif; other site 1261126001994 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1261126001995 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 1261126001996 putative active site [active] 1261126001997 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 1261126001998 putative active site [active] 1261126001999 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 1261126002000 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1261126002001 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1261126002002 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 1261126002003 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 1261126002004 catalytic core [active] 1261126002005 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1261126002006 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1261126002007 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1261126002008 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1261126002009 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1261126002010 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 1261126002011 active site 1261126002012 phosphorylation site [posttranslational modification] 1261126002013 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 1261126002014 active pocket/dimerization site; other site 1261126002015 active site 1261126002016 phosphorylation site [posttranslational modification] 1261126002017 acetylornithine aminotransferase; Provisional; Region: PRK02627 1261126002018 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 1261126002019 inhibitor-cofactor binding pocket; inhibition site 1261126002020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126002021 catalytic residue [active] 1261126002022 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 1261126002023 nucleotide binding site [chemical binding]; other site 1261126002024 homohexameric interface [polypeptide binding]; other site 1261126002025 N-acetyl-L-glutamate binding site [chemical binding]; other site 1261126002026 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1261126002027 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1261126002028 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1261126002029 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 1261126002030 putative C-terminal domain interface [polypeptide binding]; other site 1261126002031 putative GSH binding site (G-site) [chemical binding]; other site 1261126002032 putative dimer interface [polypeptide binding]; other site 1261126002033 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1261126002034 N-terminal domain interface [polypeptide binding]; other site 1261126002035 dimer interface [polypeptide binding]; other site 1261126002036 substrate binding pocket (H-site) [chemical binding]; other site 1261126002037 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1261126002038 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 1261126002039 putative active site [active] 1261126002040 putative FMN binding site [chemical binding]; other site 1261126002041 putative substrate binding site [chemical binding]; other site 1261126002042 putative catalytic residue [active] 1261126002043 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 1261126002044 putative FMN binding site [chemical binding]; other site 1261126002045 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1261126002046 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1261126002047 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1261126002048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1261126002049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126002050 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1261126002051 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1261126002052 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1261126002053 intersubunit interface [polypeptide binding]; other site 1261126002054 active site 1261126002055 catalytic residue [active] 1261126002056 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1261126002057 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1261126002058 Nucleoside recognition; Region: Gate; pfam07670 1261126002059 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1261126002060 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1261126002061 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1261126002062 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 1261126002063 active site 1261126002064 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1261126002065 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 1261126002066 active site 1261126002067 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 1261126002068 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 1261126002069 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1261126002070 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1261126002071 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1261126002072 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1261126002073 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 1261126002074 active site 1261126002075 homodimer interface [polypeptide binding]; other site 1261126002076 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1261126002077 ligand binding site; other site 1261126002078 tetramer interface; other site 1261126002079 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 1261126002080 active site 1261126002081 catalytic triad [active] 1261126002082 oxyanion hole [active] 1261126002083 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1261126002084 NeuB family; Region: NeuB; pfam03102 1261126002085 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1261126002086 NeuB binding interface [polypeptide binding]; other site 1261126002087 putative substrate binding site [chemical binding]; other site 1261126002088 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 1261126002089 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1261126002090 putative trimer interface [polypeptide binding]; other site 1261126002091 putative CoA binding site [chemical binding]; other site 1261126002092 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1261126002093 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 1261126002094 putative active site [active] 1261126002095 primosome assembly protein PriA; Validated; Region: PRK05580 1261126002096 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 1261126002097 ATP binding site [chemical binding]; other site 1261126002098 putative Mg++ binding site [ion binding]; other site 1261126002099 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1261126002100 nucleotide binding region [chemical binding]; other site 1261126002101 ATP-binding site [chemical binding]; other site 1261126002102 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1261126002103 EamA-like transporter family; Region: EamA; pfam00892 1261126002104 aminotransferase AlaT; Validated; Region: PRK09265 1261126002105 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 1261126002106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126002107 homodimer interface [polypeptide binding]; other site 1261126002108 catalytic residue [active] 1261126002109 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1261126002110 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1261126002111 Integrase core domain; Region: rve; pfam00665 1261126002112 Integrase core domain; Region: rve_3; pfam13683 1261126002113 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126002114 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126002115 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1261126002116 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 1261126002117 FeS/SAM binding site; other site 1261126002118 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1261126002119 active site 1261126002120 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 1261126002121 Ligand Binding Site [chemical binding]; other site 1261126002122 Membrane fusogenic activity; Region: BMFP; cl01115 1261126002123 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1261126002124 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 1261126002125 active site 1261126002126 dimer interface [polypeptide binding]; other site 1261126002127 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 1261126002128 dimer interface [polypeptide binding]; other site 1261126002129 active site 1261126002130 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1261126002131 AAA domain; Region: AAA_30; pfam13604 1261126002132 Family description; Region: UvrD_C_2; pfam13538 1261126002133 alanine racemase; Reviewed; Region: alr; PRK00053 1261126002134 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1261126002135 active site 1261126002136 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1261126002137 substrate binding site [chemical binding]; other site 1261126002138 catalytic residues [active] 1261126002139 dimer interface [polypeptide binding]; other site 1261126002140 superoxide dismutase; Provisional; Region: PRK10925 1261126002141 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1261126002142 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1261126002143 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1261126002144 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 1261126002145 putative catalytic residues [active] 1261126002146 putative nucleotide binding site [chemical binding]; other site 1261126002147 putative aspartate binding site [chemical binding]; other site 1261126002148 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1261126002149 dimer interface [polypeptide binding]; other site 1261126002150 putative threonine allosteric regulatory site; other site 1261126002151 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1261126002152 putative threonine allosteric regulatory site; other site 1261126002153 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1261126002154 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1261126002155 homoserine kinase; Provisional; Region: PRK01212 1261126002156 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1261126002157 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1261126002158 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1261126002159 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1261126002160 active site 1261126002161 HIGH motif; other site 1261126002162 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1261126002163 KMSKS motif; other site 1261126002164 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1261126002165 tRNA binding surface [nucleotide binding]; other site 1261126002166 anticodon binding site; other site 1261126002167 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 1261126002168 substrate binding site [chemical binding]; other site 1261126002169 Membrane transport protein; Region: Mem_trans; cl09117 1261126002170 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1261126002171 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 1261126002172 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 1261126002173 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 1261126002174 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 1261126002175 molybdopterin cofactor binding site; other site 1261126002176 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1261126002177 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 1261126002178 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1261126002179 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1261126002180 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1261126002181 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1261126002182 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1261126002183 glutathione reductase; Validated; Region: PRK06116 1261126002184 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1261126002185 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1261126002186 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1261126002187 hypothetical protein; Provisional; Region: PRK05208 1261126002188 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 1261126002189 dimer interface [polypeptide binding]; other site 1261126002190 FMN binding site [chemical binding]; other site 1261126002191 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1261126002192 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126002193 Walker A/P-loop; other site 1261126002194 ATP binding site [chemical binding]; other site 1261126002195 Q-loop/lid; other site 1261126002196 ABC transporter signature motif; other site 1261126002197 Walker B; other site 1261126002198 D-loop; other site 1261126002199 H-loop/switch region; other site 1261126002200 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1261126002201 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 1261126002202 active site 1261126002203 intersubunit interface [polypeptide binding]; other site 1261126002204 zinc binding site [ion binding]; other site 1261126002205 Na+ binding site [ion binding]; other site 1261126002206 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 1261126002207 Phosphoglycerate kinase; Region: PGK; pfam00162 1261126002208 substrate binding site [chemical binding]; other site 1261126002209 hinge regions; other site 1261126002210 ADP binding site [chemical binding]; other site 1261126002211 catalytic site [active] 1261126002212 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1261126002213 Na2 binding site [ion binding]; other site 1261126002214 putative substrate binding site 1 [chemical binding]; other site 1261126002215 Na binding site 1 [ion binding]; other site 1261126002216 putative substrate binding site 2 [chemical binding]; other site 1261126002217 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1261126002218 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1261126002219 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1261126002220 active site 1261126002221 dimer interface [polypeptide binding]; other site 1261126002222 metal binding site [ion binding]; metal-binding site 1261126002223 shikimate kinase; Reviewed; Region: aroK; PRK00131 1261126002224 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 1261126002225 ADP binding site [chemical binding]; other site 1261126002226 magnesium binding site [ion binding]; other site 1261126002227 putative shikimate binding site; other site 1261126002228 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1261126002229 Transglycosylase; Region: Transgly; pfam00912 1261126002230 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1261126002231 Competence protein A; Region: Competence_A; pfam11104 1261126002232 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1261126002233 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1261126002234 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1261126002235 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 1261126002236 putative RNA binding site [nucleotide binding]; other site 1261126002237 thiamine monophosphate kinase; Provisional; Region: PRK05731 1261126002238 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 1261126002239 ATP binding site [chemical binding]; other site 1261126002240 dimerization interface [polypeptide binding]; other site 1261126002241 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1261126002242 tetramer interfaces [polypeptide binding]; other site 1261126002243 binuclear metal-binding site [ion binding]; other site 1261126002244 LysE type translocator; Region: LysE; cl00565 1261126002245 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1261126002246 RuvA N terminal domain; Region: RuvA_N; pfam01330 1261126002247 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1261126002248 helix-hairpin-helix signature motif; other site 1261126002249 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1261126002250 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1261126002251 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 1261126002252 Walker A motif; other site 1261126002253 ATP binding site [chemical binding]; other site 1261126002254 Walker B motif; other site 1261126002255 arginine finger; other site 1261126002256 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1261126002257 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 1261126002258 dimer interface [polypeptide binding]; other site 1261126002259 conserved gate region; other site 1261126002260 putative PBP binding loops; other site 1261126002261 ABC-ATPase subunit interface; other site 1261126002262 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1261126002263 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 1261126002264 dimer interface [polypeptide binding]; other site 1261126002265 conserved gate region; other site 1261126002266 putative PBP binding loops; other site 1261126002267 ABC-ATPase subunit interface; other site 1261126002268 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1261126002269 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 1261126002270 substrate binding pocket [chemical binding]; other site 1261126002271 membrane-bound complex binding site; other site 1261126002272 hinge residues; other site 1261126002273 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1261126002274 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1261126002275 Walker A/P-loop; other site 1261126002276 ATP binding site [chemical binding]; other site 1261126002277 Q-loop/lid; other site 1261126002278 ABC transporter signature motif; other site 1261126002279 Walker B; other site 1261126002280 D-loop; other site 1261126002281 H-loop/switch region; other site 1261126002282 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1261126002283 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1261126002284 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1261126002285 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 1261126002286 DsbD alpha interface [polypeptide binding]; other site 1261126002287 catalytic residues [active] 1261126002288 Protein of unknown function, DUF462; Region: DUF462; cl01190 1261126002289 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1261126002290 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1261126002291 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1261126002292 acyl-activating enzyme (AAE) consensus motif; other site 1261126002293 putative AMP binding site [chemical binding]; other site 1261126002294 putative active site [active] 1261126002295 putative CoA binding site [chemical binding]; other site 1261126002296 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 1261126002297 homotrimer interaction site [polypeptide binding]; other site 1261126002298 putative active site [active] 1261126002299 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1261126002300 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 1261126002301 homodimer interface [polypeptide binding]; other site 1261126002302 substrate-cofactor binding pocket; other site 1261126002303 catalytic residue [active] 1261126002304 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 1261126002305 putative GSH binding site [chemical binding]; other site 1261126002306 catalytic residues [active] 1261126002307 recombination protein RecR; Reviewed; Region: recR; PRK00076 1261126002308 RecR protein; Region: RecR; pfam02132 1261126002309 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 1261126002310 putative active site [active] 1261126002311 putative metal-binding site [ion binding]; other site 1261126002312 tetramer interface [polypeptide binding]; other site 1261126002313 hypothetical protein; Validated; Region: PRK00153 1261126002314 recF protein; Region: recf; TIGR00611 1261126002315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126002316 Walker A/P-loop; other site 1261126002317 ATP binding site [chemical binding]; other site 1261126002318 Q-loop/lid; other site 1261126002319 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126002320 ABC transporter signature motif; other site 1261126002321 Walker B; other site 1261126002322 D-loop; other site 1261126002323 H-loop/switch region; other site 1261126002324 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1261126002325 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 1261126002326 arogenate dehydrogenase; Region: PLN02256 1261126002327 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1261126002328 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1261126002329 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 1261126002330 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1261126002331 putative active site [active] 1261126002332 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 1261126002333 pyruvate kinase; Provisional; Region: PRK05826 1261126002334 active site 1261126002335 domain interfaces; other site 1261126002336 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 1261126002337 catalytic core [active] 1261126002338 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1261126002339 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 1261126002340 FMN binding site [chemical binding]; other site 1261126002341 active site 1261126002342 catalytic residues [active] 1261126002343 substrate binding site [chemical binding]; other site 1261126002344 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1261126002345 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1261126002346 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 1261126002347 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 1261126002348 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 1261126002349 ligand-binding site [chemical binding]; other site 1261126002350 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1261126002351 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1261126002352 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1261126002353 dimer interface [polypeptide binding]; other site 1261126002354 catalytic site [active] 1261126002355 putative active site [active] 1261126002356 putative substrate binding site [chemical binding]; other site 1261126002357 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1261126002358 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1261126002359 dimer interface [polypeptide binding]; other site 1261126002360 active site 1261126002361 metal binding site [ion binding]; metal-binding site 1261126002362 glutathione binding site [chemical binding]; other site 1261126002363 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1261126002364 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 1261126002365 catalytic center binding site [active] 1261126002366 ATP binding site [chemical binding]; other site 1261126002367 poly(A) polymerase; Region: pcnB; TIGR01942 1261126002368 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1261126002369 active site 1261126002370 NTP binding site [chemical binding]; other site 1261126002371 metal binding triad [ion binding]; metal-binding site 1261126002372 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1261126002373 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1261126002374 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1261126002375 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1261126002376 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1261126002377 hypothetical protein; Validated; Region: PRK06886 1261126002378 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 1261126002379 active site 1261126002380 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1261126002381 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1261126002382 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1261126002383 Ligand binding site; other site 1261126002384 oligomer interface; other site 1261126002385 thioredoxin reductase; Provisional; Region: PRK10262 1261126002386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1261126002387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1261126002388 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 1261126002389 Dak1 domain; Region: Dak1; pfam02733 1261126002390 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 1261126002391 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1261126002392 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1261126002393 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 1261126002394 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 1261126002395 active site residue [active] 1261126002396 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1261126002397 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1261126002398 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1261126002399 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1261126002400 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1261126002401 cell division protein ZipA; Provisional; Region: PRK01741 1261126002402 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1261126002403 FtsZ protein binding site [polypeptide binding]; other site 1261126002404 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1261126002405 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 1261126002406 nucleotide binding pocket [chemical binding]; other site 1261126002407 K-X-D-G motif; other site 1261126002408 catalytic site [active] 1261126002409 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1261126002410 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1261126002411 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 1261126002412 Dimer interface [polypeptide binding]; other site 1261126002413 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1261126002414 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1261126002415 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 1261126002416 dimer interface [polypeptide binding]; other site 1261126002417 active site 1261126002418 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1261126002419 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1261126002420 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1261126002421 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1261126002422 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1261126002423 TrkA-N domain; Region: TrkA_N; pfam02254 1261126002424 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1261126002425 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 1261126002426 trimer interface; other site 1261126002427 sugar binding site [chemical binding]; other site 1261126002428 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1261126002429 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1261126002430 Walker A/P-loop; other site 1261126002431 ATP binding site [chemical binding]; other site 1261126002432 Q-loop/lid; other site 1261126002433 ABC transporter signature motif; other site 1261126002434 Walker B; other site 1261126002435 D-loop; other site 1261126002436 H-loop/switch region; other site 1261126002437 TOBE domain; Region: TOBE_2; pfam08402 1261126002438 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1261126002439 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1261126002440 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 1261126002441 anticodon binding site; other site 1261126002442 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 1261126002443 dimer interface [polypeptide binding]; other site 1261126002444 conserved gate region; other site 1261126002445 putative PBP binding loops; other site 1261126002446 ABC-ATPase subunit interface; other site 1261126002447 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1261126002448 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 1261126002449 dimer interface [polypeptide binding]; other site 1261126002450 conserved gate region; other site 1261126002451 putative PBP binding loops; other site 1261126002452 ABC-ATPase subunit interface; other site 1261126002453 alpha-amylase; Reviewed; Region: malS; PRK09505 1261126002454 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1261126002455 active site 1261126002456 catalytic site [active] 1261126002457 transcriptional regulator MalT; Provisional; Region: PRK04841 1261126002458 AAA ATPase domain; Region: AAA_16; pfam13191 1261126002459 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 1261126002460 DNA binding residues [nucleotide binding] 1261126002461 dimerization interface [polypeptide binding]; other site 1261126002462 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 1261126002463 homodimer interface [polypeptide binding]; other site 1261126002464 maltodextrin phosphorylase; Provisional; Region: PRK14985 1261126002465 active site pocket [active] 1261126002466 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1261126002467 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1261126002468 putative transporter; Validated; Region: PRK03818 1261126002469 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1261126002470 TrkA-C domain; Region: TrkA_C; pfam02080 1261126002471 TrkA-C domain; Region: TrkA_C; pfam02080 1261126002472 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1261126002473 Predicted permease [General function prediction only]; Region: COG2056 1261126002474 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1261126002475 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1261126002476 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 1261126002477 putative catalytic site [active] 1261126002478 putative phosphate binding site [ion binding]; other site 1261126002479 active site 1261126002480 metal binding site A [ion binding]; metal-binding site 1261126002481 DNA binding site [nucleotide binding] 1261126002482 putative AP binding site [nucleotide binding]; other site 1261126002483 putative metal binding site B [ion binding]; other site 1261126002484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1261126002485 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1261126002486 OstA-like protein; Region: OstA; cl00844 1261126002487 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1261126002488 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1261126002489 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1261126002490 Walker A/P-loop; other site 1261126002491 ATP binding site [chemical binding]; other site 1261126002492 Q-loop/lid; other site 1261126002493 ABC transporter signature motif; other site 1261126002494 Walker B; other site 1261126002495 D-loop; other site 1261126002496 H-loop/switch region; other site 1261126002497 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 1261126002498 active site 1261126002499 phosphorylation site [posttranslational modification] 1261126002500 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1261126002501 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1261126002502 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1261126002503 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1261126002504 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1261126002505 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1261126002506 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126002507 Walker A/P-loop; other site 1261126002508 ATP binding site [chemical binding]; other site 1261126002509 Q-loop/lid; other site 1261126002510 ABC transporter signature motif; other site 1261126002511 Walker B; other site 1261126002512 D-loop; other site 1261126002513 H-loop/switch region; other site 1261126002514 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1261126002515 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1261126002516 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 1261126002517 P loop; other site 1261126002518 GTP binding site [chemical binding]; other site 1261126002519 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1261126002520 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 1261126002521 S-adenosylmethionine binding site [chemical binding]; other site 1261126002522 dsDNA-mimic protein; Reviewed; Region: PRK05094 1261126002523 Flavin Reductases; Region: FlaRed; cl00801 1261126002524 tellurite resistance protein TehB; Provisional; Region: PRK12335 1261126002525 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1261126002526 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 1261126002527 S-adenosylmethionine binding site [chemical binding]; other site 1261126002528 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1261126002529 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 1261126002530 dimerization interface [polypeptide binding]; other site 1261126002531 putative ATP binding site [chemical binding]; other site 1261126002532 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1261126002533 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1261126002534 Aspartase; Region: Aspartase; cd01357 1261126002535 active sites [active] 1261126002536 tetramer interface [polypeptide binding]; other site 1261126002537 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1261126002538 Part of AAA domain; Region: AAA_19; pfam13245 1261126002539 Family description; Region: UvrD_C_2; pfam13538 1261126002540 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1261126002541 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1261126002542 Walker A/P-loop; other site 1261126002543 ATP binding site [chemical binding]; other site 1261126002544 Q-loop/lid; other site 1261126002545 ABC transporter signature motif; other site 1261126002546 Walker B; other site 1261126002547 D-loop; other site 1261126002548 H-loop/switch region; other site 1261126002549 TOBE domain; Region: TOBE_2; pfam08402 1261126002550 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 1261126002551 dimer interface [polypeptide binding]; other site 1261126002552 conserved gate region; other site 1261126002553 putative PBP binding loops; other site 1261126002554 ABC-ATPase subunit interface; other site 1261126002555 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1261126002556 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 1261126002557 dimer interface [polypeptide binding]; other site 1261126002558 conserved gate region; other site 1261126002559 putative PBP binding loops; other site 1261126002560 ABC-ATPase subunit interface; other site 1261126002561 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1261126002562 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 1261126002563 dimer interface [polypeptide binding]; other site 1261126002564 conserved gate region; other site 1261126002565 putative PBP binding loops; other site 1261126002566 ABC-ATPase subunit interface; other site 1261126002567 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1261126002568 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1261126002569 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 1261126002570 dimer interface [polypeptide binding]; other site 1261126002571 conserved gate region; other site 1261126002572 ABC-ATPase subunit interface; other site 1261126002573 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1261126002574 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126002575 Walker A/P-loop; other site 1261126002576 ATP binding site [chemical binding]; other site 1261126002577 Q-loop/lid; other site 1261126002578 ABC transporter signature motif; other site 1261126002579 Walker B; other site 1261126002580 D-loop; other site 1261126002581 H-loop/switch region; other site 1261126002582 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1261126002583 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126002584 Walker A/P-loop; other site 1261126002585 ATP binding site [chemical binding]; other site 1261126002586 Q-loop/lid; other site 1261126002587 ABC transporter signature motif; other site 1261126002588 Walker B; other site 1261126002589 D-loop; other site 1261126002590 H-loop/switch region; other site 1261126002591 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1261126002592 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1261126002593 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 1261126002594 N-terminal plug; other site 1261126002595 ligand-binding site [chemical binding]; other site 1261126002596 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1261126002597 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 1261126002598 intersubunit interface [polypeptide binding]; other site 1261126002599 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1261126002600 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 1261126002601 ABC-ATPase subunit interface; other site 1261126002602 dimer interface [polypeptide binding]; other site 1261126002603 putative PBP binding regions; other site 1261126002604 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 1261126002605 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1261126002606 Walker A/P-loop; other site 1261126002607 ATP binding site [chemical binding]; other site 1261126002608 Q-loop/lid; other site 1261126002609 ABC transporter signature motif; other site 1261126002610 Walker B; other site 1261126002611 D-loop; other site 1261126002612 H-loop/switch region; other site 1261126002613 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1261126002614 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1261126002615 active site 1261126002616 substrate binding site [chemical binding]; other site 1261126002617 cosubstrate binding site; other site 1261126002618 catalytic site [active] 1261126002619 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1261126002620 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 1261126002621 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1261126002622 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1261126002623 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 1261126002624 dimer interface [polypeptide binding]; other site 1261126002625 active site 1261126002626 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1261126002627 folate binding site [chemical binding]; other site 1261126002628 methionine synthase; Provisional; Region: PRK01207 1261126002629 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 1261126002630 substrate binding site [chemical binding]; other site 1261126002631 THF binding site; other site 1261126002632 zinc-binding site [ion binding]; other site 1261126002633 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1261126002634 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1261126002635 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1261126002636 putative methyltransferase; Provisional; Region: PRK10864 1261126002637 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1261126002638 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1261126002639 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1261126002640 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 1261126002641 active site 1261126002642 dimerization interface [polypeptide binding]; other site 1261126002643 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1261126002644 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 1261126002645 TPP-binding site; other site 1261126002646 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 1261126002647 PYR/PP interface [polypeptide binding]; other site 1261126002648 dimer interface [polypeptide binding]; other site 1261126002649 TPP binding site [chemical binding]; other site 1261126002650 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1261126002651 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1261126002652 Carbon starvation protein CstA; Region: CstA; pfam02554 1261126002653 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1261126002654 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1261126002655 active site 1261126002656 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1261126002657 conserved cys residue [active] 1261126002658 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 1261126002659 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1261126002660 putative substrate translocation pore; other site 1261126002661 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1261126002662 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 1261126002663 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1261126002664 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 1261126002665 active site 1261126002666 dimer interface [polypeptide binding]; other site 1261126002667 motif 1; other site 1261126002668 motif 2; other site 1261126002669 motif 3; other site 1261126002670 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 1261126002671 anticodon binding site; other site 1261126002672 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1261126002673 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1261126002674 FtsX-like permease family; Region: FtsX; pfam02687 1261126002675 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1261126002676 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1261126002677 Walker A/P-loop; other site 1261126002678 ATP binding site [chemical binding]; other site 1261126002679 Q-loop/lid; other site 1261126002680 ABC transporter signature motif; other site 1261126002681 Walker B; other site 1261126002682 D-loop; other site 1261126002683 H-loop/switch region; other site 1261126002684 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1261126002685 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1261126002686 FtsX-like permease family; Region: FtsX; pfam02687 1261126002687 glycerate dehydrogenase; Provisional; Region: PRK06932 1261126002688 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1261126002689 putative ligand binding site [chemical binding]; other site 1261126002690 putative NAD binding site [chemical binding]; other site 1261126002691 catalytic site [active] 1261126002692 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1261126002693 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1261126002694 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1261126002695 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1261126002696 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 1261126002697 binding surface 1261126002698 TPR motif; other site 1261126002699 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1261126002700 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 1261126002701 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 1261126002702 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1261126002703 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1261126002704 RF-1 domain; Region: RF-1; pfam00472 1261126002705 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1261126002706 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1261126002707 glutamine binding [chemical binding]; other site 1261126002708 catalytic triad [active] 1261126002709 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1261126002710 RmuC family; Region: RmuC; pfam02646 1261126002711 para-aminobenzoate synthase component I; Validated; Region: PRK07093 1261126002712 hypothetical protein; Provisional; Region: PRK07101 1261126002713 recombinase A; Provisional; Region: recA; PRK09354 1261126002714 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 1261126002715 hexamer interface [polypeptide binding]; other site 1261126002716 Walker A motif; other site 1261126002717 ATP binding site [chemical binding]; other site 1261126002718 Walker B motif; other site 1261126002719 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1261126002720 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 1261126002721 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1261126002722 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1261126002723 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1261126002724 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1261126002725 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1261126002726 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1261126002727 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1261126002728 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1261126002729 shikimate binding site; other site 1261126002730 NAD(P) binding site [chemical binding]; other site 1261126002731 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1261126002732 Part of AAA domain; Region: AAA_19; pfam13245 1261126002733 Family description; Region: UvrD_C_2; pfam13538 1261126002734 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1261126002735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1261126002736 NAD(P) binding site [chemical binding]; other site 1261126002737 active site 1261126002738 arginine repressor; Provisional; Region: PRK05066 1261126002739 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1261126002740 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1261126002741 malate dehydrogenase; Provisional; Region: PRK05086 1261126002742 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1261126002743 NAD binding site [chemical binding]; other site 1261126002744 dimerization interface [polypeptide binding]; other site 1261126002745 Substrate binding site [chemical binding]; other site 1261126002746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1261126002747 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1261126002748 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1261126002749 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 1261126002750 motif I; other site 1261126002751 motif II; other site 1261126002752 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1261126002753 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1261126002754 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 1261126002755 rRNA binding site [nucleotide binding]; other site 1261126002756 predicted 30S ribosome binding site; other site 1261126002757 Predicted flavoproteins [General function prediction only]; Region: COG2081 1261126002758 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1261126002759 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1261126002760 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1261126002761 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1261126002762 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 1261126002763 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 1261126002764 LexA regulated protein; Provisional; Region: PRK11675 1261126002765 flavodoxin FldA; Validated; Region: PRK09267 1261126002766 ferric uptake regulator; Provisional; Region: fur; PRK09462 1261126002767 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1261126002768 metal binding site 2 [ion binding]; metal-binding site 1261126002769 putative DNA binding helix; other site 1261126002770 metal binding site 1 [ion binding]; metal-binding site 1261126002771 dimer interface [polypeptide binding]; other site 1261126002772 structural Zn2+ binding site [ion binding]; other site 1261126002773 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1261126002774 mce related protein; Region: MCE; pfam02470 1261126002775 mce related protein; Region: MCE; pfam02470 1261126002776 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1261126002777 mce related protein; Region: MCE; pfam02470 1261126002778 mce related protein; Region: MCE; pfam02470 1261126002779 mce related protein; Region: MCE; pfam02470 1261126002780 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1261126002781 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1261126002782 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1261126002783 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1261126002784 Walker A/P-loop; other site 1261126002785 ATP binding site [chemical binding]; other site 1261126002786 Q-loop/lid; other site 1261126002787 ABC transporter signature motif; other site 1261126002788 Walker B; other site 1261126002789 D-loop; other site 1261126002790 H-loop/switch region; other site 1261126002791 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1261126002792 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1261126002793 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 1261126002794 Walker A motif; other site 1261126002795 ATP binding site [chemical binding]; other site 1261126002796 Walker B motif; other site 1261126002797 arginine finger; other site 1261126002798 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 1261126002799 DnaA box-binding interface [nucleotide binding]; other site 1261126002800 DNA polymerase III subunit beta; Validated; Region: PRK05643 1261126002801 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 1261126002802 putative DNA binding surface [nucleotide binding]; other site 1261126002803 dimer interface [polypeptide binding]; other site 1261126002804 beta-clamp/clamp loader binding surface; other site 1261126002805 beta-clamp/translesion DNA polymerase binding surface; other site 1261126002806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1261126002807 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1261126002808 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1261126002809 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 1261126002810 dimer interface [polypeptide binding]; other site 1261126002811 motif 1; other site 1261126002812 active site 1261126002813 motif 2; other site 1261126002814 motif 3; other site 1261126002815 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 1261126002816 anticodon binding site; other site 1261126002817 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1261126002818 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1261126002819 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1261126002820 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 1261126002821 non-specific DNA binding site [nucleotide binding]; other site 1261126002822 salt bridge; other site 1261126002823 sequence-specific DNA binding site [nucleotide binding]; other site 1261126002824 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1261126002825 argininosuccinate lyase; Provisional; Region: PRK04833 1261126002826 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1261126002827 active sites [active] 1261126002828 tetramer interface [polypeptide binding]; other site 1261126002829 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1261126002830 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 1261126002831 Ligand Binding Site [chemical binding]; other site 1261126002832 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1261126002833 active site 1261126002834 NTP binding site [chemical binding]; other site 1261126002835 metal binding triad [ion binding]; metal-binding site 1261126002836 antibiotic binding site [chemical binding]; other site 1261126002837 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1261126002838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1261126002839 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1261126002840 ApbE family; Region: ApbE; pfam02424 1261126002841 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1261126002842 active site 1261126002843 NTP binding site [chemical binding]; other site 1261126002844 metal binding triad [ion binding]; metal-binding site 1261126002845 antibiotic binding site [chemical binding]; other site 1261126002846 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1261126002847 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1261126002848 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 1261126002849 FAD binding pocket [chemical binding]; other site 1261126002850 FAD binding motif [chemical binding]; other site 1261126002851 phosphate binding motif [ion binding]; other site 1261126002852 beta-alpha-beta structure motif; other site 1261126002853 NAD binding pocket [chemical binding]; other site 1261126002854 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1261126002855 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1261126002856 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1261126002857 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1261126002858 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1261126002859 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1261126002860 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 1261126002861 E3 interaction surface; other site 1261126002862 lipoyl attachment site [posttranslational modification]; other site 1261126002863 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1261126002864 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1261126002865 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1261126002866 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1261126002867 CTP synthetase; Validated; Region: pyrG; PRK05380 1261126002868 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 1261126002869 Catalytic site [active] 1261126002870 active site 1261126002871 UTP binding site [chemical binding]; other site 1261126002872 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1261126002873 active site 1261126002874 putative oxyanion hole; other site 1261126002875 catalytic triad [active] 1261126002876 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1261126002877 active site 1261126002878 homotetramer interface [polypeptide binding]; other site 1261126002879 homodimer interface [polypeptide binding]; other site 1261126002880 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1261126002881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126002882 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1261126002883 substrate binding site [chemical binding]; other site 1261126002884 dimerization interface [polypeptide binding]; other site 1261126002885 dUMP phosphatase; Provisional; Region: PRK09449 1261126002886 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 1261126002887 motif II; other site 1261126002888 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1261126002889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126002890 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 1261126002891 dimerization interface [polypeptide binding]; other site 1261126002892 substrate binding pocket [chemical binding]; other site 1261126002893 GTPase RsgA; Reviewed; Region: PRK12288 1261126002894 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 1261126002895 RNA binding site [nucleotide binding]; other site 1261126002896 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1261126002897 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1261126002898 GTP/Mg2+ binding site [chemical binding]; other site 1261126002899 G4 box; other site 1261126002900 G5 box; other site 1261126002901 G1 box; other site 1261126002902 Switch I region; other site 1261126002903 G2 box; other site 1261126002904 G3 box; other site 1261126002905 Switch II region; other site 1261126002906 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1261126002907 RNA/DNA hybrid binding site [nucleotide binding]; other site 1261126002908 active site 1261126002909 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 1261126002910 nucleotide binding site/active site [active] 1261126002911 HIT family signature motif; other site 1261126002912 catalytic residue [active] 1261126002913 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1261126002914 putative dimer interface [polypeptide binding]; other site 1261126002915 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1261126002916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1261126002917 Peptidase M15; Region: Peptidase_M15_3; cl01194 1261126002918 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1261126002919 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1261126002920 carboxy-terminal protease; Provisional; Region: PRK11186 1261126002921 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1261126002922 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 1261126002923 protein binding site [polypeptide binding]; other site 1261126002924 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1261126002925 Catalytic dyad [active] 1261126002926 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1261126002927 ProQ/FINO family; Region: ProQ; pfam04352 1261126002928 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 1261126002929 DNA-binding site [nucleotide binding]; DNA binding site 1261126002930 RNA-binding motif; other site 1261126002931 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1261126002932 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 1261126002933 putative substrate translocation pore; other site 1261126002934 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1261126002935 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1261126002936 Putative exonuclease, RdgC; Region: RdgC; pfam04381 1261126002937 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1261126002938 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 1261126002939 motif I; other site 1261126002940 active site 1261126002941 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1261126002942 acetylornithine deacetylase; Provisional; Region: PRK05111 1261126002943 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1261126002944 metal binding site [ion binding]; metal-binding site 1261126002945 putative dimer interface [polypeptide binding]; other site 1261126002946 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1261126002947 outer membrane lipoprotein; Provisional; Region: PRK11023 1261126002948 BON domain; Region: BON; pfam04972 1261126002949 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 1261126002950 dimer interface [polypeptide binding]; other site 1261126002951 active site 1261126002952 hypothetical protein; Reviewed; Region: PRK12497 1261126002953 LppC putative lipoprotein; Region: LppC; pfam04348 1261126002954 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1261126002955 putative ligand binding site [chemical binding]; other site 1261126002956 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1261126002957 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1261126002958 putative SAM binding site [chemical binding]; other site 1261126002959 putative homodimer interface [polypeptide binding]; other site 1261126002960 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 1261126002961 putative substrate translocation pore; other site 1261126002962 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1261126002963 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1261126002964 Na binding site [ion binding]; other site 1261126002965 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1261126002966 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1261126002967 Bacterial transcriptional regulator; Region: IclR; pfam01614 1261126002968 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1261126002969 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1261126002970 Cell division protein ZapA; Region: ZapA; pfam05164 1261126002971 hypothetical protein; Reviewed; Region: PRK01736 1261126002972 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1261126002973 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 1261126002974 substrate binding site [chemical binding]; other site 1261126002975 active site 1261126002976 Protein of unknown function (DUF416); Region: DUF416; cl01166 1261126002977 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 1261126002978 IHF dimer interface [polypeptide binding]; other site 1261126002979 IHF - DNA interface [nucleotide binding]; other site 1261126002980 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1261126002981 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 1261126002982 homodimer interface [polypeptide binding]; other site 1261126002983 oligonucleotide binding site [chemical binding]; other site 1261126002984 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1261126002985 Isochorismatase family; Region: Isochorismatase; pfam00857 1261126002986 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 1261126002987 catalytic triad [active] 1261126002988 conserved cis-peptide bond; other site 1261126002989 Cupin; Region: Cupin_6; pfam12852 1261126002990 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126002991 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1261126002992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126002993 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1261126002994 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 1261126002995 intersubunit interface [polypeptide binding]; other site 1261126002996 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 1261126002997 metal binding site [ion binding]; metal-binding site 1261126002998 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1261126002999 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 1261126003000 PhnA protein; Region: PhnA; pfam03831 1261126003001 ribonuclease R; Region: RNase_R; TIGR02063 1261126003002 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1261126003003 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1261126003004 RNB domain; Region: RNB; pfam00773 1261126003005 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 1261126003006 RNA binding site [nucleotide binding]; other site 1261126003007 cell division protein MraZ; Reviewed; Region: PRK00326 1261126003008 MraZ protein; Region: MraZ; pfam02381 1261126003009 MraZ protein; Region: MraZ; pfam02381 1261126003010 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1261126003011 MraW methylase family; Region: Methyltransf_5; pfam01795 1261126003012 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 1261126003013 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1261126003014 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1261126003015 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1261126003016 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1261126003017 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1261126003018 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1261126003019 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1261126003020 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1261126003021 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1261126003022 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1261126003023 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1261126003024 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1261126003025 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 1261126003026 Mg++ binding site [ion binding]; other site 1261126003027 putative catalytic motif [active] 1261126003028 putative substrate binding site [chemical binding]; other site 1261126003029 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1261126003030 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1261126003031 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1261126003032 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1261126003033 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1261126003034 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 1261126003035 active site 1261126003036 homodimer interface [polypeptide binding]; other site 1261126003037 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1261126003038 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1261126003039 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1261126003040 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1261126003041 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1261126003042 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1261126003043 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1261126003044 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1261126003045 Cell division protein FtsQ; Region: FtsQ; pfam03799 1261126003046 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1261126003047 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1261126003048 nucleotide binding site [chemical binding]; other site 1261126003049 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1261126003050 Cell division protein FtsA; Region: FtsA; pfam14450 1261126003051 cell division protein FtsZ; Validated; Region: PRK09330 1261126003052 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 1261126003053 nucleotide binding site [chemical binding]; other site 1261126003054 SulA interaction site; other site 1261126003055 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1261126003056 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1261126003057 recombination and repair protein; Provisional; Region: PRK10869 1261126003058 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1261126003059 Walker A/P-loop; other site 1261126003060 ATP binding site [chemical binding]; other site 1261126003061 Q-loop/lid; other site 1261126003062 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1261126003063 ABC transporter signature motif; other site 1261126003064 Walker B; other site 1261126003065 D-loop; other site 1261126003066 H-loop/switch region; other site 1261126003067 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1261126003068 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1261126003069 HIGH motif; other site 1261126003070 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1261126003071 active site 1261126003072 KMSKS motif; other site 1261126003073 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1261126003074 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 1261126003075 substrate binding pocket [chemical binding]; other site 1261126003076 membrane-bound complex binding site; other site 1261126003077 hinge residues; other site 1261126003078 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 1261126003079 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1261126003080 catalytic residue [active] 1261126003081 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1261126003082 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 1261126003083 dimerization interface [polypeptide binding]; other site 1261126003084 active site 1261126003085 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1261126003086 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1261126003087 DNA polymerase III subunit chi; Validated; Region: PRK05728 1261126003088 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1261126003089 Coenzyme A binding pocket [chemical binding]; other site 1261126003090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1261126003091 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1261126003092 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1261126003093 HIGH motif; other site 1261126003094 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1261126003095 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1261126003096 active site 1261126003097 KMSKS motif; other site 1261126003098 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1261126003099 tRNA binding surface [nucleotide binding]; other site 1261126003100 anticodon binding site; other site 1261126003101 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1261126003102 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 1261126003103 active site 1261126003104 catalytic triad [active] 1261126003105 oxyanion hole [active] 1261126003106 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1261126003107 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1261126003108 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1261126003109 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1261126003110 aspartate racemase; Region: asp_race; TIGR00035 1261126003111 ORF6N domain; Region: ORF6N; pfam10543 1261126003112 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1261126003113 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 1261126003114 putative active site [active] 1261126003115 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1261126003116 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1261126003117 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1261126003118 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1261126003119 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 1261126003120 active site 1261126003121 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1261126003122 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 1261126003123 dimer interface [polypeptide binding]; other site 1261126003124 ADP-ribose binding site [chemical binding]; other site 1261126003125 active site 1261126003126 nudix motif; other site 1261126003127 metal binding site [ion binding]; metal-binding site 1261126003128 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 1261126003129 RNA binding surface [nucleotide binding]; other site 1261126003130 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1261126003131 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 1261126003132 dimerization interface [polypeptide binding]; other site 1261126003133 domain crossover interface; other site 1261126003134 redox-dependent activation switch; other site 1261126003135 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1261126003136 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1261126003137 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 1261126003138 metal binding site [ion binding]; metal-binding site 1261126003139 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 1261126003140 dimer interface [polypeptide binding]; other site 1261126003141 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1261126003142 metal binding site [ion binding]; metal-binding site 1261126003143 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 1261126003144 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1261126003145 substrate binding site [chemical binding]; other site 1261126003146 glutamase interaction surface [polypeptide binding]; other site 1261126003147 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 1261126003148 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1261126003149 catalytic residues [active] 1261126003150 BRO family, N-terminal domain; Region: Bro-N; smart01040 1261126003151 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1261126003152 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1261126003153 putative active site [active] 1261126003154 oxyanion strand; other site 1261126003155 catalytic triad [active] 1261126003156 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1261126003157 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 1261126003158 active site 1261126003159 motif I; other site 1261126003160 motif II; other site 1261126003161 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1261126003162 putative active site pocket [active] 1261126003163 4-fold oligomerization interface [polypeptide binding]; other site 1261126003164 metal binding residues [ion binding]; metal-binding site 1261126003165 3-fold/trimer interface [polypeptide binding]; other site 1261126003166 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1261126003167 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 1261126003168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126003169 homodimer interface [polypeptide binding]; other site 1261126003170 catalytic residue [active] 1261126003171 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1261126003172 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1261126003173 Coenzyme A binding pocket [chemical binding]; other site 1261126003174 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1261126003175 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1261126003176 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1261126003177 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 1261126003178 S-adenosylmethionine binding site [chemical binding]; other site 1261126003179 DNA polymerase III subunit psi; Validated; Region: PRK06856 1261126003180 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1261126003181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1261126003182 Coenzyme A binding pocket [chemical binding]; other site 1261126003183 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1261126003184 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1261126003185 G1 box; other site 1261126003186 putative GEF interaction site [polypeptide binding]; other site 1261126003187 GTP/Mg2+ binding site [chemical binding]; other site 1261126003188 Switch I region; other site 1261126003189 G2 box; other site 1261126003190 G3 box; other site 1261126003191 Switch II region; other site 1261126003192 G4 box; other site 1261126003193 G5 box; other site 1261126003194 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 1261126003195 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 1261126003196 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1261126003197 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1261126003198 catalytic residue [active] 1261126003199 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1261126003200 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 1261126003201 active site 1261126003202 motif I; other site 1261126003203 motif II; other site 1261126003204 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1261126003205 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1261126003206 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1261126003207 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1261126003208 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1261126003209 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 1261126003210 DNA binding residues [nucleotide binding] 1261126003211 integrase; Provisional; Region: PRK09692 1261126003212 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 1261126003213 active site 1261126003214 Int/Topo IB signature motif; other site 1261126003215 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1261126003216 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1261126003217 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1261126003218 Terminase small subunit; Region: Terminase_2; pfam03592 1261126003219 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1261126003220 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1261126003221 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 1261126003222 trimer interface [polypeptide binding]; other site 1261126003223 active site 1261126003224 substrate binding site [chemical binding]; other site 1261126003225 CoA binding site [chemical binding]; other site 1261126003226 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1261126003227 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1261126003228 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1261126003229 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 1261126003230 SecA binding site; other site 1261126003231 Preprotein binding site; other site 1261126003232 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 1261126003233 active site residue [active] 1261126003234 trigger factor; Provisional; Region: tig; PRK01490 1261126003235 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1261126003236 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1261126003237 elongation factor Tu; Reviewed; Region: PRK00049 1261126003238 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1261126003239 G1 box; other site 1261126003240 GEF interaction site [polypeptide binding]; other site 1261126003241 GTP/Mg2+ binding site [chemical binding]; other site 1261126003242 Switch I region; other site 1261126003243 G2 box; other site 1261126003244 G3 box; other site 1261126003245 Switch II region; other site 1261126003246 G4 box; other site 1261126003247 G5 box; other site 1261126003248 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 1261126003249 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 1261126003250 Antibiotic Binding Site [chemical binding]; other site 1261126003251 elongation factor G; Reviewed; Region: PRK00007 1261126003252 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1261126003253 G1 box; other site 1261126003254 putative GEF interaction site [polypeptide binding]; other site 1261126003255 GTP/Mg2+ binding site [chemical binding]; other site 1261126003256 Switch I region; other site 1261126003257 G2 box; other site 1261126003258 G3 box; other site 1261126003259 Switch II region; other site 1261126003260 G4 box; other site 1261126003261 G5 box; other site 1261126003262 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 1261126003263 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 1261126003264 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 1261126003265 30S ribosomal protein S7; Validated; Region: PRK05302 1261126003266 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 1261126003267 S17 interaction site [polypeptide binding]; other site 1261126003268 S8 interaction site; other site 1261126003269 16S rRNA interaction site [nucleotide binding]; other site 1261126003270 streptomycin interaction site [chemical binding]; other site 1261126003271 23S rRNA interaction site [nucleotide binding]; other site 1261126003272 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1261126003273 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1261126003274 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 1261126003275 putative active site [active] 1261126003276 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1261126003277 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 1261126003278 putative active site [active] 1261126003279 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1261126003280 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1261126003281 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1261126003282 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1261126003283 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1261126003284 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1261126003285 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 1261126003286 ATP binding site [chemical binding]; other site 1261126003287 putative Mg++ binding site [ion binding]; other site 1261126003288 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 1261126003289 nucleotide binding region [chemical binding]; other site 1261126003290 ATP-binding site [chemical binding]; other site 1261126003291 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1261126003292 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1261126003293 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 1261126003294 S-adenosylmethionine binding site [chemical binding]; other site 1261126003295 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1261126003296 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1261126003297 Divergent AAA domain; Region: AAA_4; pfam04326 1261126003298 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1261126003299 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1261126003300 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1261126003301 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1261126003302 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 1261126003303 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1261126003304 active site 1261126003305 DNA binding site [nucleotide binding] 1261126003306 Int/Topo IB signature motif; other site 1261126003307 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1261126003308 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1261126003309 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1261126003310 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1261126003311 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1261126003312 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1261126003313 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1261126003314 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 1261126003315 active pocket/dimerization site; other site 1261126003316 active site 1261126003317 phosphorylation site [posttranslational modification] 1261126003318 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 1261126003319 active site 1261126003320 phosphorylation site [posttranslational modification] 1261126003321 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1261126003322 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1261126003323 hypothetical protein; Provisional; Region: PRK02913 1261126003324 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 1261126003325 triosephosphate isomerase; Provisional; Region: PRK14567 1261126003326 substrate binding site [chemical binding]; other site 1261126003327 dimer interface [polypeptide binding]; other site 1261126003328 catalytic triad [active] 1261126003329 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1261126003330 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1261126003331 Permutation of conserved domain; other site 1261126003332 active site 1261126003333 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1261126003334 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1261126003335 Predicted membrane protein [Function unknown]; Region: COG1238 1261126003336 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1261126003337 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1261126003338 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1261126003339 Peptidase family M23; Region: Peptidase_M23; pfam01551 1261126003340 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1261126003341 acyl carrier protein; Provisional; Region: acpP; PRK00982 1261126003342 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 1261126003343 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1261126003344 substrate binding site [chemical binding]; other site 1261126003345 hexamer interface [polypeptide binding]; other site 1261126003346 metal binding site [ion binding]; metal-binding site 1261126003347 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1261126003348 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1261126003349 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1261126003350 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 1261126003351 substrate binding pocket [chemical binding]; other site 1261126003352 membrane-bound complex binding site; other site 1261126003353 hinge residues; other site 1261126003354 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1261126003355 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 1261126003356 dimer interface [polypeptide binding]; other site 1261126003357 conserved gate region; other site 1261126003358 putative PBP binding loops; other site 1261126003359 ABC-ATPase subunit interface; other site 1261126003360 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1261126003361 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1261126003362 Walker A/P-loop; other site 1261126003363 ATP binding site [chemical binding]; other site 1261126003364 Q-loop/lid; other site 1261126003365 ABC transporter signature motif; other site 1261126003366 Walker B; other site 1261126003367 D-loop; other site 1261126003368 H-loop/switch region; other site 1261126003369 YGGT family; Region: YGGT; pfam02325 1261126003370 YGGT family; Region: YGGT; pfam02325 1261126003371 hypothetical protein; Provisional; Region: PRK11702 1261126003372 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 1261126003373 S-adenosylmethionine binding site [chemical binding]; other site 1261126003374 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1261126003375 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 1261126003376 dimer interface [polypeptide binding]; other site 1261126003377 active site 1261126003378 CoA binding pocket [chemical binding]; other site 1261126003379 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 1261126003380 dimer interface [polypeptide binding]; other site 1261126003381 allosteric magnesium binding site [ion binding]; other site 1261126003382 active site 1261126003383 aspartate-rich active site metal binding site; other site 1261126003384 Schiff base residues; other site 1261126003385 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1261126003386 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1261126003387 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1261126003388 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1261126003389 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1261126003390 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1261126003391 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1261126003392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1261126003393 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1261126003394 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1261126003395 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 1261126003396 S-adenosylmethionine binding site [chemical binding]; other site 1261126003397 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1261126003398 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1261126003399 Cl binding site [ion binding]; other site 1261126003400 oligomer interface [polypeptide binding]; other site 1261126003401 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1261126003402 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 1261126003403 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1261126003404 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1261126003405 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1261126003406 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1261126003407 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 1261126003408 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1261126003409 substrate binding site [chemical binding]; other site 1261126003410 oxyanion hole (OAH) forming residues; other site 1261126003411 trimer interface [polypeptide binding]; other site 1261126003412 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1261126003413 Transglycosylase; Region: Transgly; pfam00912 1261126003414 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1261126003415 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1261126003416 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1261126003417 dimerization interface [polypeptide binding]; other site 1261126003418 DPS ferroxidase diiron center [ion binding]; other site 1261126003419 ion pore; other site 1261126003420 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1261126003421 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 1261126003422 S-adenosylmethionine binding site [chemical binding]; other site 1261126003423 ornithine carbamoyltransferase; Provisional; Region: PRK01713 1261126003424 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1261126003425 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1261126003426 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1261126003427 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1261126003428 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1261126003429 Predicted membrane protein [Function unknown]; Region: COG2259 1261126003430 DNA utilization protein GntX; Provisional; Region: PRK11595 1261126003431 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1261126003432 active site 1261126003433 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 1261126003434 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1261126003435 active site 1261126003436 motif I; other site 1261126003437 motif II; other site 1261126003438 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1261126003439 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1261126003440 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1261126003441 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1261126003442 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1261126003443 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1261126003444 substrate binding pocket [chemical binding]; other site 1261126003445 chain length determination region; other site 1261126003446 substrate-Mg2+ binding site; other site 1261126003447 catalytic residues [active] 1261126003448 aspartate-rich region 1; other site 1261126003449 active site lid residues [active] 1261126003450 aspartate-rich region 2; other site 1261126003451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1261126003452 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1261126003453 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1261126003454 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1261126003455 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1261126003456 NAD(P) binding site [chemical binding]; other site 1261126003457 homotetramer interface [polypeptide binding]; other site 1261126003458 homodimer interface [polypeptide binding]; other site 1261126003459 active site 1261126003460 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 1261126003461 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1261126003462 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1261126003463 DNA binding site [nucleotide binding] 1261126003464 catalytic residue [active] 1261126003465 H2TH interface [polypeptide binding]; other site 1261126003466 putative catalytic residues [active] 1261126003467 turnover-facilitating residue; other site 1261126003468 intercalation triad [nucleotide binding]; other site 1261126003469 8OG recognition residue [nucleotide binding]; other site 1261126003470 putative reading head residues; other site 1261126003471 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1261126003472 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1261126003473 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 1261126003474 putative active site [active] 1261126003475 dimerization interface [polypeptide binding]; other site 1261126003476 putative tRNAtyr binding site [nucleotide binding]; other site 1261126003477 hypothetical protein; Reviewed; Region: PRK01637 1261126003478 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1261126003479 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1261126003480 putative catalytic cysteine [active] 1261126003481 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1261126003482 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 1261126003483 ATP binding site [chemical binding]; other site 1261126003484 Mg2+ binding site [ion binding]; other site 1261126003485 G-X-G motif; other site 1261126003486 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 1261126003487 ATP binding site [chemical binding]; other site 1261126003488 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1261126003489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1261126003490 RelB antitoxin; Region: RelB; cl01171 1261126003491 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1261126003492 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1261126003493 bacterial Hfq-like; Region: Hfq; cd01716 1261126003494 hexamer interface [polypeptide binding]; other site 1261126003495 Sm1 motif; other site 1261126003496 RNA binding site [nucleotide binding]; other site 1261126003497 Sm2 motif; other site 1261126003498 GTPase HflX; Provisional; Region: PRK11058 1261126003499 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1261126003500 HflX GTPase family; Region: HflX; cd01878 1261126003501 G1 box; other site 1261126003502 GTP/Mg2+ binding site [chemical binding]; other site 1261126003503 Switch I region; other site 1261126003504 G2 box; other site 1261126003505 G3 box; other site 1261126003506 Switch II region; other site 1261126003507 G4 box; other site 1261126003508 G5 box; other site 1261126003509 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1261126003510 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1261126003511 trimer interface [polypeptide binding]; other site 1261126003512 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1261126003513 trimer interface [polypeptide binding]; other site 1261126003514 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1261126003515 trimer interface [polypeptide binding]; other site 1261126003516 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1261126003517 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1261126003518 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1261126003519 YadA-like C-terminal region; Region: YadA; pfam03895 1261126003520 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1261126003521 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1261126003522 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1261126003523 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1261126003524 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1261126003525 nucleotide binding site [chemical binding]; other site 1261126003526 chaperone protein DnaJ; Provisional; Region: PRK10767 1261126003527 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 1261126003528 HSP70 interaction site [polypeptide binding]; other site 1261126003529 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1261126003530 substrate binding site [polypeptide binding]; other site 1261126003531 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1261126003532 Zn binding sites [ion binding]; other site 1261126003533 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1261126003534 dimer interface [polypeptide binding]; other site 1261126003535 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1261126003536 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1261126003537 tetramer interface [polypeptide binding]; other site 1261126003538 heme binding pocket [chemical binding]; other site 1261126003539 NADPH binding site [chemical binding]; other site 1261126003540 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 1261126003541 CPxP motif; other site 1261126003542 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1261126003543 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1261126003544 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1261126003545 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1261126003546 metal binding site [ion binding]; metal-binding site 1261126003547 dimer interface [polypeptide binding]; other site 1261126003548 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 1261126003549 ArsC family; Region: ArsC; pfam03960 1261126003550 putative catalytic residues [active] 1261126003551 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 1261126003552 dihydropteroate synthase; Region: DHPS; TIGR01496 1261126003553 substrate binding pocket [chemical binding]; other site 1261126003554 dimer interface [polypeptide binding]; other site 1261126003555 inhibitor binding site; inhibition site 1261126003556 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1261126003557 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 1261126003558 RNA binding surface [nucleotide binding]; other site 1261126003559 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1261126003560 active site 1261126003561 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1261126003562 Conserved TM helix; Region: TM_helix; pfam05552 1261126003563 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1261126003564 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1261126003565 Patatin-like phospholipase; Region: Patatin; pfam01734 1261126003566 active site 1261126003567 nucleophile elbow; other site 1261126003568 Predicted flavoprotein [General function prediction only]; Region: COG0431 1261126003569 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1261126003570 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1261126003571 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126003572 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1261126003573 dimerization interface [polypeptide binding]; other site 1261126003574 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1261126003575 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 1261126003576 active site 1261126003577 FMN binding site [chemical binding]; other site 1261126003578 substrate binding site [chemical binding]; other site 1261126003579 homotetramer interface [polypeptide binding]; other site 1261126003580 catalytic residue [active] 1261126003581 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 1261126003582 dimer interface [polypeptide binding]; other site 1261126003583 FMN binding site [chemical binding]; other site 1261126003584 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1261126003585 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1261126003586 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1261126003587 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1261126003588 putative NAD(P) binding site [chemical binding]; other site 1261126003589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1261126003590 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1261126003591 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1261126003592 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1261126003593 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1261126003594 putative NAD(P) binding site [chemical binding]; other site 1261126003595 putative substrate binding site [chemical binding]; other site 1261126003596 catalytic Zn binding site [ion binding]; other site 1261126003597 structural Zn binding site [ion binding]; other site 1261126003598 dimer interface [polypeptide binding]; other site 1261126003599 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1261126003600 S-formylglutathione hydrolase; Region: PLN02442 1261126003601 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1261126003602 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 1261126003603 phosphate binding site [ion binding]; other site 1261126003604 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 1261126003605 putative active site [active] 1261126003606 Ap4A binding site [chemical binding]; other site 1261126003607 nudix motif; other site 1261126003608 putative metal binding site [ion binding]; other site 1261126003609 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1261126003610 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1261126003611 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1261126003612 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1261126003613 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1261126003614 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 1261126003615 motif II; other site 1261126003616 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1261126003617 PemK-like protein; Region: PemK; pfam02452 1261126003618 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1261126003619 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1261126003620 active site 1261126003621 HIGH motif; other site 1261126003622 dimer interface [polypeptide binding]; other site 1261126003623 KMSKS motif; other site 1261126003624 Peptidase family M48; Region: Peptidase_M48; pfam01435 1261126003625 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 1261126003626 dimer interface [polypeptide binding]; other site 1261126003627 substrate binding site [chemical binding]; other site 1261126003628 metal binding sites [ion binding]; metal-binding site 1261126003629 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1261126003630 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1261126003631 dimerization interface [polypeptide binding]; other site 1261126003632 thymidylate kinase; Validated; Region: tmk; PRK00698 1261126003633 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 1261126003634 TMP-binding site; other site 1261126003635 ATP-binding site [chemical binding]; other site 1261126003636 DNA polymerase III subunit delta'; Validated; Region: PRK06871 1261126003637 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1261126003638 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1261126003639 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1261126003640 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1261126003641 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1261126003642 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1261126003643 active site 1261126003644 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1261126003645 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1261126003646 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1261126003647 putative active site [active] 1261126003648 putative metal binding site [ion binding]; other site 1261126003649 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 1261126003650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1261126003651 DNA-binding site [nucleotide binding]; DNA binding site 1261126003652 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 1261126003653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126003654 homodimer interface [polypeptide binding]; other site 1261126003655 catalytic residue [active] 1261126003656 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1261126003657 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 1261126003658 active site 1261126003659 multimer interface [polypeptide binding]; other site 1261126003660 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1261126003661 predicted active site [active] 1261126003662 catalytic triad [active] 1261126003663 transaldolase-like protein; Provisional; Region: PTZ00411 1261126003664 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1261126003665 active site 1261126003666 dimer interface [polypeptide binding]; other site 1261126003667 catalytic residue [active] 1261126003668 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1261126003669 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 1261126003670 putative metal binding site [ion binding]; other site 1261126003671 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1261126003672 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1261126003673 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1261126003674 active site 1261126003675 HIGH motif; other site 1261126003676 KMSK motif region; other site 1261126003677 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1261126003678 tRNA binding surface [nucleotide binding]; other site 1261126003679 anticodon binding site; other site 1261126003680 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1261126003681 GTP1/OBG; Region: GTP1_OBG; pfam01018 1261126003682 Obg GTPase; Region: Obg; cd01898 1261126003683 G1 box; other site 1261126003684 GTP/Mg2+ binding site [chemical binding]; other site 1261126003685 Switch I region; other site 1261126003686 G2 box; other site 1261126003687 G3 box; other site 1261126003688 Switch II region; other site 1261126003689 G4 box; other site 1261126003690 G5 box; other site 1261126003691 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1261126003692 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1261126003693 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1261126003694 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1261126003695 heme exporter protein CcmC; Region: ccmC; TIGR01191 1261126003696 heme exporter protein CcmB; Region: ccmB; TIGR01190 1261126003697 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1261126003698 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1261126003699 Walker A/P-loop; other site 1261126003700 ATP binding site [chemical binding]; other site 1261126003701 Q-loop/lid; other site 1261126003702 ABC transporter signature motif; other site 1261126003703 Walker B; other site 1261126003704 D-loop; other site 1261126003705 H-loop/switch region; other site 1261126003706 DNA replication initiation factor; Validated; Region: PRK06893 1261126003707 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1261126003708 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1261126003709 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1261126003710 peptide binding site [polypeptide binding]; other site 1261126003711 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1261126003712 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 1261126003713 dimer interface [polypeptide binding]; other site 1261126003714 conserved gate region; other site 1261126003715 putative PBP binding loops; other site 1261126003716 ABC-ATPase subunit interface; other site 1261126003717 dipeptide transporter; Provisional; Region: PRK10913 1261126003718 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1261126003719 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 1261126003720 dimer interface [polypeptide binding]; other site 1261126003721 conserved gate region; other site 1261126003722 putative PBP binding loops; other site 1261126003723 ABC-ATPase subunit interface; other site 1261126003724 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1261126003725 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126003726 Walker A/P-loop; other site 1261126003727 ATP binding site [chemical binding]; other site 1261126003728 Q-loop/lid; other site 1261126003729 ABC transporter signature motif; other site 1261126003730 Walker B; other site 1261126003731 D-loop; other site 1261126003732 H-loop/switch region; other site 1261126003733 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1261126003734 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1261126003735 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126003736 Walker A/P-loop; other site 1261126003737 ATP binding site [chemical binding]; other site 1261126003738 Q-loop/lid; other site 1261126003739 ABC transporter signature motif; other site 1261126003740 Walker B; other site 1261126003741 D-loop; other site 1261126003742 H-loop/switch region; other site 1261126003743 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1261126003744 RNA polymerase sigma factor; Provisional; Region: PRK12530 1261126003745 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1261126003746 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 1261126003747 DNA binding residues [nucleotide binding] 1261126003748 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1261126003749 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1261126003750 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126003751 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126003752 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126003753 Integrase core domain; Region: rve; pfam00665 1261126003754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126003755 Integrase core domain; Region: rve_3; pfam13683 1261126003756 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1261126003757 ParB-like nuclease domain; Region: ParBc; cl02129 1261126003758 RepB plasmid partitioning protein; Region: RepB; pfam07506 1261126003759 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1261126003760 ParB-like nuclease domain; Region: ParB; smart00470 1261126003761 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1261126003762 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1261126003763 catalytic residues [active] 1261126003764 catalytic nucleophile [active] 1261126003765 Recombinase; Region: Recombinase; pfam07508 1261126003766 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 1261126003767 non-specific DNA binding site [nucleotide binding]; other site 1261126003768 salt bridge; other site 1261126003769 sequence-specific DNA binding site [nucleotide binding]; other site 1261126003770 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 1261126003771 S-adenosylmethionine binding site [chemical binding]; other site 1261126003772 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1261126003773 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1261126003774 Part of AAA domain; Region: AAA_19; pfam13245 1261126003775 Family description; Region: UvrD_C_2; pfam13538 1261126003776 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1261126003777 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1261126003778 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 1261126003779 Walker A motif; other site 1261126003780 ATP binding site [chemical binding]; other site 1261126003781 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1261126003782 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1261126003783 Sporulation related domain; Region: SPOR; pfam05036 1261126003784 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1261126003785 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 1261126003786 S-adenosylmethionine binding site [chemical binding]; other site 1261126003787 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1261126003788 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1261126003789 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1261126003790 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 1261126003791 trimer interface [polypeptide binding]; other site 1261126003792 active site 1261126003793 substrate binding site [chemical binding]; other site 1261126003794 CoA binding site [chemical binding]; other site 1261126003795 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1261126003796 Coenzyme A binding pocket [chemical binding]; other site 1261126003797 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1261126003798 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 1261126003799 active site 1261126003800 trimer interface [polypeptide binding]; other site 1261126003801 dimer interface [polypeptide binding]; other site 1261126003802 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 1261126003803 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1261126003804 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1261126003805 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 1261126003806 carboxyltransferase (CT) interaction site; other site 1261126003807 biotinylation site [posttranslational modification]; other site 1261126003808 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1261126003809 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1261126003810 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1261126003811 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1261126003812 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1261126003813 Cupin domain; Region: Cupin_2; cl17218 1261126003814 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 1261126003815 metal binding site [ion binding]; metal-binding site 1261126003816 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1261126003817 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1261126003818 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1261126003819 RimM N-terminal domain; Region: RimM; pfam01782 1261126003820 PRC-barrel domain; Region: PRC; pfam05239 1261126003821 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1261126003822 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 1261126003823 active site turn [active] 1261126003824 phosphorylation site [posttranslational modification] 1261126003825 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1261126003826 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1261126003827 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 1261126003828 putative active site [active] 1261126003829 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1261126003830 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1261126003831 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 1261126003832 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1261126003833 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1261126003834 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 1261126003835 substrate binding site [chemical binding]; other site 1261126003836 ATP binding site [chemical binding]; other site 1261126003837 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1261126003838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1261126003839 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1261126003840 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1261126003841 PYR/PP interface [polypeptide binding]; other site 1261126003842 dimer interface [polypeptide binding]; other site 1261126003843 TPP binding site [chemical binding]; other site 1261126003844 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1261126003845 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 1261126003846 TPP-binding site; other site 1261126003847 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1261126003848 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 1261126003849 Metal-binding active site; metal-binding site 1261126003850 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1261126003851 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1261126003852 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1261126003853 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1261126003854 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1261126003855 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1261126003856 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1261126003857 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 1261126003858 TM-ABC transporter signature motif; other site 1261126003859 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1261126003860 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1261126003861 Walker A/P-loop; other site 1261126003862 ATP binding site [chemical binding]; other site 1261126003863 Q-loop/lid; other site 1261126003864 ABC transporter signature motif; other site 1261126003865 Walker B; other site 1261126003866 D-loop; other site 1261126003867 H-loop/switch region; other site 1261126003868 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1261126003869 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1261126003870 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 1261126003871 ligand binding site [chemical binding]; other site 1261126003872 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1261126003873 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1261126003874 tetrameric interface [polypeptide binding]; other site 1261126003875 NAD binding site [chemical binding]; other site 1261126003876 catalytic residues [active] 1261126003877 KduI/IolB family; Region: KduI; cl01508 1261126003878 succinic semialdehyde dehydrogenase; Region: PLN02278 1261126003879 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1261126003880 tetramerization interface [polypeptide binding]; other site 1261126003881 NAD(P) binding site [chemical binding]; other site 1261126003882 catalytic residues [active] 1261126003883 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1261126003884 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1261126003885 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1261126003886 aspartate racemase; Region: asp_race; TIGR00035 1261126003887 cell density-dependent motility repressor; Provisional; Region: PRK10082 1261126003888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126003889 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1261126003890 dimerization interface [polypeptide binding]; other site 1261126003891 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1261126003892 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1261126003893 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 1261126003894 Shikimate kinase; Region: SKI; pfam01202 1261126003895 ATP-binding site [chemical binding]; other site 1261126003896 Gluconate-6-phosphate binding site [chemical binding]; other site 1261126003897 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1261126003898 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1261126003899 putative dimerization interface [polypeptide binding]; other site 1261126003900 putative ligand binding site [chemical binding]; other site 1261126003901 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126003902 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1261126003903 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126003904 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1261126003905 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1261126003906 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1261126003907 alphaNTD homodimer interface [polypeptide binding]; other site 1261126003908 alphaNTD - beta interaction site [polypeptide binding]; other site 1261126003909 alphaNTD - beta' interaction site [polypeptide binding]; other site 1261126003910 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1261126003911 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1261126003912 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1261126003913 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 1261126003914 RNA binding surface [nucleotide binding]; other site 1261126003915 30S ribosomal protein S11; Validated; Region: PRK05309 1261126003916 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1261126003917 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1261126003918 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1261126003919 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1261126003920 SecY translocase; Region: SecY; pfam00344 1261126003921 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1261126003922 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 1261126003923 23S rRNA binding site [nucleotide binding]; other site 1261126003924 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1261126003925 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1261126003926 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1261126003927 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 1261126003928 23S rRNA interface [nucleotide binding]; other site 1261126003929 L21e interface [polypeptide binding]; other site 1261126003930 5S rRNA interface [nucleotide binding]; other site 1261126003931 L27 interface [polypeptide binding]; other site 1261126003932 L5 interface [polypeptide binding]; other site 1261126003933 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1261126003934 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1261126003935 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1261126003936 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1261126003937 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1261126003938 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1261126003939 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1261126003940 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1261126003941 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1261126003942 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1261126003943 RNA binding site [nucleotide binding]; other site 1261126003944 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1261126003945 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1261126003946 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 1261126003947 glutaminase active site [active] 1261126003948 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 1261126003949 dimer interface [polypeptide binding]; other site 1261126003950 active site 1261126003951 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 1261126003952 dimer interface [polypeptide binding]; other site 1261126003953 active site 1261126003954 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1261126003955 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1261126003956 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1261126003957 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1261126003958 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1261126003959 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1261126003960 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 1261126003961 dimer interface [polypeptide binding]; other site 1261126003962 conserved gate region; other site 1261126003963 putative PBP binding loops; other site 1261126003964 ABC-ATPase subunit interface; other site 1261126003965 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 1261126003966 dimer interface [polypeptide binding]; other site 1261126003967 conserved gate region; other site 1261126003968 putative PBP binding loops; other site 1261126003969 ABC-ATPase subunit interface; other site 1261126003970 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 1261126003971 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1261126003972 Walker A/P-loop; other site 1261126003973 ATP binding site [chemical binding]; other site 1261126003974 Q-loop/lid; other site 1261126003975 ABC transporter signature motif; other site 1261126003976 Walker B; other site 1261126003977 D-loop; other site 1261126003978 H-loop/switch region; other site 1261126003979 TOBE domain; Region: TOBE_2; pfam08402 1261126003980 elongation factor Tu; Reviewed; Region: PRK00049 1261126003981 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1261126003982 G1 box; other site 1261126003983 GEF interaction site [polypeptide binding]; other site 1261126003984 GTP/Mg2+ binding site [chemical binding]; other site 1261126003985 Switch I region; other site 1261126003986 G2 box; other site 1261126003987 G3 box; other site 1261126003988 Switch II region; other site 1261126003989 G4 box; other site 1261126003990 G5 box; other site 1261126003991 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 1261126003992 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 1261126003993 Antibiotic Binding Site [chemical binding]; other site 1261126003994 pantothenate kinase; Provisional; Region: PRK05439 1261126003995 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 1261126003996 ATP-binding site [chemical binding]; other site 1261126003997 CoA-binding site [chemical binding]; other site 1261126003998 Mg2+-binding site [ion binding]; other site 1261126003999 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1261126004000 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 1261126004001 catalytic residues [active] 1261126004002 central insert; other site 1261126004003 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1261126004004 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1261126004005 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1261126004006 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 1261126004007 binding surface 1261126004008 TPR motif; other site 1261126004009 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 1261126004010 MPT binding site; other site 1261126004011 trimer interface [polypeptide binding]; other site 1261126004012 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1261126004013 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1261126004014 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1261126004015 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1261126004016 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1261126004017 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1261126004018 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1261126004019 hypothetical protein; Provisional; Region: PRK11027 1261126004020 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1261126004021 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 1261126004022 S-adenosylmethionine binding site [chemical binding]; other site 1261126004023 Protein of unknown function (DUF454); Region: DUF454; cl01063 1261126004024 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1261126004025 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 1261126004026 active site 1261126004027 Int/Topo IB signature motif; other site 1261126004028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1261126004029 YheO-like PAS domain; Region: PAS_6; pfam08348 1261126004030 HTH domain; Region: HTH_22; pfam13309 1261126004031 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1261126004032 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1261126004033 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1261126004034 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1261126004035 DALR anticodon binding domain; Region: DALR_1; pfam05746 1261126004036 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1261126004037 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1261126004038 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 1261126004039 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 1261126004040 dimer interface [polypeptide binding]; other site 1261126004041 motif 1; other site 1261126004042 active site 1261126004043 motif 2; other site 1261126004044 motif 3; other site 1261126004045 Dihaem cytochrome c; Region: DHC; pfam09626 1261126004046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1261126004047 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1261126004048 NAD(P) binding site [chemical binding]; other site 1261126004049 active site 1261126004050 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 1261126004051 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 1261126004052 FeS/SAM binding site; other site 1261126004053 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 1261126004054 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1261126004055 Predicted peptidase [General function prediction only]; Region: COG4099 1261126004056 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1261126004057 GntP family permease; Region: GntP_permease; pfam02447 1261126004058 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1261126004059 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 1261126004060 Metal-binding active site; metal-binding site 1261126004061 putative aldolase; Validated; Region: PRK08130 1261126004062 intersubunit interface [polypeptide binding]; other site 1261126004063 active site 1261126004064 Zn2+ binding site [ion binding]; other site 1261126004065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1261126004066 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1261126004067 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1261126004068 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1261126004069 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1261126004070 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1261126004071 signal recognition particle protein; Provisional; Region: PRK10867 1261126004072 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1261126004073 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 1261126004074 P loop; other site 1261126004075 GTP binding site [chemical binding]; other site 1261126004076 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1261126004077 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1261126004078 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1261126004079 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 1261126004080 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 1261126004081 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1261126004082 catalytic residue [active] 1261126004083 oxidative damage protection protein; Provisional; Region: PRK05408 1261126004084 adenine DNA glycosylase; Provisional; Region: PRK10880 1261126004085 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1261126004086 minor groove reading motif; other site 1261126004087 helix-hairpin-helix signature motif; other site 1261126004088 substrate binding pocket [chemical binding]; other site 1261126004089 active site 1261126004090 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1261126004091 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 1261126004092 DNA binding and oxoG recognition site [nucleotide binding] 1261126004093 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 1261126004094 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1261126004095 putative metal binding site [ion binding]; other site 1261126004096 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1261126004097 EamA-like transporter family; Region: EamA; pfam00892 1261126004098 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1261126004099 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 1261126004100 active site 1261126004101 HslU subunit interaction site [polypeptide binding]; other site 1261126004102 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1261126004103 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 1261126004104 Walker A motif; other site 1261126004105 ATP binding site [chemical binding]; other site 1261126004106 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 1261126004107 Walker B motif; other site 1261126004108 arginine finger; other site 1261126004109 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1261126004110 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1261126004111 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1261126004112 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 1261126004113 substrate binding pocket [chemical binding]; other site 1261126004114 membrane-bound complex binding site; other site 1261126004115 hinge residues; other site 1261126004116 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1261126004117 RTX N-terminal domain; Region: RTX; pfam02382 1261126004118 RTX C-terminal domain; Region: RTX_C; pfam08339 1261126004119 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 1261126004120 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1261126004121 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1261126004122 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 1261126004123 Walker A/P-loop; other site 1261126004124 ATP binding site [chemical binding]; other site 1261126004125 Q-loop/lid; other site 1261126004126 ABC transporter signature motif; other site 1261126004127 Walker B; other site 1261126004128 D-loop; other site 1261126004129 H-loop/switch region; other site 1261126004130 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1261126004131 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1261126004132 HlyD family secretion protein; Region: HlyD_3; pfam13437 1261126004133 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1261126004134 NMT1-like family; Region: NMT1_2; pfam13379 1261126004135 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1261126004136 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 1261126004137 dimer interface [polypeptide binding]; other site 1261126004138 conserved gate region; other site 1261126004139 putative PBP binding loops; other site 1261126004140 ABC-ATPase subunit interface; other site 1261126004141 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1261126004142 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1261126004143 active site 1261126004144 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1261126004145 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1261126004146 glycerol kinase; Provisional; Region: glpK; PRK00047 1261126004147 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1261126004148 N- and C-terminal domain interface [polypeptide binding]; other site 1261126004149 active site 1261126004150 MgATP binding site [chemical binding]; other site 1261126004151 catalytic site [active] 1261126004152 metal binding site [ion binding]; metal-binding site 1261126004153 glycerol binding site [chemical binding]; other site 1261126004154 homotetramer interface [polypeptide binding]; other site 1261126004155 homodimer interface [polypeptide binding]; other site 1261126004156 FBP binding site [chemical binding]; other site 1261126004157 protein IIAGlc interface [polypeptide binding]; other site 1261126004158 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 1261126004159 amphipathic channel; other site 1261126004160 Asn-Pro-Ala signature motifs; other site 1261126004161 CrcB-like protein; Region: CRCB; cl09114 1261126004162 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1261126004163 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1261126004164 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1261126004165 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1261126004166 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1261126004167 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1261126004168 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1261126004169 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1261126004170 xylulokinase; Provisional; Region: PRK15027 1261126004171 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1261126004172 N- and C-terminal domain interface [polypeptide binding]; other site 1261126004173 active site 1261126004174 MgATP binding site [chemical binding]; other site 1261126004175 catalytic site [active] 1261126004176 metal binding site [ion binding]; metal-binding site 1261126004177 xylulose binding site [chemical binding]; other site 1261126004178 homodimer interface [polypeptide binding]; other site 1261126004179 xylose isomerase; Provisional; Region: PRK05474 1261126004180 xylose isomerase; Region: xylose_isom_A; TIGR02630 1261126004181 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1261126004182 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 1261126004183 putative ligand binding site [chemical binding]; other site 1261126004184 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1261126004185 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1261126004186 Walker A/P-loop; other site 1261126004187 ATP binding site [chemical binding]; other site 1261126004188 Q-loop/lid; other site 1261126004189 ABC transporter signature motif; other site 1261126004190 Walker B; other site 1261126004191 D-loop; other site 1261126004192 H-loop/switch region; other site 1261126004193 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1261126004194 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1261126004195 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 1261126004196 TM-ABC transporter signature motif; other site 1261126004197 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1261126004198 Predicted transcriptional regulator [Transcription]; Region: Nlp; COG3423 1261126004199 transcriptional repressor DicA; Reviewed; Region: PRK09706 1261126004200 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 1261126004201 non-specific DNA binding site [nucleotide binding]; other site 1261126004202 salt bridge; other site 1261126004203 sequence-specific DNA binding site [nucleotide binding]; other site 1261126004204 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 1261126004205 transmembrane helices; other site 1261126004206 TrkA-C domain; Region: TrkA_C; pfam02080 1261126004207 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1261126004208 TrkA-C domain; Region: TrkA_C; pfam02080 1261126004209 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 1261126004210 Mannitol repressor; Region: MtlR; cl11450 1261126004211 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1261126004212 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1261126004213 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1261126004214 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1261126004215 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1261126004216 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1261126004217 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 1261126004218 active site 1261126004219 P-loop; other site 1261126004220 phosphorylation site [posttranslational modification] 1261126004221 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 1261126004222 active site 1261126004223 phosphorylation site [posttranslational modification] 1261126004224 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1261126004225 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 1261126004226 putative active site [active] 1261126004227 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 1261126004228 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1261126004229 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1261126004230 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1261126004231 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1261126004232 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 1261126004233 motif II; other site 1261126004234 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 1261126004235 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1261126004236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1261126004237 NAD(P) binding site [chemical binding]; other site 1261126004238 active site 1261126004239 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1261126004240 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1261126004241 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1261126004242 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1261126004243 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 1261126004244 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 1261126004245 metal-binding site [ion binding] 1261126004246 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1261126004247 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1261126004248 putative oxidoreductase; Provisional; Region: PRK11579 1261126004249 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1261126004250 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1261126004251 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 1261126004252 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1261126004253 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 1261126004254 DNA binding residues [nucleotide binding] 1261126004255 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1261126004256 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 1261126004257 Moco binding site; other site 1261126004258 metal coordination site [ion binding]; other site 1261126004259 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1261126004260 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1261126004261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1261126004262 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1261126004263 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1261126004264 Transposase IS200 like; Region: Y1_Tnp; cl00848 1261126004265 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 1261126004266 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1261126004267 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 1261126004268 dimerization interface [polypeptide binding]; other site 1261126004269 ATP binding site [chemical binding]; other site 1261126004270 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 1261126004271 dimerization interface [polypeptide binding]; other site 1261126004272 ATP binding site [chemical binding]; other site 1261126004273 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1261126004274 putative active site [active] 1261126004275 catalytic triad [active] 1261126004276 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1261126004277 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 1261126004278 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1261126004279 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1261126004280 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1261126004281 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1261126004282 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1261126004283 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 1261126004284 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1261126004285 trimer interface [polypeptide binding]; other site 1261126004286 substrate binding site [chemical binding]; other site 1261126004287 Mn binding site [ion binding]; other site 1261126004288 L-fuculokinase; Provisional; Region: PRK10331 1261126004289 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1261126004290 nucleotide binding site [chemical binding]; other site 1261126004291 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1261126004292 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 1261126004293 intersubunit interface [polypeptide binding]; other site 1261126004294 active site 1261126004295 Zn2+ binding site [ion binding]; other site 1261126004296 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1261126004297 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1261126004298 Walker A/P-loop; other site 1261126004299 ATP binding site [chemical binding]; other site 1261126004300 Q-loop/lid; other site 1261126004301 ABC transporter signature motif; other site 1261126004302 Walker B; other site 1261126004303 D-loop; other site 1261126004304 H-loop/switch region; other site 1261126004305 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1261126004306 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1261126004307 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 1261126004308 TM-ABC transporter signature motif; other site 1261126004309 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1261126004310 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 1261126004311 putative ligand binding site [chemical binding]; other site 1261126004312 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 1261126004313 active site turn [active] 1261126004314 phosphorylation site [posttranslational modification] 1261126004315 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1261126004316 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1261126004317 dimer interface [polypeptide binding]; other site 1261126004318 active site 1261126004319 metal binding site [ion binding]; metal-binding site 1261126004320 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1261126004321 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1261126004322 NAD binding site [chemical binding]; other site 1261126004323 catalytic residues [active] 1261126004324 substrate binding site [chemical binding]; other site 1261126004325 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1261126004326 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1261126004327 TrkA-N domain; Region: TrkA_N; pfam02254 1261126004328 TrkA-C domain; Region: TrkA_C; pfam02080 1261126004329 TrkA-N domain; Region: TrkA_N; pfam02254 1261126004330 TrkA-C domain; Region: TrkA_C; pfam02080 1261126004331 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1261126004332 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 1261126004333 putative RNA binding site [nucleotide binding]; other site 1261126004334 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 1261126004335 S-adenosylmethionine binding site [chemical binding]; other site 1261126004336 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 1261126004337 Ligand Binding Site [chemical binding]; other site 1261126004338 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1261126004339 DctM-like transporters; Region: DctM; pfam06808 1261126004340 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1261126004341 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1261126004342 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1261126004343 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1261126004344 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1261126004345 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1261126004346 G1 box; other site 1261126004347 putative GEF interaction site [polypeptide binding]; other site 1261126004348 GTP/Mg2+ binding site [chemical binding]; other site 1261126004349 Switch I region; other site 1261126004350 G2 box; other site 1261126004351 G3 box; other site 1261126004352 Switch II region; other site 1261126004353 G4 box; other site 1261126004354 G5 box; other site 1261126004355 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 1261126004356 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 1261126004357 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1261126004358 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1261126004359 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1261126004360 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1261126004361 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1261126004362 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1261126004363 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 1261126004364 putative active site cavity [active] 1261126004365 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1261126004366 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1261126004367 nucleotide binding site [chemical binding]; other site 1261126004368 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1261126004369 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1261126004370 inhibitor site; inhibition site 1261126004371 active site 1261126004372 dimer interface [polypeptide binding]; other site 1261126004373 catalytic residue [active] 1261126004374 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 1261126004375 sequence-specific DNA binding site [nucleotide binding]; other site 1261126004376 Predicted transcriptional regulator [Transcription]; Region: COG2932 1261126004377 salt bridge; other site 1261126004378 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 1261126004379 Catalytic site [active] 1261126004380 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1261126004381 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1261126004382 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1261126004383 Phage tail tube protein; Region: Tail_tube; pfam10618 1261126004384 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1261126004385 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 1261126004386 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1261126004387 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1261126004388 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1261126004389 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1261126004390 peptide binding site [polypeptide binding]; other site 1261126004391 FMN-binding protein MioC; Provisional; Region: PRK09004 1261126004392 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1261126004393 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 1261126004394 dimerization interface [polypeptide binding]; other site 1261126004395 putative DNA binding site [nucleotide binding]; other site 1261126004396 putative Zn2+ binding site [ion binding]; other site 1261126004397 AsnC family; Region: AsnC_trans_reg; pfam01037 1261126004398 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 1261126004399 dimer interface [polypeptide binding]; other site 1261126004400 active site 1261126004401 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1261126004402 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1261126004403 gamma subunit interface [polypeptide binding]; other site 1261126004404 epsilon subunit interface [polypeptide binding]; other site 1261126004405 LBP interface [polypeptide binding]; other site 1261126004406 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1261126004407 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1261126004408 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 1261126004409 alpha subunit interaction interface [polypeptide binding]; other site 1261126004410 Walker A motif; other site 1261126004411 ATP binding site [chemical binding]; other site 1261126004412 Walker B motif; other site 1261126004413 inhibitor binding site; inhibition site 1261126004414 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1261126004415 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1261126004416 core domain interface [polypeptide binding]; other site 1261126004417 delta subunit interface [polypeptide binding]; other site 1261126004418 epsilon subunit interface [polypeptide binding]; other site 1261126004419 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1261126004420 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1261126004421 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 1261126004422 beta subunit interaction interface [polypeptide binding]; other site 1261126004423 Walker A motif; other site 1261126004424 ATP binding site [chemical binding]; other site 1261126004425 Walker B motif; other site 1261126004426 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1261126004427 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1261126004428 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1261126004429 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1261126004430 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1261126004431 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1261126004432 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1261126004433 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1261126004434 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 1261126004435 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1261126004436 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1261126004437 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1261126004438 catalytic site [active] 1261126004439 subunit interface [polypeptide binding]; other site 1261126004440 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1261126004441 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1261126004442 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1261126004443 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1261126004444 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1261126004445 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1261126004446 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 1261126004447 IMP binding site; other site 1261126004448 dimer interface [polypeptide binding]; other site 1261126004449 interdomain contacts; other site 1261126004450 partial ornithine binding site; other site 1261126004451 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 1261126004452 substrate binding site [chemical binding]; other site 1261126004453 Mn binding site [ion binding]; other site 1261126004454 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 1261126004455 Domain of unknown function (DUF386); Region: DUF386; cl01047 1261126004456 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1261126004457 DctM-like transporters; Region: DctM; pfam06808 1261126004458 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1261126004459 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1261126004460 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1261126004461 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1261126004462 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1261126004463 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1261126004464 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1261126004465 Walker A/P-loop; other site 1261126004466 ATP binding site [chemical binding]; other site 1261126004467 Q-loop/lid; other site 1261126004468 ABC transporter signature motif; other site 1261126004469 Walker B; other site 1261126004470 D-loop; other site 1261126004471 H-loop/switch region; other site 1261126004472 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1261126004473 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 1261126004474 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1261126004475 TM-ABC transporter signature motif; other site 1261126004476 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1261126004477 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1261126004478 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1261126004479 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1261126004480 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1261126004481 putative N- and C-terminal domain interface [polypeptide binding]; other site 1261126004482 putative active site [active] 1261126004483 MgATP binding site [chemical binding]; other site 1261126004484 catalytic site [active] 1261126004485 metal binding site [ion binding]; metal-binding site 1261126004486 putative xylulose binding site [chemical binding]; other site 1261126004487 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1261126004488 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1261126004489 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 1261126004490 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 1261126004491 putative substrate translocation pore; other site 1261126004492 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 1261126004493 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1261126004494 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1261126004495 active site 1261126004496 catalytic site [active] 1261126004497 metal binding site [ion binding]; metal-binding site 1261126004498 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1261126004499 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 1261126004500 putative substrate translocation pore; other site 1261126004501 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 1261126004502 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1261126004503 active site 1261126004504 catalytic tetrad [active] 1261126004505 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1261126004506 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1261126004507 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1261126004508 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 1261126004509 S-adenosylmethionine binding site [chemical binding]; other site 1261126004510 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1261126004511 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1261126004512 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1261126004513 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1261126004514 hypothetical protein; Provisional; Region: PRK01752 1261126004515 SEC-C motif; Region: SEC-C; pfam02810 1261126004516 SEC-C motif; Region: SEC-C; pfam02810 1261126004517 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1261126004518 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1261126004519 putative metal binding site [ion binding]; other site 1261126004520 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1261126004521 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1261126004522 Walker A/P-loop; other site 1261126004523 ATP binding site [chemical binding]; other site 1261126004524 Q-loop/lid; other site 1261126004525 ABC transporter signature motif; other site 1261126004526 Walker B; other site 1261126004527 D-loop; other site 1261126004528 H-loop/switch region; other site 1261126004529 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1261126004530 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1261126004531 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1261126004532 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1261126004533 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1261126004534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1261126004535 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1261126004536 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1261126004537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1261126004538 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1261126004539 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1261126004540 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1261126004541 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1261126004542 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1261126004543 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1261126004544 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 1261126004545 active site 1261126004546 homodimer interface [polypeptide binding]; other site 1261126004547 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 1261126004548 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1261126004549 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1261126004550 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1261126004551 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 1261126004552 P-loop; other site 1261126004553 Magnesium ion binding site [ion binding]; other site 1261126004554 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 1261126004555 Magnesium ion binding site [ion binding]; other site 1261126004556 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1261126004557 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 1261126004558 active site 1261126004559 substrate binding site [chemical binding]; other site 1261126004560 metal binding site [ion binding]; metal-binding site 1261126004561 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1261126004562 Pathogenicity locus; Region: Cdd1; pfam11731 1261126004563 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 1261126004564 generic binding surface II; other site 1261126004565 ssDNA binding site; other site 1261126004566 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 1261126004567 ATP binding site [chemical binding]; other site 1261126004568 putative Mg++ binding site [ion binding]; other site 1261126004569 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 1261126004570 nucleotide binding region [chemical binding]; other site 1261126004571 ATP-binding site [chemical binding]; other site 1261126004572 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 1261126004573 oligomeric interface; other site 1261126004574 putative active site [active] 1261126004575 homodimer interface [polypeptide binding]; other site 1261126004576 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1261126004577 heat shock protein 90; Provisional; Region: PRK05218 1261126004578 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 1261126004579 ATP binding site [chemical binding]; other site 1261126004580 Mg2+ binding site [ion binding]; other site 1261126004581 G-X-G motif; other site 1261126004582 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1261126004583 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 1261126004584 dimer interface [polypeptide binding]; other site 1261126004585 motif 1; other site 1261126004586 active site 1261126004587 motif 2; other site 1261126004588 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 1261126004589 putative deacylase active site [active] 1261126004590 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 1261126004591 active site 1261126004592 motif 3; other site 1261126004593 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 1261126004594 anticodon binding site; other site 1261126004595 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1261126004596 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 1261126004597 active site 1261126004598 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 1261126004599 motif II; other site 1261126004600 uridine phosphorylase; Provisional; Region: PRK11178 1261126004601 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1261126004602 Chorismate lyase; Region: Chor_lyase; cl01230 1261126004603 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1261126004604 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1261126004605 glutamate racemase; Provisional; Region: PRK00865 1261126004606 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1261126004607 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 1261126004608 active site 1261126004609 Int/Topo IB signature motif; other site 1261126004610 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1261126004611 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 1261126004612 Ligand Binding Site [chemical binding]; other site 1261126004613 TilS substrate binding domain; Region: TilS; pfam09179 1261126004614 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1261126004615 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1261126004616 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1261126004617 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1261126004618 G1 box; other site 1261126004619 GTP/Mg2+ binding site [chemical binding]; other site 1261126004620 Switch I region; other site 1261126004621 G2 box; other site 1261126004622 Switch II region; other site 1261126004623 G3 box; other site 1261126004624 G4 box; other site 1261126004625 G5 box; other site 1261126004626 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1261126004627 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1261126004628 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1261126004629 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 1261126004630 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1261126004631 catalytic residues [active] 1261126004632 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1261126004633 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1261126004634 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1261126004635 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1261126004636 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1261126004637 MutS domain I; Region: MutS_I; pfam01624 1261126004638 MutS domain II; Region: MutS_II; pfam05188 1261126004639 MutS domain III; Region: MutS_III; pfam05192 1261126004640 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1261126004641 Walker A/P-loop; other site 1261126004642 ATP binding site [chemical binding]; other site 1261126004643 Q-loop/lid; other site 1261126004644 ABC transporter signature motif; other site 1261126004645 Walker B; other site 1261126004646 D-loop; other site 1261126004647 H-loop/switch region; other site 1261126004648 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1261126004649 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1261126004650 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1261126004651 active site 1261126004652 intersubunit interface [polypeptide binding]; other site 1261126004653 catalytic residue [active] 1261126004654 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1261126004655 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 1261126004656 substrate binding site [chemical binding]; other site 1261126004657 ATP binding site [chemical binding]; other site 1261126004658 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1261126004659 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 1261126004660 putative NAD(P) binding site [chemical binding]; other site 1261126004661 active site 1261126004662 DctM-like transporters; Region: DctM; pfam06808 1261126004663 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1261126004664 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1261126004665 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1261126004666 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1261126004667 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1261126004668 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1261126004669 putative NAD(P) binding site [chemical binding]; other site 1261126004670 catalytic Zn binding site [ion binding]; other site 1261126004671 structural Zn binding site [ion binding]; other site 1261126004672 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1261126004673 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1261126004674 DNA-binding site [nucleotide binding]; DNA binding site 1261126004675 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1261126004676 mannonate dehydratase; Provisional; Region: PRK03906 1261126004677 mannonate dehydratase; Region: uxuA; TIGR00695 1261126004678 EamA-like transporter family; Region: EamA; cl17759 1261126004679 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1261126004680 EamA-like transporter family; Region: EamA; pfam00892 1261126004681 Oligomerisation domain; Region: Oligomerisation; cl00519 1261126004682 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 1261126004683 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1261126004684 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1261126004685 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1261126004686 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1261126004687 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1261126004688 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1261126004689 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1261126004690 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1261126004691 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1261126004692 hypothetical protein; Provisional; Region: PRK04998 1261126004693 lipoate-protein ligase B; Provisional; Region: PRK14342 1261126004694 lipoyl synthase; Provisional; Region: PRK05481 1261126004695 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 1261126004696 FeS/SAM binding site; other site 1261126004697 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 1261126004698 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1261126004699 intersubunit interface [polypeptide binding]; other site 1261126004700 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126004701 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126004702 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126004703 Integrase core domain; Region: rve; pfam00665 1261126004704 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126004705 Integrase core domain; Region: rve_3; pfam13683 1261126004706 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1261126004707 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 1261126004708 ABC-ATPase subunit interface; other site 1261126004709 dimer interface [polypeptide binding]; other site 1261126004710 putative PBP binding regions; other site 1261126004711 Protein of unknown function, DUF479; Region: DUF479; cl01203 1261126004712 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1261126004713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126004714 Walker A/P-loop; other site 1261126004715 ATP binding site [chemical binding]; other site 1261126004716 Q-loop/lid; other site 1261126004717 ABC transporter signature motif; other site 1261126004718 Walker B; other site 1261126004719 D-loop; other site 1261126004720 H-loop/switch region; other site 1261126004721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126004722 Walker A/P-loop; other site 1261126004723 ATP binding site [chemical binding]; other site 1261126004724 Q-loop/lid; other site 1261126004725 ABC transporter signature motif; other site 1261126004726 Walker B; other site 1261126004727 D-loop; other site 1261126004728 H-loop/switch region; other site 1261126004729 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1261126004730 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1261126004731 putative active site [active] 1261126004732 substrate binding site [chemical binding]; other site 1261126004733 putative cosubstrate binding site; other site 1261126004734 catalytic site [active] 1261126004735 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1261126004736 substrate binding site [chemical binding]; other site 1261126004737 hypothetical protein; Provisional; Region: PRK11568 1261126004738 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1261126004739 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1261126004740 Cation transport protein; Region: TrkH; cl17365 1261126004741 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1261126004742 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1261126004743 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1261126004744 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1261126004745 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1261126004746 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1261126004747 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1261126004748 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1261126004749 BCCT family transporter; Region: BCCT; cl00569 1261126004750 BCCT family transporter; Region: BCCT; pfam02028 1261126004751 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1261126004752 EamA-like transporter family; Region: EamA; pfam00892 1261126004753 poxB regulator PoxA; Provisional; Region: PRK09350 1261126004754 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 1261126004755 motif 1; other site 1261126004756 dimer interface [polypeptide binding]; other site 1261126004757 active site 1261126004758 motif 2; other site 1261126004759 motif 3; other site 1261126004760 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1261126004761 L-aspartate oxidase; Provisional; Region: PRK06175 1261126004762 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1261126004763 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1261126004764 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 1261126004765 catalytic loop [active] 1261126004766 iron binding site [ion binding]; other site 1261126004767 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 1261126004768 D-subunit interface [polypeptide binding]; other site 1261126004769 Iron-sulfur protein interface; other site 1261126004770 proximal quinone binding site [chemical binding]; other site 1261126004771 distal quinone binding site [chemical binding]; other site 1261126004772 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 1261126004773 Iron-sulfur protein interface; other site 1261126004774 proximal quinone binding site [chemical binding]; other site 1261126004775 C-subunit interface; other site 1261126004776 distal quinone binding site; other site 1261126004777 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1261126004778 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1261126004779 protease TldD; Provisional; Region: tldD; PRK10735 1261126004780 glutathionine S-transferase; Provisional; Region: PRK10542 1261126004781 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 1261126004782 C-terminal domain interface [polypeptide binding]; other site 1261126004783 GSH binding site (G-site) [chemical binding]; other site 1261126004784 dimer interface [polypeptide binding]; other site 1261126004785 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1261126004786 dimer interface [polypeptide binding]; other site 1261126004787 N-terminal domain interface [polypeptide binding]; other site 1261126004788 substrate binding pocket (H-site) [chemical binding]; other site 1261126004789 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1261126004790 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1261126004791 active site 1261126004792 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1261126004793 substrate binding site [chemical binding]; other site 1261126004794 catalytic residues [active] 1261126004795 dimer interface [polypeptide binding]; other site 1261126004796 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 1261126004797 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1261126004798 Class II fumarases; Region: Fumarase_classII; cd01362 1261126004799 active site 1261126004800 tetramer interface [polypeptide binding]; other site 1261126004801 TfoX N-terminal domain; Region: TfoX_N; cl17592 1261126004802 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1261126004803 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1261126004804 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1261126004805 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1261126004806 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1261126004807 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1261126004808 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1261126004809 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1261126004810 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1261126004811 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 1261126004812 protein-rRNA interface [nucleotide binding]; other site 1261126004813 putative translocon binding site; other site 1261126004814 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1261126004815 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 1261126004816 G-X-X-G motif; other site 1261126004817 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1261126004818 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 1261126004819 23S rRNA interface [nucleotide binding]; other site 1261126004820 5S rRNA interface [nucleotide binding]; other site 1261126004821 putative antibiotic binding site [chemical binding]; other site 1261126004822 L25 interface [polypeptide binding]; other site 1261126004823 L27 interface [polypeptide binding]; other site 1261126004824 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 1261126004825 23S rRNA interface [nucleotide binding]; other site 1261126004826 putative translocon interaction site; other site 1261126004827 signal recognition particle (SRP54) interaction site; other site 1261126004828 L23 interface [polypeptide binding]; other site 1261126004829 trigger factor interaction site; other site 1261126004830 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1261126004831 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1261126004832 Flavodoxin; Region: Flavodoxin_1; pfam00258 1261126004833 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 1261126004834 FAD binding pocket [chemical binding]; other site 1261126004835 conserved FAD binding motif [chemical binding]; other site 1261126004836 phosphate binding motif [ion binding]; other site 1261126004837 beta-alpha-beta structure motif; other site 1261126004838 NAD binding pocket [chemical binding]; other site 1261126004839 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1261126004840 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1261126004841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1261126004842 Putative esterase; Region: Esterase; pfam00756 1261126004843 Domain of unknown function DUF302; Region: DUF302; cl01364 1261126004844 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1261126004845 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1261126004846 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1261126004847 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1261126004848 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1261126004849 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1261126004850 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 1261126004851 active site 1261126004852 dimer interface [polypeptide binding]; other site 1261126004853 magnesium binding site [ion binding]; other site 1261126004854 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 1261126004855 active site 1261126004856 phosphorylation site [posttranslational modification] 1261126004857 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 1261126004858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1261126004859 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 1261126004860 active site 1261126004861 P-loop; other site 1261126004862 phosphorylation site [posttranslational modification] 1261126004863 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1261126004864 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1261126004865 transcriptional repressor UlaR; Provisional; Region: PRK13509 1261126004866 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1261126004867 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1261126004868 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1261126004869 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 1261126004870 AP (apurinic/apyrimidinic) site pocket; other site 1261126004871 DNA interaction; other site 1261126004872 Metal-binding active site; metal-binding site 1261126004873 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1261126004874 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 1261126004875 intersubunit interface [polypeptide binding]; other site 1261126004876 active site 1261126004877 Zn2+ binding site [ion binding]; other site 1261126004878 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1261126004879 catalytic triad [active] 1261126004880 putative active site [active] 1261126004881 autotransporter-associated beta strand repeat; Region: autotrns_rpt; TIGR02601 1261126004882 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1261126004883 pyridoxamine kinase; Validated; Region: PRK05756 1261126004884 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 1261126004885 dimer interface [polypeptide binding]; other site 1261126004886 pyridoxal binding site [chemical binding]; other site 1261126004887 ATP binding site [chemical binding]; other site 1261126004888 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1261126004889 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1261126004890 FtsI repressor; Provisional; Region: PRK10883 1261126004891 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1261126004892 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1261126004893 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1261126004894 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1261126004895 putative acyl-acceptor binding pocket; other site 1261126004896 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 1261126004897 dimer interface [polypeptide binding]; other site 1261126004898 catalytic triad [active] 1261126004899 peroxidatic and resolving cysteines [active] 1261126004900 membrane protein insertase; Provisional; Region: PRK01318 1261126004901 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1261126004902 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 1261126004903 CoenzymeA binding site [chemical binding]; other site 1261126004904 subunit interaction site [polypeptide binding]; other site 1261126004905 PHB binding site; other site 1261126004906 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1261126004907 FAD binding domain; Region: FAD_binding_4; pfam01565 1261126004908 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1261126004909 outer membrane protein A; Reviewed; Region: PRK10808 1261126004910 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1261126004911 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1261126004912 ligand binding site [chemical binding]; other site 1261126004913 Organiser of macrodomain of Terminus of chromosome; Region: MatP; pfam06303 1261126004914 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1261126004915 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1261126004916 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 1261126004917 active site 1 [active] 1261126004918 dimer interface [polypeptide binding]; other site 1261126004919 active site 2 [active] 1261126004920 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1261126004921 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1261126004922 NADP binding site [chemical binding]; other site 1261126004923 homopentamer interface [polypeptide binding]; other site 1261126004924 substrate binding site [chemical binding]; other site 1261126004925 active site 1261126004926 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 1261126004927 active site 1261126004928 catalytic residues [active] 1261126004929 metal binding site [ion binding]; metal-binding site 1261126004930 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1261126004931 DNA protecting protein DprA; Region: dprA; TIGR00732 1261126004932 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 1261126004933 active site 1261126004934 P-loop; other site 1261126004935 phosphorylation site [posttranslational modification] 1261126004936 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1261126004937 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1261126004938 DNA binding site [nucleotide binding] 1261126004939 domain linker motif; other site 1261126004940 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 1261126004941 putative ligand binding site [chemical binding]; other site 1261126004942 putative dimerization interface [polypeptide binding]; other site 1261126004943 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1261126004944 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1261126004945 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1261126004946 putative homodimer interface [polypeptide binding]; other site 1261126004947 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1261126004948 heterodimer interface [polypeptide binding]; other site 1261126004949 homodimer interface [polypeptide binding]; other site 1261126004950 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1261126004951 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 1261126004952 23S rRNA interface [nucleotide binding]; other site 1261126004953 L7/L12 interface [polypeptide binding]; other site 1261126004954 putative thiostrepton binding site; other site 1261126004955 L25 interface [polypeptide binding]; other site 1261126004956 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 1261126004957 mRNA/rRNA interface [nucleotide binding]; other site 1261126004958 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 1261126004959 putative active site 1 [active] 1261126004960 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1261126004961 Divergent AAA domain; Region: AAA_4; pfam04326 1261126004962 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1261126004963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1261126004964 NAD(P) binding site [chemical binding]; other site 1261126004965 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1261126004966 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1261126004967 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 1261126004968 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1261126004969 Phage protein GP46; Region: GP46; cl01814 1261126004970 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 1261126004971 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1261126004972 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 1261126004973 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1261126004974 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 1261126004975 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 1261126004976 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1261126004977 Phage tail tube protein; Region: Tail_tube; pfam10618 1261126004978 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 1261126004979 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1261126004980 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 1261126004981 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 1261126004982 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1261126004983 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 1261126004984 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 1261126004985 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 1261126004986 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 1261126004987 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1261126004988 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1261126004989 Terminase-like family; Region: Terminase_6; pfam03237 1261126004990 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1261126004991 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 1261126004992 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1261126004993 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1261126004994 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1261126004995 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1261126004996 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1261126004997 Mor transcription activator family; Region: Mor; cl02360 1261126004998 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 1261126004999 non-specific DNA binding site [nucleotide binding]; other site 1261126005000 salt bridge; other site 1261126005001 sequence-specific DNA binding site [nucleotide binding]; other site 1261126005002 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1261126005003 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 1261126005004 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1261126005005 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1261126005006 DNA binding site [nucleotide binding] 1261126005007 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1261126005008 Integrase core domain; Region: rve; pfam00665 1261126005009 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1261126005010 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1261126005011 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1261126005012 Predicted transcriptional regulator [Transcription]; Region: COG2932 1261126005013 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 1261126005014 Catalytic site [active] 1261126005015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1261126005016 active site 1261126005017 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1261126005018 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 1261126005019 dimer interface [polypeptide binding]; other site 1261126005020 active site 1261126005021 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1261126005022 "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 1261126005023 dimer interface [polypeptide binding]; other site 1261126005024 active site 1261126005025 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 1261126005026 23S rRNA interface [nucleotide binding]; other site 1261126005027 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1261126005028 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 1261126005029 core dimer interface [polypeptide binding]; other site 1261126005030 peripheral dimer interface [polypeptide binding]; other site 1261126005031 L10 interface [polypeptide binding]; other site 1261126005032 L11 interface [polypeptide binding]; other site 1261126005033 putative EF-Tu interaction site [polypeptide binding]; other site 1261126005034 putative EF-G interaction site [polypeptide binding]; other site 1261126005035 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1261126005036 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 1261126005037 Pyruvate formate lyase; Region: PFL; pfam02901 1261126005038 Pleckstrin homology-like domain; Region: PH-like; cl17171 1261126005039 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 1261126005040 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 1261126005041 FeS/SAM binding site; other site 1261126005042 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1261126005043 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1261126005044 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1261126005045 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 1261126005046 FeS/SAM binding site; other site 1261126005047 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1261126005048 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1261126005049 SlyX; Region: SlyX; cl01090 1261126005050 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1261126005051 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1261126005052 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1261126005053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1261126005054 YheO-like PAS domain; Region: PAS_6; pfam08348 1261126005055 HTH domain; Region: HTH_22; pfam13309 1261126005056 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1261126005057 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 1261126005058 DsrH like protein; Region: DsrH; cl17347 1261126005059 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1261126005060 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 1261126005061 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1261126005062 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 1261126005063 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1261126005064 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 1261126005065 RPB1 interaction site [polypeptide binding]; other site 1261126005066 RPB11 interaction site [polypeptide binding]; other site 1261126005067 RPB10 interaction site [polypeptide binding]; other site 1261126005068 RPB3 interaction site [polypeptide binding]; other site 1261126005069 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1261126005070 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1261126005071 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1261126005072 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1261126005073 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1261126005074 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1261126005075 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1261126005076 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1261126005077 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1261126005078 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1261126005079 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1261126005080 DNA binding site [nucleotide binding] 1261126005081 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1261126005082 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1261126005083 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 1261126005084 putative active site [active] 1261126005085 putative NTP binding site [chemical binding]; other site 1261126005086 putative nucleic acid binding site [nucleotide binding]; other site 1261126005087 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1261126005088 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 1261126005089 inhibitor-cofactor binding pocket; inhibition site 1261126005090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126005091 catalytic residue [active] 1261126005092 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1261126005093 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 1261126005094 Mg++ binding site [ion binding]; other site 1261126005095 putative catalytic motif [active] 1261126005096 substrate binding site [chemical binding]; other site 1261126005097 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1261126005098 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1261126005099 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1261126005100 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1261126005101 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1261126005102 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1261126005103 Coenzyme A binding pocket [chemical binding]; other site 1261126005104 glutamine synthetase; Provisional; Region: glnA; PRK09469 1261126005105 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1261126005106 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1261126005107 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 1261126005108 WzyE protein; Region: WzyE; cl11643 1261126005109 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1261126005110 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 1261126005111 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126005112 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126005113 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126005114 Integrase core domain; Region: rve; pfam00665 1261126005115 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126005116 Integrase core domain; Region: rve_3; pfam13683 1261126005117 TniQ; Region: TniQ; pfam06527 1261126005118 Bacterial TniB protein; Region: TniB; pfam05621 1261126005119 AAA domain; Region: AAA_22; pfam13401 1261126005120 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126005121 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126005122 Integrase core domain; Region: rve; pfam00665 1261126005123 Integrase core domain; Region: rve_3; cl15866 1261126005124 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1261126005125 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1261126005126 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1261126005127 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1261126005128 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1261126005129 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1261126005130 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1261126005131 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1261126005132 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1261126005133 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 1261126005134 dimer interface [polypeptide binding]; other site 1261126005135 tetramer interface [polypeptide binding]; other site 1261126005136 PYR/PP interface [polypeptide binding]; other site 1261126005137 TPP binding site [chemical binding]; other site 1261126005138 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 1261126005139 TPP-binding site; other site 1261126005140 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1261126005141 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 1261126005142 Ligand binding site; other site 1261126005143 metal-binding site 1261126005144 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1261126005145 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1261126005146 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1261126005147 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1261126005148 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 1261126005149 ligand binding site [chemical binding]; other site 1261126005150 calcium binding site [ion binding]; other site 1261126005151 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1261126005152 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 1261126005153 ligand binding site [chemical binding]; other site 1261126005154 calcium binding site [ion binding]; other site 1261126005155 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1261126005156 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1261126005157 Walker A/P-loop; other site 1261126005158 ATP binding site [chemical binding]; other site 1261126005159 Q-loop/lid; other site 1261126005160 ABC transporter signature motif; other site 1261126005161 Walker B; other site 1261126005162 D-loop; other site 1261126005163 H-loop/switch region; other site 1261126005164 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1261126005165 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1261126005166 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 1261126005167 TM-ABC transporter signature motif; other site 1261126005168 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1261126005169 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1261126005170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1261126005171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1261126005172 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1261126005173 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1261126005174 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1261126005175 Glutamate binding site [chemical binding]; other site 1261126005176 NAD binding site [chemical binding]; other site 1261126005177 catalytic residues [active] 1261126005178 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1261126005179 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 1261126005180 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 1261126005181 inhibitor-cofactor binding pocket; inhibition site 1261126005182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126005183 catalytic residue [active] 1261126005184 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1261126005185 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1261126005186 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1261126005187 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1261126005188 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1261126005189 hypothetical protein; Provisional; Region: PRK10506 1261126005190 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1261126005191 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1261126005192 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1261126005193 protease3; Provisional; Region: PRK15101 1261126005194 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1261126005195 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1261126005196 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1261126005197 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1261126005198 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1261126005199 peptide binding site [polypeptide binding]; other site 1261126005200 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1261126005201 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 1261126005202 N-terminal plug; other site 1261126005203 ligand-binding site [chemical binding]; other site 1261126005204 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1261126005205 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1261126005206 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1261126005207 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1261126005208 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1261126005209 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1261126005210 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1261126005211 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1261126005212 FAD binding domain; Region: FAD_binding_4; pfam01565 1261126005213 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1261126005214 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1261126005215 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 1261126005216 ligand binding site [chemical binding]; other site 1261126005217 flexible hinge region; other site 1261126005218 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 1261126005219 putative switch regulator; other site 1261126005220 non-specific DNA interactions [nucleotide binding]; other site 1261126005221 DNA binding site [nucleotide binding] 1261126005222 sequence specific DNA binding site [nucleotide binding]; other site 1261126005223 putative cAMP binding site [chemical binding]; other site 1261126005224 hypothetical protein; Provisional; Region: PRK04966 1261126005225 division inhibitor protein; Provisional; Region: slmA; PRK09480 1261126005226 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1261126005227 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1261126005228 trimer interface [polypeptide binding]; other site 1261126005229 active site 1261126005230 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 1261126005231 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1261126005232 Ligand binding site; other site 1261126005233 metal-binding site 1261126005234 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1261126005235 Src Homology 3 domain superfamily; Region: SH3; cl17036 1261126005236 peptide ligand binding site [polypeptide binding]; other site 1261126005237 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1261126005238 Flavoprotein; Region: Flavoprotein; pfam02441 1261126005239 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1261126005240 hypothetical protein; Reviewed; Region: PRK00024 1261126005241 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1261126005242 MPN+ (JAMM) motif; other site 1261126005243 Zinc-binding site [ion binding]; other site 1261126005244 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1261126005245 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1261126005246 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1261126005247 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1261126005248 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1261126005249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1261126005250 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1261126005251 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1261126005252 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1261126005253 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1261126005254 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 1261126005255 inhibitor-cofactor binding pocket; inhibition site 1261126005256 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126005257 catalytic residue [active] 1261126005258 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 1261126005259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126005260 catalytic residue [active] 1261126005261 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1261126005262 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1261126005263 ferredoxin-type protein NapF; Region: napF; TIGR00402 1261126005264 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1261126005265 4Fe-4S binding domain; Region: Fer4; cl02805 1261126005266 NapD protein; Region: NapD; pfam03927 1261126005267 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1261126005268 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 1261126005269 [4Fe-4S] binding site [ion binding]; other site 1261126005270 molybdopterin cofactor binding site; other site 1261126005271 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 1261126005272 molybdopterin cofactor binding site; other site 1261126005273 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1261126005274 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1261126005275 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1261126005276 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1261126005277 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1261126005278 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1261126005279 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1261126005280 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1261126005281 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1261126005282 active site 1261126005283 metal binding site [ion binding]; metal-binding site 1261126005284 hexamer interface [polypeptide binding]; other site 1261126005285 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 1261126005286 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1261126005287 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1261126005288 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 1261126005289 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 1261126005290 molybdopterin cofactor binding site [chemical binding]; other site 1261126005291 substrate binding site [chemical binding]; other site 1261126005292 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 1261126005293 molybdopterin cofactor binding site; other site 1261126005294 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1261126005295 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1261126005296 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1261126005297 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126005298 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126005299 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126005300 Integrase core domain; Region: rve; pfam00665 1261126005301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126005302 Integrase core domain; Region: rve_3; pfam13683 1261126005303 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1261126005304 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 1261126005305 dimer interface [polypeptide binding]; other site 1261126005306 ADP-ribose binding site [chemical binding]; other site 1261126005307 active site 1261126005308 nudix motif; other site 1261126005309 metal binding site [ion binding]; metal-binding site 1261126005310 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1261126005311 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1261126005312 Predicted membrane protein [Function unknown]; Region: COG2510 1261126005313 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1261126005314 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1261126005315 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1261126005316 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1261126005317 Na binding site [ion binding]; other site 1261126005318 Protein of unknown function (DUF997); Region: DUF997; pfam06196 1261126005319 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 1261126005320 dimerization interface [polypeptide binding]; other site 1261126005321 DNA binding site [nucleotide binding] 1261126005322 corepressor binding sites; other site 1261126005323 VacJ like lipoprotein; Region: VacJ; cl01073 1261126005324 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1261126005325 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1261126005326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1261126005327 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1261126005328 Virulence protein [General function prediction only]; Region: COG3943 1261126005329 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1261126005330 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1261126005331 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1261126005332 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1261126005333 trimer interface [polypeptide binding]; other site 1261126005334 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1261126005335 trimer interface [polypeptide binding]; other site 1261126005336 Haemagglutinin; Region: HIM; pfam05662 1261126005337 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1261126005338 YadA-like C-terminal region; Region: YadA; pfam03895 1261126005339 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 1261126005340 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1261126005341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1261126005342 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1261126005343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126005344 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 1261126005345 dimerization interface [polypeptide binding]; other site 1261126005346 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 1261126005347 catalytic triad [active] 1261126005348 dimer interface [polypeptide binding]; other site 1261126005349 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1261126005350 threonine synthase; Validated; Region: PRK09225 1261126005351 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1261126005352 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1261126005353 catalytic residue [active] 1261126005354 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 1261126005355 active site 1261126005356 dimer interfaces [polypeptide binding]; other site 1261126005357 catalytic residues [active] 1261126005358 TIGR01666 family membrane protein; Region: YCCS 1261126005359 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1261126005360 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1261126005361 HEXXH motif domain; Region: mod_HExxH; TIGR04267 1261126005362 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1261126005363 Paraquat-inducible protein A; Region: PqiA; pfam04403 1261126005364 Paraquat-inducible protein A; Region: PqiA; pfam04403 1261126005365 ketol-acid reductoisomerase; Validated; Region: PRK05225 1261126005366 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1261126005367 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1261126005368 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1261126005369 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1261126005370 ATP binding site [chemical binding]; other site 1261126005371 active site 1261126005372 substrate binding site [chemical binding]; other site 1261126005373 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1261126005374 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1261126005375 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1261126005376 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1261126005377 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 1261126005378 NAD binding site [chemical binding]; other site 1261126005379 dimerization interface [polypeptide binding]; other site 1261126005380 product binding site; other site 1261126005381 substrate binding site [chemical binding]; other site 1261126005382 zinc binding site [ion binding]; other site 1261126005383 catalytic residues [active] 1261126005384 putative phosphate acyltransferase; Provisional; Region: PRK05331 1261126005385 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1261126005386 hypothetical protein; Provisional; Region: PRK11193 1261126005387 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1261126005388 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1261126005389 Domain of unknown function DUF21; Region: DUF21; pfam01595 1261126005390 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 1261126005391 Transporter associated domain; Region: CorC_HlyC; smart01091 1261126005392 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1261126005393 Na2 binding site [ion binding]; other site 1261126005394 putative substrate binding site 1 [chemical binding]; other site 1261126005395 Na binding site 1 [ion binding]; other site 1261126005396 putative substrate binding site 2 [chemical binding]; other site 1261126005397 glutaredoxin 1; Provisional; Region: grxA; PRK11200 1261126005398 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1261126005399 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 1261126005400 ATP binding site [chemical binding]; other site 1261126005401 Mg++ binding site [ion binding]; other site 1261126005402 motif III; other site 1261126005403 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 1261126005404 nucleotide binding region [chemical binding]; other site 1261126005405 ATP-binding site [chemical binding]; other site 1261126005406 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1261126005407 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1261126005408 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1261126005409 catalytic residues [active] 1261126005410 hinge region; other site 1261126005411 alpha helical domain; other site 1261126005412 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1261126005413 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1261126005414 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1261126005415 GTP binding site; other site 1261126005416 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1261126005417 Walker A motif; other site 1261126005418 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1261126005419 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1261126005420 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1261126005421 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 1261126005422 AMP binding site [chemical binding]; other site 1261126005423 metal binding site [ion binding]; metal-binding site 1261126005424 active site 1261126005425 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1261126005426 active site 1261126005427 phosphate binding residues; other site 1261126005428 catalytic residues [active] 1261126005429 Pirin-related protein [General function prediction only]; Region: COG1741 1261126005430 Pirin; Region: Pirin; pfam02678 1261126005431 hypothetical protein; Provisional; Region: PRK11212 1261126005432 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 1261126005433 active site 1261126005434 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1261126005435 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126005436 Walker A/P-loop; other site 1261126005437 ATP binding site [chemical binding]; other site 1261126005438 Q-loop/lid; other site 1261126005439 ABC transporter signature motif; other site 1261126005440 Walker B; other site 1261126005441 D-loop; other site 1261126005442 H-loop/switch region; other site 1261126005443 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1261126005444 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 1261126005445 dimer interface [polypeptide binding]; other site 1261126005446 conserved gate region; other site 1261126005447 putative PBP binding loops; other site 1261126005448 ABC-ATPase subunit interface; other site 1261126005449 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 1261126005450 dimerization domain swap beta strand [polypeptide binding]; other site 1261126005451 regulatory protein interface [polypeptide binding]; other site 1261126005452 active site 1261126005453 regulatory phosphorylation site [posttranslational modification]; other site 1261126005454 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1261126005455 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1261126005456 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1261126005457 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1261126005458 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 1261126005459 HPr interaction site; other site 1261126005460 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1261126005461 active site 1261126005462 phosphorylation site [posttranslational modification] 1261126005463 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1261126005464 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1261126005465 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 1261126005466 FeS/SAM binding site; other site 1261126005467 TRAM domain; Region: TRAM; pfam01938 1261126005468 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1261126005469 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 1261126005470 putative substrate binding site [chemical binding]; other site 1261126005471 putative ATP binding site [chemical binding]; other site 1261126005472 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1261126005473 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1261126005474 substrate binding [chemical binding]; other site 1261126005475 active site 1261126005476 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1261126005477 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1261126005478 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1261126005479 DNA binding site [nucleotide binding] 1261126005480 domain linker motif; other site 1261126005481 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1261126005482 dimerization interface [polypeptide binding]; other site 1261126005483 ligand binding site [chemical binding]; other site 1261126005484 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1261126005485 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1261126005486 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1261126005487 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1261126005488 Zn2+ binding site [ion binding]; other site 1261126005489 Mg2+ binding site [ion binding]; other site 1261126005490 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1261126005491 synthetase active site [active] 1261126005492 NTP binding site [chemical binding]; other site 1261126005493 metal binding site [ion binding]; metal-binding site 1261126005494 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 1261126005495 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1261126005496 Abi-like protein; Region: Abi_2; cl01988 1261126005497 ferrochelatase; Reviewed; Region: hemH; PRK00035 1261126005498 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 1261126005499 C-terminal domain interface [polypeptide binding]; other site 1261126005500 active site 1261126005501 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 1261126005502 active site 1261126005503 N-terminal domain interface [polypeptide binding]; other site 1261126005504 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1261126005505 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1261126005506 Haemolytic domain; Region: Haemolytic; pfam01809 1261126005507 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1261126005508 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1261126005509 Chain length determinant protein; Region: Wzz; pfam02706 1261126005510 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1261126005511 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1261126005512 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1261126005513 active site 1261126005514 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 1261126005515 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1261126005516 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 1261126005517 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1261126005518 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1261126005519 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1261126005520 metal binding triad [ion binding]; metal-binding site 1261126005521 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1261126005522 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1261126005523 NAD binding site [chemical binding]; other site 1261126005524 substrate binding site [chemical binding]; other site 1261126005525 homodimer interface [polypeptide binding]; other site 1261126005526 active site 1261126005527 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1261126005528 O-Antigen ligase; Region: Wzy_C; pfam04932 1261126005529 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 1261126005530 putative active site [active] 1261126005531 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1261126005532 DNA primase; Validated; Region: dnaG; PRK05667 1261126005533 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1261126005534 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1261126005535 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 1261126005536 active site 1261126005537 metal binding site [ion binding]; metal-binding site 1261126005538 interdomain interaction site; other site 1261126005539 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1261126005540 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1261126005541 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1261126005542 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1261126005543 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1261126005544 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1261126005545 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1261126005546 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1261126005547 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 1261126005548 DNA binding residues [nucleotide binding] 1261126005549 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1261126005550 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1261126005551 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1261126005552 UbiA prenyltransferase family; Region: UbiA; pfam01040 1261126005553 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1261126005554 homodimer interaction site [polypeptide binding]; other site 1261126005555 cofactor binding site; other site 1261126005556 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1261126005557 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1261126005558 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 1261126005559 amphipathic channel; other site 1261126005560 Asn-Pro-Ala signature motifs; other site 1261126005561 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 1261126005562 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1261126005563 threonine dehydratase; Reviewed; Region: PRK09224 1261126005564 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 1261126005565 tetramer interface [polypeptide binding]; other site 1261126005566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126005567 catalytic residue [active] 1261126005568 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1261126005569 putative Ile/Val binding site [chemical binding]; other site 1261126005570 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1261126005571 putative Ile/Val binding site [chemical binding]; other site 1261126005572 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1261126005573 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 1261126005574 active site 1261126005575 substrate binding site [chemical binding]; other site 1261126005576 metal binding site [ion binding]; metal-binding site 1261126005577 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 1261126005578 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1261126005579 active site 1261126005580 dimer interface [polypeptide binding]; other site 1261126005581 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1261126005582 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1261126005583 ligand binding site [chemical binding]; other site 1261126005584 NAD binding site [chemical binding]; other site 1261126005585 tetramer interface [polypeptide binding]; other site 1261126005586 catalytic site [active] 1261126005587 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1261126005588 L-serine binding site [chemical binding]; other site 1261126005589 ACT domain interface; other site 1261126005590 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1261126005591 two-component response regulator; Provisional; Region: PRK11173 1261126005592 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 1261126005593 active site 1261126005594 phosphorylation site [posttranslational modification] 1261126005595 intermolecular recognition site; other site 1261126005596 dimerization interface [polypeptide binding]; other site 1261126005597 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 1261126005598 DNA binding site [nucleotide binding] 1261126005599 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1261126005600 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1261126005601 active site 1261126005602 metal binding site [ion binding]; metal-binding site 1261126005603 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1261126005604 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1261126005605 active site 1261126005606 nucleotide binding site [chemical binding]; other site 1261126005607 HIGH motif; other site 1261126005608 KMSKS motif; other site 1261126005609 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1261126005610 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1261126005611 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1261126005612 active site 1261126005613 Riboflavin kinase; Region: Flavokinase; smart00904 1261126005614 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1261126005615 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1261126005616 active site 1261126005617 HIGH motif; other site 1261126005618 nucleotide binding site [chemical binding]; other site 1261126005619 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1261126005620 active site 1261126005621 KMSKS motif; other site 1261126005622 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1261126005623 tRNA binding surface [nucleotide binding]; other site 1261126005624 anticodon binding site; other site 1261126005625 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1261126005626 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1261126005627 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1261126005628 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1261126005629 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1261126005630 domain interface [polypeptide binding]; other site 1261126005631 putative active site [active] 1261126005632 catalytic site [active] 1261126005633 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1261126005634 domain interface [polypeptide binding]; other site 1261126005635 putative active site [active] 1261126005636 catalytic site [active] 1261126005637 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1261126005638 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1261126005639 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1261126005640 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1261126005641 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126005642 Walker A/P-loop; other site 1261126005643 ATP binding site [chemical binding]; other site 1261126005644 Q-loop/lid; other site 1261126005645 ABC transporter signature motif; other site 1261126005646 Walker B; other site 1261126005647 D-loop; other site 1261126005648 H-loop/switch region; other site 1261126005649 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1261126005650 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126005651 Walker A/P-loop; other site 1261126005652 ATP binding site [chemical binding]; other site 1261126005653 Q-loop/lid; other site 1261126005654 ABC transporter signature motif; other site 1261126005655 Walker B; other site 1261126005656 D-loop; other site 1261126005657 H-loop/switch region; other site 1261126005658 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1261126005659 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 1261126005660 dimer interface [polypeptide binding]; other site 1261126005661 conserved gate region; other site 1261126005662 putative PBP binding loops; other site 1261126005663 ABC-ATPase subunit interface; other site 1261126005664 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1261126005665 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 1261126005666 dimer interface [polypeptide binding]; other site 1261126005667 conserved gate region; other site 1261126005668 putative PBP binding loops; other site 1261126005669 ABC-ATPase subunit interface; other site 1261126005670 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1261126005671 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 1261126005672 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1261126005673 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1261126005674 G1 box; other site 1261126005675 putative GEF interaction site [polypeptide binding]; other site 1261126005676 GTP/Mg2+ binding site [chemical binding]; other site 1261126005677 Switch I region; other site 1261126005678 G2 box; other site 1261126005679 G3 box; other site 1261126005680 Switch II region; other site 1261126005681 G4 box; other site 1261126005682 G5 box; other site 1261126005683 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 1261126005684 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1261126005685 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1261126005686 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 1261126005687 putative active site [active] 1261126005688 catalytic residue [active] 1261126005689 GTP-binding protein YchF; Reviewed; Region: PRK09601 1261126005690 YchF GTPase; Region: YchF; cd01900 1261126005691 G1 box; other site 1261126005692 GTP/Mg2+ binding site [chemical binding]; other site 1261126005693 Switch I region; other site 1261126005694 G2 box; other site 1261126005695 Switch II region; other site 1261126005696 G3 box; other site 1261126005697 G4 box; other site 1261126005698 G5 box; other site 1261126005699 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 1261126005700 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1261126005701 L-lactate permease; Region: Lactate_perm; cl00701 1261126005702 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1261126005703 Cysteine-rich domain; Region: CCG; pfam02754 1261126005704 Cysteine-rich domain; Region: CCG; pfam02754 1261126005705 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1261126005706 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1261126005707 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 1261126005708 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1261126005709 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1261126005710 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1261126005711 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 1261126005712 ribonuclease PH; Reviewed; Region: rph; PRK00173 1261126005713 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1261126005714 hexamer interface [polypeptide binding]; other site 1261126005715 active site 1261126005716 hypothetical protein; Provisional; Region: PRK11820 1261126005717 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1261126005718 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1261126005719 putative global regulator; Reviewed; Region: PRK09559 1261126005720 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1261126005721 ferredoxin; Validated; Region: PRK07118 1261126005722 D-ribose pyranase; Provisional; Region: PRK11797 1261126005723 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1261126005724 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1261126005725 Walker A/P-loop; other site 1261126005726 ATP binding site [chemical binding]; other site 1261126005727 Q-loop/lid; other site 1261126005728 ABC transporter signature motif; other site 1261126005729 Walker B; other site 1261126005730 D-loop; other site 1261126005731 H-loop/switch region; other site 1261126005732 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1261126005733 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1261126005734 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 1261126005735 TM-ABC transporter signature motif; other site 1261126005736 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1261126005737 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1261126005738 ligand binding site [chemical binding]; other site 1261126005739 dimerization interface [polypeptide binding]; other site 1261126005740 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1261126005741 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 1261126005742 substrate binding site [chemical binding]; other site 1261126005743 dimer interface [polypeptide binding]; other site 1261126005744 ATP binding site [chemical binding]; other site 1261126005745 transcriptional repressor RbsR; Provisional; Region: PRK10423 1261126005746 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1261126005747 DNA binding site [nucleotide binding] 1261126005748 domain linker motif; other site 1261126005749 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 1261126005750 dimerization interface [polypeptide binding]; other site 1261126005751 ligand binding site [chemical binding]; other site 1261126005752 transcriptional regulator NarP; Provisional; Region: PRK10403 1261126005753 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 1261126005754 active site 1261126005755 phosphorylation site [posttranslational modification] 1261126005756 intermolecular recognition site; other site 1261126005757 dimerization interface [polypeptide binding]; other site 1261126005758 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 1261126005759 DNA binding residues [nucleotide binding] 1261126005760 dimerization interface [polypeptide binding]; other site 1261126005761 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1261126005762 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1261126005763 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1261126005764 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1261126005765 putative RNA binding site [nucleotide binding]; other site 1261126005766 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 1261126005767 S-adenosylmethionine binding site [chemical binding]; other site 1261126005768 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1261126005769 BRO family, N-terminal domain; Region: Bro-N; smart01040 1261126005770 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1261126005771 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 1261126005772 active site 1261126005773 trimer interface [polypeptide binding]; other site 1261126005774 allosteric site; other site 1261126005775 active site lid [active] 1261126005776 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1261126005777 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1261126005778 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 1261126005779 active site 1261126005780 dimer interface [polypeptide binding]; other site 1261126005781 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1261126005782 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1261126005783 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1261126005784 active site 1261126005785 HIGH motif; other site 1261126005786 dimer interface [polypeptide binding]; other site 1261126005787 KMSKS motif; other site 1261126005788 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 1261126005789 RNA binding surface [nucleotide binding]; other site 1261126005790 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1261126005791 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1261126005792 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1261126005793 active site 1261126005794 catalytic residues [active] 1261126005795 metal binding site [ion binding]; metal-binding site 1261126005796 homodimer binding site [polypeptide binding]; other site 1261126005797 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 1261126005798 carboxyltransferase (CT) interaction site; other site 1261126005799 biotinylation site [posttranslational modification]; other site 1261126005800 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1261126005801 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1261126005802 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1261126005803 putative active site [active] 1261126005804 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1261126005805 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1261126005806 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1261126005807 DNA ligase; Provisional; Region: PRK09125 1261126005808 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1261126005809 DNA binding site [nucleotide binding] 1261126005810 active site 1261126005811 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 1261126005812 DNA binding site [nucleotide binding] 1261126005813 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1261126005814 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1261126005815 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1261126005816 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1261126005817 G1 box; other site 1261126005818 GTP/Mg2+ binding site [chemical binding]; other site 1261126005819 Switch I region; other site 1261126005820 G2 box; other site 1261126005821 G3 box; other site 1261126005822 Switch II region; other site 1261126005823 G4 box; other site 1261126005824 G5 box; other site 1261126005825 RNase E inhibitor protein; Provisional; Region: PRK11191 1261126005826 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1261126005827 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 1261126005828 CPxP motif; other site 1261126005829 proline dipeptidase; Provisional; Region: PRK13607 1261126005830 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 1261126005831 active site 1261126005832 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1261126005833 EamA-like transporter family; Region: EamA; pfam00892 1261126005834 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1261126005835 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1261126005836 active site 1261126005837 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1261126005838 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1261126005839 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1261126005840 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 1261126005841 putative NADH binding site [chemical binding]; other site 1261126005842 putative active site [active] 1261126005843 nudix motif; other site 1261126005844 putative metal binding site [ion binding]; other site 1261126005845 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1261126005846 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1261126005847 active site 1261126005848 dimer interface [polypeptide binding]; other site 1261126005849 catalytic residues [active] 1261126005850 effector binding site; other site 1261126005851 R2 peptide binding site; other site 1261126005852 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1261126005853 dimer interface [polypeptide binding]; other site 1261126005854 putative radical transfer pathway; other site 1261126005855 diiron center [ion binding]; other site 1261126005856 tyrosyl radical; other site 1261126005857 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1261126005858 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 1261126005859 FMN binding site [chemical binding]; other site 1261126005860 active site 1261126005861 catalytic residues [active] 1261126005862 substrate binding site [chemical binding]; other site 1261126005863 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 1261126005864 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1261126005865 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 1261126005866 substrate binding site [chemical binding]; other site 1261126005867 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1261126005868 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1261126005869 substrate binding site [chemical binding]; other site 1261126005870 ligand binding site [chemical binding]; other site 1261126005871 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1261126005872 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1261126005873 peptide binding site [polypeptide binding]; other site 1261126005874 Acylphosphatase; Region: Acylphosphatase; cl00551 1261126005875 aminopeptidase N; Provisional; Region: pepN; PRK14015 1261126005876 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1261126005877 active site 1261126005878 Zn binding site [ion binding]; other site 1261126005879 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1261126005880 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1261126005881 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1261126005882 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1261126005883 aromatic amino acid transport protein; Region: araaP; TIGR00837 1261126005884 transcription-repair coupling factor; Provisional; Region: PRK10689 1261126005885 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1261126005886 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 1261126005887 ATP binding site [chemical binding]; other site 1261126005888 putative Mg++ binding site [ion binding]; other site 1261126005889 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 1261126005890 nucleotide binding region [chemical binding]; other site 1261126005891 ATP-binding site [chemical binding]; other site 1261126005892 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1261126005893 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1261126005894 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1261126005895 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1261126005896 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 1261126005897 oligomeric interface; other site 1261126005898 putative active site [active] 1261126005899 homodimer interface [polypeptide binding]; other site 1261126005900 peptidase T; Region: peptidase-T; TIGR01882 1261126005901 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1261126005902 metal binding site [ion binding]; metal-binding site 1261126005903 dimer interface [polypeptide binding]; other site 1261126005904 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1261126005905 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1261126005906 putative NAD(P) binding site [chemical binding]; other site 1261126005907 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1261126005908 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 1261126005909 ABC-ATPase subunit interface; other site 1261126005910 dimer interface [polypeptide binding]; other site 1261126005911 putative PBP binding regions; other site 1261126005912 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1261126005913 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 1261126005914 ABC-ATPase subunit interface; other site 1261126005915 dimer interface [polypeptide binding]; other site 1261126005916 putative PBP binding regions; other site 1261126005917 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1261126005918 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1261126005919 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1261126005920 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 1261126005921 metal binding site [ion binding]; metal-binding site 1261126005922 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1261126005923 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 1261126005924 FeS/SAM binding site; other site 1261126005925 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 1261126005926 non-specific DNA binding site [nucleotide binding]; other site 1261126005927 salt bridge; other site 1261126005928 sequence-specific DNA binding site [nucleotide binding]; other site 1261126005929 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1261126005930 TPR repeat; Region: TPR_11; pfam13414 1261126005931 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 1261126005932 binding surface 1261126005933 TPR motif; other site 1261126005934 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1261126005935 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1261126005936 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1261126005937 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 1261126005938 RNA binding site [nucleotide binding]; other site 1261126005939 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 1261126005940 putative FMN binding site [chemical binding]; other site 1261126005941 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 1261126005942 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1261126005943 tandem repeat interface [polypeptide binding]; other site 1261126005944 oligomer interface [polypeptide binding]; other site 1261126005945 active site residues [active] 1261126005946 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1261126005947 tandem repeat interface [polypeptide binding]; other site 1261126005948 oligomer interface [polypeptide binding]; other site 1261126005949 active site residues [active] 1261126005950 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1261126005951 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1261126005952 Na binding site [ion binding]; other site 1261126005953 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 1261126005954 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 1261126005955 dimer interface [polypeptide binding]; other site 1261126005956 substrate binding site [chemical binding]; other site 1261126005957 ATP binding site [chemical binding]; other site 1261126005958 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 1261126005959 thiamine phosphate binding site [chemical binding]; other site 1261126005960 active site 1261126005961 pyrophosphate binding site [ion binding]; other site 1261126005962 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 1261126005963 metabolite-proton symporter; Region: 2A0106; TIGR00883 1261126005964 putative substrate translocation pore; other site 1261126005965 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 1261126005966 substrate binding site [chemical binding]; other site 1261126005967 multimerization interface [polypeptide binding]; other site 1261126005968 ATP binding site [chemical binding]; other site 1261126005969 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 1261126005970 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1261126005971 effector binding site; other site 1261126005972 active site 1261126005973 Zn binding site [ion binding]; other site 1261126005974 glycine loop; other site 1261126005975 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1261126005976 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1261126005977 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1261126005978 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1261126005979 PYR/PP interface [polypeptide binding]; other site 1261126005980 dimer interface [polypeptide binding]; other site 1261126005981 TPP binding site [chemical binding]; other site 1261126005982 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1261126005983 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 1261126005984 TPP-binding site [chemical binding]; other site 1261126005985 dimer interface [polypeptide binding]; other site 1261126005986 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1261126005987 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1261126005988 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1261126005989 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 1261126005990 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1261126005991 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 1261126005992 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1261126005993 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1261126005994 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 1261126005995 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 1261126005996 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 1261126005997 binding surface 1261126005998 TPR motif; other site 1261126005999 serine endoprotease; Provisional; Region: PRK10942 1261126006000 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1261126006001 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 1261126006002 protein binding site [polypeptide binding]; other site 1261126006003 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 1261126006004 protein binding site [polypeptide binding]; other site 1261126006005 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1261126006006 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1261126006007 Walker A/P-loop; other site 1261126006008 ATP binding site [chemical binding]; other site 1261126006009 Q-loop/lid; other site 1261126006010 ABC transporter signature motif; other site 1261126006011 Walker B; other site 1261126006012 D-loop; other site 1261126006013 H-loop/switch region; other site 1261126006014 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1261126006015 conserved hypothetical integral membrane protein; Region: TIGR00056 1261126006016 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1261126006017 mce related protein; Region: MCE; pfam02470 1261126006018 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1261126006019 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 1261126006020 anti sigma factor interaction site; other site 1261126006021 regulatory phosphorylation site [posttranslational modification]; other site 1261126006022 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1261126006023 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1261126006024 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 1261126006025 hinge; other site 1261126006026 active site 1261126006027 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 1261126006028 active site 1261126006029 putative DNA-binding cleft [nucleotide binding]; other site 1261126006030 dimer interface [polypeptide binding]; other site 1261126006031 hypothetical protein; Validated; Region: PRK00110 1261126006032 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 1261126006033 nudix motif; other site 1261126006034 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1261126006035 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 1261126006036 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 1261126006037 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1261126006038 Predicted transcriptional regulator [Transcription]; Region: COG2932 1261126006039 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1261126006040 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 1261126006041 Catalytic site [active] 1261126006042 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1261126006043 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1261126006044 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 1261126006045 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 1261126006046 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1261126006047 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1261126006048 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 1261126006049 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 1261126006050 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1261126006051 Mor transcription activator family; Region: Mor; pfam08765 1261126006052 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1261126006053 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1261126006054 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1261126006055 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1261126006056 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1261126006057 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1261126006058 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1261126006059 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1261126006060 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1261126006061 Terminase-like family; Region: Terminase_6; pfam03237 1261126006062 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1261126006063 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1261126006064 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1261126006065 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1261126006066 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1261126006067 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1261126006068 Gp37 protein; Region: Gp37; pfam09646 1261126006069 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1261126006070 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1261126006071 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1261126006072 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1261126006073 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1261126006074 membrane protein P6; Region: PHA01399 1261126006075 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1261126006076 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1261126006077 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1261126006078 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1261126006079 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1261126006080 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1261126006081 Baseplate J-like protein; Region: Baseplate_J; cl01294 1261126006082 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1261126006083 N-terminal domain of PARMER_03128; Region: PARMER_03128_N; cd12106 1261126006084 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1261126006085 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1261126006086 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 1261126006087 dimer interface [polypeptide binding]; other site 1261126006088 anticodon binding site; other site 1261126006089 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 1261126006090 homodimer interface [polypeptide binding]; other site 1261126006091 motif 1; other site 1261126006092 active site 1261126006093 motif 2; other site 1261126006094 GAD domain; Region: GAD; pfam02938 1261126006095 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 1261126006096 active site 1261126006097 motif 3; other site 1261126006098 Predicted membrane protein [Function unknown]; Region: COG2431 1261126006099 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1261126006100 active site 1261126006101 DNA polymerase IV; Validated; Region: PRK02406 1261126006102 DNA binding site [nucleotide binding] 1261126006103 heat shock protein HtpX; Provisional; Region: PRK05457 1261126006104 Predicted membrane protein [Function unknown]; Region: COG1238 1261126006105 formate transporter FocA; Region: formate_focA; TIGR04060 1261126006106 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1261126006107 Pyruvate formate lyase 1; Region: PFL1; cd01678 1261126006108 coenzyme A binding site [chemical binding]; other site 1261126006109 active site 1261126006110 catalytic residues [active] 1261126006111 glycine loop; other site 1261126006112 Virulence protein [General function prediction only]; Region: COG3943 1261126006113 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1261126006114 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1261126006115 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 1261126006116 FeS/SAM binding site; other site 1261126006117 oligopeptidase A; Provisional; Region: PRK10911 1261126006118 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1261126006119 active site 1261126006120 Zn binding site [ion binding]; other site 1261126006121 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1261126006122 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1261126006123 Prephenate dehydratase; Region: PDT; pfam00800 1261126006124 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 1261126006125 putative L-Phe binding site [chemical binding]; other site 1261126006126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1261126006127 adenylate kinase; Reviewed; Region: adk; PRK00279 1261126006128 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 1261126006129 AMP-binding site [chemical binding]; other site 1261126006130 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1261126006131 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1261126006132 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 1261126006133 ligand-binding site [chemical binding]; other site 1261126006134 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1261126006135 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 1261126006136 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1261126006137 intersubunit interface [polypeptide binding]; other site 1261126006138 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1261126006139 Walker A/P-loop; other site 1261126006140 ATP binding site [chemical binding]; other site 1261126006141 ABC transporter; Region: ABC_tran; pfam00005 1261126006142 Q-loop/lid; other site 1261126006143 ABC transporter signature motif; other site 1261126006144 Walker B; other site 1261126006145 D-loop; other site 1261126006146 H-loop/switch region; other site 1261126006147 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1261126006148 AmpG-like permease; Region: 2A0125; TIGR00901 1261126006149 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1261126006150 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1261126006151 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1261126006152 substrate binding pocket [chemical binding]; other site 1261126006153 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1261126006154 B12 binding site [chemical binding]; other site 1261126006155 cobalt ligand [ion binding]; other site 1261126006156 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1261126006157 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 1261126006158 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1261126006159 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1261126006160 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1261126006161 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1261126006162 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1261126006163 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1261126006164 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1261126006165 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1261126006166 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1261126006167 Walker A/P-loop; other site 1261126006168 ATP binding site [chemical binding]; other site 1261126006169 Q-loop/lid; other site 1261126006170 ABC transporter signature motif; other site 1261126006171 Walker B; other site 1261126006172 D-loop; other site 1261126006173 H-loop/switch region; other site 1261126006174 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1261126006175 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 1261126006176 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 1261126006177 putative PBP binding regions; other site 1261126006178 ABC-ATPase subunit interface; other site 1261126006179 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1261126006180 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1261126006181 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 1261126006182 FAD binding site [chemical binding]; other site 1261126006183 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1261126006184 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1261126006185 NAD binding site [chemical binding]; other site 1261126006186 homodimer interface [polypeptide binding]; other site 1261126006187 active site 1261126006188 substrate binding site [chemical binding]; other site 1261126006189 Trm112p-like protein; Region: Trm112p; cl01066 1261126006190 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1261126006191 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1261126006192 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1261126006193 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 1261126006194 non-specific DNA binding site [nucleotide binding]; other site 1261126006195 salt bridge; other site 1261126006196 sequence-specific DNA binding site [nucleotide binding]; other site 1261126006197 Fic family protein [Function unknown]; Region: COG3177 1261126006198 Fic/DOC family; Region: Fic; pfam02661 1261126006199 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1261126006200 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1261126006201 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 1261126006202 Walker A motif; other site 1261126006203 ATP binding site [chemical binding]; other site 1261126006204 Walker B motif; other site 1261126006205 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1261126006206 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1261126006207 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1261126006208 oligomer interface [polypeptide binding]; other site 1261126006209 active site residues [active] 1261126006210 Fe-S metabolism associated domain; Region: SufE; cl00951 1261126006211 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1261126006212 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 1261126006213 S-adenosylmethionine binding site [chemical binding]; other site 1261126006214 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1261126006215 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1261126006216 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1261126006217 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 1261126006218 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1261126006219 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1261126006220 glutamine binding [chemical binding]; other site 1261126006221 catalytic triad [active] 1261126006222 anthranilate synthase component I; Provisional; Region: PRK13564 1261126006223 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1261126006224 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1261126006225 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1261126006226 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1261126006227 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 1261126006228 RNA binding surface [nucleotide binding]; other site 1261126006229 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1261126006230 probable active site [active] 1261126006231 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 1261126006232 transmembrane helices; other site 1261126006233 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1261126006234 TrkA-C domain; Region: TrkA_C; pfam02080 1261126006235 TrkA-C domain; Region: TrkA_C; pfam02080 1261126006236 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1261126006237 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 1261126006238 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1261126006239 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1261126006240 trimer interface [polypeptide binding]; other site 1261126006241 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1261126006242 trimer interface [polypeptide binding]; other site 1261126006243 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1261126006244 trimer interface [polypeptide binding]; other site 1261126006245 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1261126006246 trimer interface [polypeptide binding]; other site 1261126006247 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1261126006248 YadA-like C-terminal region; Region: YadA; pfam03895 1261126006249 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1261126006250 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1261126006251 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1261126006252 Colicin pore forming domain; Region: Colicin; pfam01024 1261126006253 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1261126006254 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1261126006255 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1261126006256 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1261126006257 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1261126006258 primosomal replication protein N; Provisional; Region: PRK02801 1261126006259 generic binding surface II; other site 1261126006260 generic binding surface I; other site 1261126006261 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1261126006262 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1261126006263 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1261126006264 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1261126006265 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1261126006266 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 1261126006267 active site 1261126006268 catalytic site [active] 1261126006269 substrate binding site [chemical binding]; other site 1261126006270 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1261126006271 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1261126006272 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1261126006273 ABC transporter; Region: ABC_tran_2; pfam12848 1261126006274 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1261126006275 electron transport complex protein RsxA; Provisional; Region: PRK05151 1261126006276 ferredoxin; Provisional; Region: PRK08764 1261126006277 Putative Fe-S cluster; Region: FeS; pfam04060 1261126006278 4Fe-4S binding domain; Region: Fer4; pfam00037 1261126006279 4Fe-4S binding domain; Region: Fer4; cl02805 1261126006280 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1261126006281 SLBB domain; Region: SLBB; pfam10531 1261126006282 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 1261126006283 Predicted membrane protein [Function unknown]; Region: COG2860 1261126006284 UPF0126 domain; Region: UPF0126; pfam03458 1261126006285 UPF0126 domain; Region: UPF0126; pfam03458 1261126006286 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1261126006287 electron transport complex protein RnfG; Validated; Region: PRK01908 1261126006288 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1261126006289 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1261126006290 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1261126006291 putative acyl-acceptor binding pocket; other site 1261126006292 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1261126006293 active site 1261126006294 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1261126006295 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1261126006296 Walker A/P-loop; other site 1261126006297 ATP binding site [chemical binding]; other site 1261126006298 Q-loop/lid; other site 1261126006299 ABC transporter signature motif; other site 1261126006300 Walker B; other site 1261126006301 D-loop; other site 1261126006302 H-loop/switch region; other site 1261126006303 inner membrane transport permease; Provisional; Region: PRK15066 1261126006304 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1261126006305 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1261126006306 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1261126006307 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1261126006308 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 1261126006309 dimer interface [polypeptide binding]; other site 1261126006310 conserved gate region; other site 1261126006311 putative PBP binding loops; other site 1261126006312 ABC-ATPase subunit interface; other site 1261126006313 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1261126006314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126006315 Walker A/P-loop; other site 1261126006316 ATP binding site [chemical binding]; other site 1261126006317 Q-loop/lid; other site 1261126006318 ABC transporter signature motif; other site 1261126006319 Walker B; other site 1261126006320 D-loop; other site 1261126006321 H-loop/switch region; other site 1261126006322 TOBE domain; Region: TOBE; cl01440 1261126006323 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1261126006324 putative coenzyme Q binding site [chemical binding]; other site 1261126006325 hypothetical protein; Validated; Region: PRK01777 1261126006326 benzoate transport; Region: 2A0115; TIGR00895 1261126006327 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 1261126006328 putative substrate translocation pore; other site 1261126006329 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 1261126006330 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1261126006331 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1261126006332 metal binding site [ion binding]; metal-binding site 1261126006333 dimer interface [polypeptide binding]; other site 1261126006334 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1261126006335 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1261126006336 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1261126006337 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1261126006338 active site 1261126006339 Guanylate kinase; Region: Guanylate_kin; pfam00625 1261126006340 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 1261126006341 catalytic site [active] 1261126006342 G-X2-G-X-G-K; other site 1261126006343 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1261126006344 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1261126006345 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1261126006346 tetrathionate reductase subunit A; Provisional; Region: PRK14991 1261126006347 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 1261126006348 molybdopterin cofactor binding site; other site 1261126006349 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 1261126006350 putative molybdopterin cofactor binding site [chemical binding]; other site 1261126006351 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 1261126006352 putative molybdopterin cofactor binding site; other site 1261126006353 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1261126006354 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1261126006355 4Fe-4S binding domain; Region: Fer4; pfam00037 1261126006356 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1261126006357 PIN domain; Region: PIN_3; cl17397 1261126006358 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1261126006359 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 1261126006360 dimer interface [polypeptide binding]; other site 1261126006361 phosphorylation site [posttranslational modification] 1261126006362 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 1261126006363 ATP binding site [chemical binding]; other site 1261126006364 Mg2+ binding site [ion binding]; other site 1261126006365 G-X-G motif; other site 1261126006366 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1261126006367 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 1261126006368 active site 1261126006369 phosphorylation site [posttranslational modification] 1261126006370 intermolecular recognition site; other site 1261126006371 dimerization interface [polypeptide binding]; other site 1261126006372 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 1261126006373 DNA binding residues [nucleotide binding] 1261126006374 dimerization interface [polypeptide binding]; other site 1261126006375 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1261126006376 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 1261126006377 Ligand Binding Site [chemical binding]; other site 1261126006378 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1261126006379 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 1261126006380 S-adenosylmethionine binding site [chemical binding]; other site 1261126006381 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1261126006382 DNA gyrase subunit A; Validated; Region: PRK05560 1261126006383 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 1261126006384 CAP-like domain; other site 1261126006385 active site 1261126006386 primary dimer interface [polypeptide binding]; other site 1261126006387 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1261126006388 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1261126006389 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1261126006390 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1261126006391 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1261126006392 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1261126006393 ABC transporter ATPase component; Reviewed; Region: PRK11147 1261126006394 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1261126006395 Walker A/P-loop; other site 1261126006396 ATP binding site [chemical binding]; other site 1261126006397 ABC transporter signature motif; other site 1261126006398 Walker B; other site 1261126006399 D-loop; other site 1261126006400 H-loop/switch region; other site 1261126006401 ABC transporter; Region: ABC_tran_2; pfam12848 1261126006402 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1261126006403 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1261126006404 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 1261126006405 putative ATP binding site [chemical binding]; other site 1261126006406 putative substrate interface [chemical binding]; other site 1261126006407 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1261126006408 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1261126006409 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1261126006410 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1261126006411 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 1261126006412 putative active site [active] 1261126006413 putative metal-binding site [ion binding]; other site 1261126006414 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1261126006415 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1261126006416 Walker A/P-loop; other site 1261126006417 ATP binding site [chemical binding]; other site 1261126006418 Q-loop/lid; other site 1261126006419 ABC transporter signature motif; other site 1261126006420 Walker B; other site 1261126006421 D-loop; other site 1261126006422 H-loop/switch region; other site 1261126006423 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 1261126006424 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 1261126006425 dimer interface [polypeptide binding]; other site 1261126006426 conserved gate region; other site 1261126006427 ABC-ATPase subunit interface; other site 1261126006428 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1261126006429 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1261126006430 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1261126006431 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1261126006432 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1261126006433 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1261126006434 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1261126006435 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1261126006436 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1261126006437 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1261126006438 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1261126006439 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1261126006440 nucleophile elbow; other site 1261126006441 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1261126006442 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 1261126006443 CAS motifs; other site 1261126006444 active site 1261126006445 hypothetical protein; Provisional; Region: PRK04860 1261126006446 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1261126006447 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1261126006448 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1261126006449 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1261126006450 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1261126006451 AzlC protein; Region: AzlC; pfam03591 1261126006452 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1261126006453 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1261126006454 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1261126006455 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1261126006456 Protein export membrane protein; Region: SecD_SecF; pfam02355 1261126006457 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1261126006458 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1261126006459 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1261126006460 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1261126006461 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1261126006462 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1261126006463 active site 1261126006464 catalytic residues [active] 1261126006465 galactokinase; Provisional; Region: PRK05101 1261126006466 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1261126006467 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1261126006468 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1261126006469 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1261126006470 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 1261126006471 dimer interface [polypeptide binding]; other site 1261126006472 active site 1261126006473 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 1261126006474 phosphodiesterase YaeI; Provisional; Region: PRK11340 1261126006475 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1261126006476 putative active site [active] 1261126006477 putative metal binding site [ion binding]; other site 1261126006478 Predicted permeases [General function prediction only]; Region: COG0679 1261126006479 peptide chain release factor 2; Provisional; Region: PRK08787 1261126006480 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1261126006481 RF-1 domain; Region: RF-1; pfam00472 1261126006482 WYL domain; Region: WYL; pfam13280 1261126006483 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 1261126006484 active site 1261126006485 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1261126006486 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126006487 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126006488 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126006489 Integrase core domain; Region: rve; pfam00665 1261126006490 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1261126006491 Integrase core domain; Region: rve_3; pfam13683 1261126006492 selenophosphate synthetase; Provisional; Region: PRK00943 1261126006493 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 1261126006494 dimerization interface [polypeptide binding]; other site 1261126006495 putative ATP binding site [chemical binding]; other site 1261126006496 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 1261126006497 nudix motif; other site 1261126006498 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1261126006499 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1261126006500 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1261126006501 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 1261126006502 active site 1261126006503 FMN binding site [chemical binding]; other site 1261126006504 substrate binding site [chemical binding]; other site 1261126006505 catalytic residues [active] 1261126006506 homodimer interface [polypeptide binding]; other site 1261126006507 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 1261126006508 enolase; Provisional; Region: eno; PRK00077 1261126006509 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 1261126006510 dimer interface [polypeptide binding]; other site 1261126006511 metal binding site [ion binding]; metal-binding site 1261126006512 substrate binding pocket [chemical binding]; other site 1261126006513 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 1261126006514 beta-hexosaminidase; Provisional; Region: PRK05337 1261126006515 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1261126006516 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 1261126006517 putative DNA-binding cleft [nucleotide binding]; other site 1261126006518 putative DNA clevage site; other site 1261126006519 molecular lever; other site 1261126006520 LexA repressor; Validated; Region: PRK00215 1261126006521 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1261126006522 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 1261126006523 Catalytic site [active] 1261126006524 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1261126006525 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1261126006526 putative acyl-acceptor binding pocket; other site 1261126006527 Predicted membrane protein [Function unknown]; Region: COG1584 1261126006528 Cupin; Region: Cupin_6; pfam12852 1261126006529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126006530 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1261126006531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1261126006532 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1261126006533 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 1261126006534 active site residue [active] 1261126006535 Predicted membrane protein [Function unknown]; Region: COG3059 1261126006536 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1261126006537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1261126006538 ATP-grasp domain; Region: ATP-grasp; pfam02222 1261126006539 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1261126006540 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1261126006541 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 1261126006542 active site turn [active] 1261126006543 phosphorylation site [posttranslational modification] 1261126006544 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1261126006545 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1261126006546 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1261126006547 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1261126006548 YccA-like proteins; Region: YccA_like; cd10433 1261126006549 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1261126006550 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1261126006551 GIY-YIG motif/motif A; other site 1261126006552 active site 1261126006553 catalytic site [active] 1261126006554 putative DNA binding site [nucleotide binding]; other site 1261126006555 metal binding site [ion binding]; metal-binding site 1261126006556 UvrB/uvrC motif; Region: UVR; pfam02151 1261126006557 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1261126006558 Helix-hairpin-helix motif; Region: HHH; pfam00633 1261126006559 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1261126006560 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1261126006561 23S rRNA binding site [nucleotide binding]; other site 1261126006562 L21 binding site [polypeptide binding]; other site 1261126006563 L13 binding site [polypeptide binding]; other site 1261126006564 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1261126006565 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1261126006566 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1261126006567 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1261126006568 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1261126006569 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 1261126006570 ATP binding site [chemical binding]; other site 1261126006571 putative Mg++ binding site [ion binding]; other site 1261126006572 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 1261126006573 nucleotide binding region [chemical binding]; other site 1261126006574 ATP-binding site [chemical binding]; other site 1261126006575 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1261126006576 HRDC domain; Region: HRDC; pfam00570 1261126006577 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1261126006578 putative iron binding site [ion binding]; other site 1261126006579 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 1261126006580 UGMP family protein; Validated; Region: PRK09604 1261126006581 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1261126006582 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1261126006583 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1261126006584 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 1261126006585 RNA binding surface [nucleotide binding]; other site 1261126006586 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1261126006587 active site 1261126006588 Entericidin EcnA/B family; Region: Entericidin; cl02322 1261126006589 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 1261126006590 30S subunit binding site; other site 1261126006591 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1261126006592 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1261126006593 putative acyl-acceptor binding pocket; other site 1261126006594 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1261126006595 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1261126006596 dimer interface [polypeptide binding]; other site 1261126006597 active site 1261126006598 catalytic residue [active] 1261126006599 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1261126006600 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1261126006601 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1261126006602 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1261126006603 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1261126006604 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1261126006605 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 1261126006606 purine monophosphate binding site [chemical binding]; other site 1261126006607 dimer interface [polypeptide binding]; other site 1261126006608 putative catalytic residues [active] 1261126006609 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1261126006610 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1261126006611 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1261126006612 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1261126006613 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1261126006614 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1261126006615 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1261126006616 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1261126006617 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 1261126006618 active site 1261126006619 multimer interface [polypeptide binding]; other site 1261126006620 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1261126006621 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1261126006622 active site 1261126006623 HIGH motif; other site 1261126006624 KMSKS motif; other site 1261126006625 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1261126006626 tRNA binding surface [nucleotide binding]; other site 1261126006627 anticodon binding site; other site 1261126006628 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 1261126006629 dimer interface [polypeptide binding]; other site 1261126006630 putative tRNA-binding site [nucleotide binding]; other site 1261126006631 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1261126006632 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 1261126006633 active site 1261126006634 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1261126006635 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 1261126006636 RNA binding surface [nucleotide binding]; other site 1261126006637 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1261126006638 active site 1261126006639 uracil binding [chemical binding]; other site 1261126006640 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1261126006641 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 1261126006642 putative substrate translocation pore; other site 1261126006643 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1261126006644 TRAM domain; Region: TRAM; pfam01938 1261126006645 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 1261126006646 S-adenosylmethionine binding site [chemical binding]; other site 1261126006647 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1261126006648 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1261126006649 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1261126006650 ATP-dependent helicase HepA; Validated; Region: PRK04914 1261126006651 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 1261126006652 ATP binding site [chemical binding]; other site 1261126006653 putative Mg++ binding site [ion binding]; other site 1261126006654 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 1261126006655 nucleotide binding region [chemical binding]; other site 1261126006656 ATP-binding site [chemical binding]; other site 1261126006657 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1261126006658 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1261126006659 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1261126006660 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1261126006661 active site 1261126006662 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1261126006663 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 1261126006664 amidase catalytic site [active] 1261126006665 Zn binding residues [ion binding]; other site 1261126006666 substrate binding site [chemical binding]; other site 1261126006667 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1261126006668 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1261126006669 active site 1261126006670 cystathionine beta-lyase; Provisional; Region: PRK08114 1261126006671 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 1261126006672 homodimer interface [polypeptide binding]; other site 1261126006673 substrate-cofactor binding pocket; other site 1261126006674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126006675 catalytic residue [active] 1261126006676 disulfide bond formation protein B; Provisional; Region: PRK01749 1261126006677 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1261126006678 fatty acid metabolism regulator; Provisional; Region: PRK04984 1261126006679 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1261126006680 DNA-binding site [nucleotide binding]; DNA binding site 1261126006681 FadR C-terminal domain; Region: FadR_C; pfam07840 1261126006682 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1261126006683 PhoH-like protein; Region: PhoH; pfam02562 1261126006684 transketolase; Reviewed; Region: PRK12753 1261126006685 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 1261126006686 TPP-binding site [chemical binding]; other site 1261126006687 dimer interface [polypeptide binding]; other site 1261126006688 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 1261126006689 PYR/PP interface [polypeptide binding]; other site 1261126006690 dimer interface [polypeptide binding]; other site 1261126006691 TPP binding site [chemical binding]; other site 1261126006692 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1261126006693 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1261126006694 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1261126006695 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 1261126006696 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1261126006697 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 1261126006698 putative active site [active] 1261126006699 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1261126006700 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126006701 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 1261126006702 putative dimerization interface [polypeptide binding]; other site 1261126006703 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1261126006704 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1261126006705 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 1261126006706 Walker A motif; other site 1261126006707 ATP binding site [chemical binding]; other site 1261126006708 Walker B motif; other site 1261126006709 arginine finger; other site 1261126006710 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1261126006711 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1261126006712 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 1261126006713 catalytic motif [active] 1261126006714 Zn binding site [ion binding]; other site 1261126006715 RibD C-terminal domain; Region: RibD_C; cl17279 1261126006716 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1261126006717 Lumazine binding domain; Region: Lum_binding; pfam00677 1261126006718 Lumazine binding domain; Region: Lum_binding; pfam00677 1261126006719 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1261126006720 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1261126006721 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 1261126006722 dimerization interface [polypeptide binding]; other site 1261126006723 active site 1261126006724 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 1261126006725 homopentamer interface [polypeptide binding]; other site 1261126006726 active site 1261126006727 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1261126006728 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1261126006729 putative active site [active] 1261126006730 catalytic triad [active] 1261126006731 putative dimer interface [polypeptide binding]; other site 1261126006732 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1261126006733 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 1261126006734 Transporter associated domain; Region: CorC_HlyC; smart01091 1261126006735 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 1261126006736 hypothetical protein; Provisional; Region: PRK03641 1261126006737 polysaccharide export protein Wza; Provisional; Region: PRK15078 1261126006738 methionine aminopeptidase; Provisional; Region: PLN03158 1261126006739 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1261126006740 endonuclease IV; Provisional; Region: PRK01060 1261126006741 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 1261126006742 AP (apurinic/apyrimidinic) site pocket; other site 1261126006743 DNA interaction; other site 1261126006744 Metal-binding active site; metal-binding site 1261126006745 NlpC/P60 family; Region: NLPC_P60; pfam00877 1261126006746 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 1261126006747 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1261126006748 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1261126006749 ligand binding site [chemical binding]; other site 1261126006750 active site 1261126006751 UGI interface [polypeptide binding]; other site 1261126006752 catalytic site [active] 1261126006753 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1261126006754 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 1261126006755 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1261126006756 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1261126006757 catalytic triad [active] 1261126006758 putative active site [active] 1261126006759 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1261126006760 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1261126006761 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 1261126006762 ATP binding site [chemical binding]; other site 1261126006763 putative Mg++ binding site [ion binding]; other site 1261126006764 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 1261126006765 nucleotide binding region [chemical binding]; other site 1261126006766 ATP-binding site [chemical binding]; other site 1261126006767 Helicase associated domain (HA2); Region: HA2; pfam04408 1261126006768 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1261126006769 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1261126006770 Predicted membrane protein [Function unknown]; Region: COG2707 1261126006771 GrpE; Region: GrpE; pfam01025 1261126006772 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 1261126006773 dimer interface [polypeptide binding]; other site 1261126006774 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1261126006775 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1261126006776 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1261126006777 multidrug efflux protein; Reviewed; Region: PRK01766 1261126006778 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1261126006779 cation binding site [ion binding]; other site 1261126006780 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1261126006781 Part of AAA domain; Region: AAA_19; pfam13245 1261126006782 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1261126006783 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1261126006784 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1261126006785 aminopeptidase B; Provisional; Region: PRK05015 1261126006786 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 1261126006787 interface (dimer of trimers) [polypeptide binding]; other site 1261126006788 Substrate-binding/catalytic site; other site 1261126006789 Zn-binding sites [ion binding]; other site 1261126006790 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 1261126006791 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1261126006792 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1261126006793 HlyD family secretion protein; Region: HlyD_3; pfam13437 1261126006794 putative hydrolase; Provisional; Region: PRK10976 1261126006795 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 1261126006796 active site 1261126006797 motif I; other site 1261126006798 motif II; other site 1261126006799 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1261126006800 2-isopropylmalate synthase; Validated; Region: PRK00915 1261126006801 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1261126006802 active site 1261126006803 catalytic residues [active] 1261126006804 metal binding site [ion binding]; metal-binding site 1261126006805 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1261126006806 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1261126006807 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1261126006808 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 1261126006809 DNA binding residues [nucleotide binding] 1261126006810 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1261126006811 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1261126006812 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1261126006813 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1261126006814 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1261126006815 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1261126006816 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1261126006817 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1261126006818 acyl-activating enzyme (AAE) consensus motif; other site 1261126006819 putative AMP binding site [chemical binding]; other site 1261126006820 putative active site [active] 1261126006821 putative CoA binding site [chemical binding]; other site 1261126006822 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1261126006823 active site 1261126006824 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1261126006825 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 1261126006826 S-adenosylmethionine binding site [chemical binding]; other site 1261126006827 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1261126006828 SurA N-terminal domain; Region: SurA_N; pfam09312 1261126006829 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1261126006830 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1261126006831 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1261126006832 active site 1261126006833 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1261126006834 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 1261126006835 putative ribose interaction site [chemical binding]; other site 1261126006836 putative ADP binding site [chemical binding]; other site 1261126006837 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1261126006838 active site 1261126006839 nucleotide binding site [chemical binding]; other site 1261126006840 HIGH motif; other site 1261126006841 KMSKS motif; other site 1261126006842 GTP-binding protein Der; Reviewed; Region: PRK00093 1261126006843 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1261126006844 G1 box; other site 1261126006845 GTP/Mg2+ binding site [chemical binding]; other site 1261126006846 Switch I region; other site 1261126006847 G2 box; other site 1261126006848 Switch II region; other site 1261126006849 G3 box; other site 1261126006850 G4 box; other site 1261126006851 G5 box; other site 1261126006852 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1261126006853 G1 box; other site 1261126006854 GTP/Mg2+ binding site [chemical binding]; other site 1261126006855 Switch I region; other site 1261126006856 G2 box; other site 1261126006857 G3 box; other site 1261126006858 Switch II region; other site 1261126006859 G4 box; other site 1261126006860 G5 box; other site 1261126006861 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1261126006862 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1261126006863 tRNA; other site 1261126006864 putative tRNA binding site [nucleotide binding]; other site 1261126006865 putative NADP binding site [chemical binding]; other site 1261126006866 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1261126006867 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1261126006868 HD domain; Region: HD_4; pfam13328 1261126006869 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1261126006870 synthetase active site [active] 1261126006871 NTP binding site [chemical binding]; other site 1261126006872 metal binding site [ion binding]; metal-binding site 1261126006873 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 1261126006874 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1261126006875 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1261126006876 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1261126006877 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1261126006878 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1261126006879 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1261126006880 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1261126006881 L-aspartate oxidase; Provisional; Region: PRK06175 1261126006882 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1261126006883 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126006884 Walker A/P-loop; other site 1261126006885 ATP binding site [chemical binding]; other site 1261126006886 Q-loop/lid; other site 1261126006887 ABC transporter signature motif; other site 1261126006888 Walker B; other site 1261126006889 D-loop; other site 1261126006890 H-loop/switch region; other site 1261126006891 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1261126006892 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1261126006893 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1261126006894 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 1261126006895 dimer interface [polypeptide binding]; other site 1261126006896 conserved gate region; other site 1261126006897 putative PBP binding loops; other site 1261126006898 ABC-ATPase subunit interface; other site 1261126006899 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1261126006900 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126006901 Walker A/P-loop; other site 1261126006902 ATP binding site [chemical binding]; other site 1261126006903 Q-loop/lid; other site 1261126006904 ABC transporter signature motif; other site 1261126006905 Walker B; other site 1261126006906 D-loop; other site 1261126006907 H-loop/switch region; other site 1261126006908 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1261126006909 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1261126006910 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 1261126006911 dimer interface [polypeptide binding]; other site 1261126006912 conserved gate region; other site 1261126006913 putative PBP binding loops; other site 1261126006914 ABC-ATPase subunit interface; other site 1261126006915 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1261126006916 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 1261126006917 HemN family oxidoreductase; Provisional; Region: PRK05660 1261126006918 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 1261126006919 FeS/SAM binding site; other site 1261126006920 HemN C-terminal domain; Region: HemN_C; pfam06969 1261126006921 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1261126006922 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1261126006923 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1261126006924 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 1261126006925 catalytic triad [active] 1261126006926 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1261126006927 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 1261126006928 active site 1261126006929 motif I; other site 1261126006930 motif II; other site 1261126006931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1261126006932 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1261126006933 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1261126006934 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1261126006935 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1261126006936 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 1261126006937 putative active site [active] 1261126006938 HemK family putative methylases; Region: hemK_fam; TIGR00536 1261126006939 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 1261126006940 S-adenosylmethionine binding site [chemical binding]; other site 1261126006941 hypothetical protein; Provisional; Region: PRK04946 1261126006942 Smr domain; Region: Smr; pfam01713 1261126006943 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 1261126006944 putative deacylase active site [active] 1261126006945 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1261126006946 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1261126006947 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 1261126006948 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1261126006949 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1261126006950 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1261126006951 active site 1261126006952 phosphate binding residues; other site 1261126006953 catalytic residues [active] 1261126006954 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1261126006955 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 1261126006956 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1261126006957 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1261126006958 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1261126006959 GTP binding site; other site 1261126006960 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1261126006961 Walker A motif; other site 1261126006962 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1261126006963 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1261126006964 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1261126006965 catalytic residues [active] 1261126006966 hinge region; other site 1261126006967 alpha helical domain; other site 1261126006968 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1261126006969 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1261126006970 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1261126006971 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1261126006972 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126006973 Helix-turn-helix domain; Region: HTH_28; pfam13518 1261126006974 Homeodomain-like domain; Region: HTH_32; pfam13565 1261126006975 Integrase core domain; Region: rve; pfam00665 1261126006976 Integrase core domain; Region: rve_3; pfam13683 1261126006977 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 1261126006978 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1261126006979 AAA domain; Region: AAA_31; pfam13614 1261126006980 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 1261126006981 P-loop; other site 1261126006982 Magnesium ion binding site [ion binding]; other site 1261126006983 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 1261126006984 Magnesium ion binding site [ion binding]; other site 1261126006985 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1261126006986 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 1261126006987 catalytic residue [active] 1261126006988 TraU protein; Region: TraU; cl06067 1261126006989 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1261126006990 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1261126006991 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126006992 Walker A/P-loop; other site 1261126006993 ATP binding site [chemical binding]; other site 1261126006994 Q-loop/lid; other site 1261126006995 ABC transporter signature motif; other site 1261126006996 Walker B; other site 1261126006997 D-loop; other site 1261126006998 H-loop/switch region; other site 1261126006999 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1261126007000 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1261126007001 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1261126007002 Walker A/P-loop; other site 1261126007003 ATP binding site [chemical binding]; other site 1261126007004 Q-loop/lid; other site 1261126007005 ABC transporter signature motif; other site 1261126007006 Walker B; other site 1261126007007 D-loop; other site 1261126007008 H-loop/switch region; other site 1261126007009 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1261126007010 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1261126007011 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1261126007012 active site 1261126007013 zinc binding site [ion binding]; other site 1261126007014 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1261126007015 AAA domain; Region: AAA_26; pfam13500 1261126007016 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1261126007017 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 1261126007018 S-adenosylmethionine binding site [chemical binding]; other site 1261126007019 Protein of unknown function (DUF452); Region: DUF452; pfam04301 1261126007020 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1261126007021 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1261126007022 substrate-cofactor binding pocket; other site 1261126007023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126007024 catalytic residue [active] 1261126007025 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 1261126007026 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 1261126007027 inhibitor-cofactor binding pocket; inhibition site 1261126007028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1261126007029 catalytic residue [active] 1261126007030 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1261126007031 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1261126007032 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1261126007033 gamma-glutamyl kinase; Provisional; Region: PRK05429 1261126007034 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 1261126007035 nucleotide binding site [chemical binding]; other site 1261126007036 homotetrameric interface [polypeptide binding]; other site 1261126007037 putative phosphate binding site [ion binding]; other site 1261126007038 putative allosteric binding site; other site 1261126007039 PUA domain; Region: PUA; pfam01472 1261126007040 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1261126007041 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1261126007042 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1261126007043 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1261126007044 Putative helicase; Region: TraI_2; pfam07514 1261126007045 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1261126007046 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1261126007047 Winged helix-turn helix; Region: HTH_29; pfam13551 1261126007048 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1261126007049 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 1261126007050 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1261126007051 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1261126007052 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1261126007053 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1261126007054 SEFIR domain; Region: SEFIR; pfam08357 1261126007055 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1261126007056 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1261126007057 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1261126007058 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1261126007059 Putative helicase; Region: TraI_2; pfam07514 1261126007060 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1261126007061 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 1261126007062 active site 1261126007063 catalytic residues [active] 1261126007064 DNA binding site [nucleotide binding] 1261126007065 Int/Topo IB signature motif; other site 1261126007066 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 1261126007067 ATP binding site [chemical binding]; other site 1261126007068 substrate interface [chemical binding]; other site 1261126007069 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1261126007070 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1261126007071 Walker A/P-loop; other site 1261126007072 ATP binding site [chemical binding]; other site 1261126007073 Q-loop/lid; other site 1261126007074 ABC transporter signature motif; other site 1261126007075 Walker B; other site 1261126007076 D-loop; other site 1261126007077 H-loop/switch region; other site 1261126007078 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 1261126007079 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1261126007080 putative substrate translocation pore; other site 1261126007081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1261126007082 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 1261126007083 dimer interface [polypeptide binding]; other site 1261126007084 phosphorylation site [posttranslational modification] 1261126007085 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 1261126007086 ATP binding site [chemical binding]; other site 1261126007087 Mg2+ binding site [ion binding]; other site 1261126007088 G-X-G motif; other site 1261126007089 Response regulator receiver domain; Region: Response_reg; pfam00072 1261126007090 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 1261126007091 active site 1261126007092 phosphorylation site [posttranslational modification] 1261126007093 intermolecular recognition site; other site 1261126007094 dimerization interface [polypeptide binding]; other site 1261126007095 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 1261126007096 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1261126007097 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1261126007098 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 1261126007099 DNA binding site [nucleotide binding] 1261126007100 active site 1261126007101 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1261126007102 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1261126007103 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1261126007104 Rrf2 family protein; Region: rrf2_super; TIGR00738 1261126007105 cysteine desulfurase; Provisional; Region: PRK14012 1261126007106 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1261126007107 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1261126007108 catalytic residue [active] 1261126007109 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1261126007110 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1261126007111 trimerization site [polypeptide binding]; other site 1261126007112 active site 1261126007113 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1261126007114 co-chaperone HscB; Provisional; Region: hscB; PRK01773 1261126007115 DnaJ domain; Region: DnaJ; pfam00226 1261126007116 HSP70 interaction site [polypeptide binding]; other site 1261126007117 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1261126007118 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 1261126007119 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1261126007120 putative active site [active] 1261126007121 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1261126007122 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1261126007123 nucleotide binding site [chemical binding]; other site 1261126007124 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1261126007125 SBD interface [polypeptide binding]; other site 1261126007126 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1261126007127 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 1261126007128 catalytic loop [active] 1261126007129 iron binding site [ion binding]; other site 1261126007130 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1261126007131 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1261126007132 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 1261126007133 gating phenylalanine in ion channel; other site 1261126007134 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1261126007135 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1261126007136 active site 1261126007137 NTP binding site [chemical binding]; other site 1261126007138 metal binding triad [ion binding]; metal-binding site 1261126007139 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1261126007140 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1261126007141 Zn2+ binding site [ion binding]; other site 1261126007142 Mg2+ binding site [ion binding]; other site 1261126007143 endonuclease III; Provisional; Region: PRK10702 1261126007144 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1261126007145 minor groove reading motif; other site 1261126007146 helix-hairpin-helix signature motif; other site 1261126007147 substrate binding pocket [chemical binding]; other site 1261126007148 active site 1261126007149 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1261126007150 hypothetical protein; Provisional; Region: PRK10621 1261126007151 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1261126007152 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1261126007153 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 1261126007154 folate binding site [chemical binding]; other site 1261126007155 NADP+ binding site [chemical binding]; other site 1261126007156 DNA repair protein RadA; Provisional; Region: PRK11823 1261126007157 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 1261126007158 Walker A motif/ATP binding site; other site 1261126007159 ATP binding site [chemical binding]; other site 1261126007160 Walker B motif; other site 1261126007161 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1261126007162 putative major pilin subunit; Provisional; Region: PRK10574 1261126007163 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1261126007164 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1261126007165 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1261126007166 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1261126007167 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1261126007168 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 1261126007169 CoA-binding site [chemical binding]; other site 1261126007170 ATP-binding [chemical binding]; other site 1261126007171 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1261126007172 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1261126007173 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1261126007174 Lipopolysaccharide-assembly; Region: LptE; cl01125 1261126007175 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1261126007176 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1261126007177 HIGH motif; other site 1261126007178 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1261126007179 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1261126007180 active site 1261126007181 KMSKS motif; other site 1261126007182 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1261126007183 tRNA binding surface [nucleotide binding]; other site 1261126007184 seryl-tRNA synthetase; Provisional; Region: PRK05431 1261126007185 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1261126007186 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 1261126007187 dimer interface [polypeptide binding]; other site 1261126007188 active site 1261126007189 motif 1; other site 1261126007190 motif 2; other site 1261126007191 motif 3; other site 1261126007192 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 1261126007193 SmpB-tmRNA interface; other site 1261126007194 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 1261126007195 salt bridge; other site 1261126007196 non-specific DNA binding site [nucleotide binding]; other site 1261126007197 sequence-specific DNA binding site [nucleotide binding]; other site 1261126007198 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1261126007199 YcjX-like family, DUF463; Region: DUF463; pfam04317 1261126007200 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1261126007201 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1261126007202 putative active site [active] 1261126007203 putative metal binding residues [ion binding]; other site 1261126007204 signature motif; other site 1261126007205 putative triphosphate binding site [ion binding]; other site 1261126007206 hypothetical protein; Provisional; Region: PRK05114 1261126007207 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1261126007208 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1261126007209 probable active site [active] 1261126007210 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1261126007211 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1261126007212 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1261126007213 active site 1261126007214 ribulose/triose binding site [chemical binding]; other site 1261126007215 phosphate binding site [ion binding]; other site 1261126007216 substrate (anthranilate) binding pocket [chemical binding]; other site 1261126007217 product (indole) binding pocket [chemical binding]; other site 1261126007218 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1261126007219 active site 1261126007220 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1261126007221 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 1261126007222 active site 1261126007223 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 1261126007224 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1261126007225 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1261126007226 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 1261126007227 trimer interface [polypeptide binding]; other site 1261126007228 active site 1261126007229 UDP-GlcNAc binding site [chemical binding]; other site 1261126007230 lipid binding site [chemical binding]; lipid-binding site 1261126007231 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1261126007232 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1261126007233 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1261126007234 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1261126007235 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1261126007236 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1261126007237 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1261126007238 Surface antigen; Region: Bac_surface_Ag; pfam01103 1261126007239 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1261126007240 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 1261126007241 active site 1261126007242 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 1261126007243 protein binding site [polypeptide binding]; other site 1261126007244 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 1261126007245 protein binding site [polypeptide binding]; other site 1261126007246 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 1261126007247 putative substrate binding region [chemical binding]; other site 1261126007248 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1261126007249 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1261126007250 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1261126007251 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 1261126007252 catalytic residue [active] 1261126007253 putative FPP diphosphate binding site; other site 1261126007254 putative FPP binding hydrophobic cleft; other site 1261126007255 dimer interface [polypeptide binding]; other site 1261126007256 putative IPP diphosphate binding site; other site 1261126007257 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1261126007258 biotin synthase; Region: bioB; TIGR00433 1261126007259 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 1261126007260 FeS/SAM binding site; other site 1261126007261 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1261126007262 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1261126007263 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 1261126007264 active site 1261126007265 substrate-binding site [chemical binding]; other site 1261126007266 metal-binding site [ion binding] 1261126007267 ATP binding site [chemical binding]; other site 1261126007268 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1261126007269 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1261126007270 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1261126007271 substrate binding site; other site 1261126007272 dimer interface; other site 1261126007273 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 1261126007274 homotrimer interaction site [polypeptide binding]; other site 1261126007275 zinc binding site [ion binding]; other site 1261126007276 CDP-binding sites; other site 1261126007277 Repair protein; Region: Repair_PSII; pfam04536 1261126007278 Repair protein; Region: Repair_PSII; cl01535 1261126007279 LemA family; Region: LemA; pfam04011 1261126007280 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1261126007281 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1261126007282 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1261126007283 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 1261126007284 active site 1261126007285 P-loop; other site 1261126007286 phosphorylation site [posttranslational modification] 1261126007287 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1261126007288 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1261126007289 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 1261126007290 putative substrate binding site [chemical binding]; other site 1261126007291 putative ATP binding site [chemical binding]; other site 1261126007292 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 1261126007293 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 1261126007294 active site 1261126007295 phosphorylation site [posttranslational modification] 1261126007296 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 1261126007297 dimerization domain swap beta strand [polypeptide binding]; other site 1261126007298 regulatory protein interface [polypeptide binding]; other site 1261126007299 active site 1261126007300 regulatory phosphorylation site [posttranslational modification]; other site 1261126007301 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 1261126007302 dimerization domain swap beta strand [polypeptide binding]; other site 1261126007303 regulatory protein interface [polypeptide binding]; other site 1261126007304 active site 1261126007305 regulatory phosphorylation site [posttranslational modification]; other site 1261126007306 glycogen branching enzyme; Provisional; Region: PRK05402 1261126007307 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1261126007308 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1261126007309 active site 1261126007310 catalytic site [active] 1261126007311 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1261126007312 glycogen debranching enzyme; Provisional; Region: PRK03705 1261126007313 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 1261126007314 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1261126007315 active site 1261126007316 catalytic site [active] 1261126007317 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1261126007318 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1261126007319 ligand binding site; other site 1261126007320 oligomer interface; other site 1261126007321 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 1261126007322 dimer interface [polypeptide binding]; other site 1261126007323 N-terminal domain interface [polypeptide binding]; other site 1261126007324 sulfate 1 binding site; other site 1261126007325 glycogen synthase; Provisional; Region: glgA; PRK00654 1261126007326 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 1261126007327 ADP-binding pocket [chemical binding]; other site 1261126007328 homodimer interface [polypeptide binding]; other site 1261126007329 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1261126007330 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1261126007331 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1261126007332 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1261126007333 ligand binding site [chemical binding]; other site 1261126007334 homodimer interface [polypeptide binding]; other site 1261126007335 NAD(P) binding site [chemical binding]; other site 1261126007336 trimer interface B [polypeptide binding]; other site 1261126007337 trimer interface A [polypeptide binding]; other site 1261126007338 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1261126007339 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1261126007340 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1261126007341 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1261126007342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1261126007343 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 1261126007344 putative dimerization interface [polypeptide binding]; other site 1261126007345 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1261126007346 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1261126007347 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1261126007348 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1261126007349 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 1261126007350 Phage capsid family; Region: Phage_capsid; pfam05065 1261126007351 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1261126007352 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1261126007353 integrase; Provisional; Region: PRK09692 1261126007354 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 1261126007355 active site 1261126007356 Int/Topo IB signature motif; other site 1261126007357 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1261126007358 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1261126007359 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1261126007360 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1261126007361 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1261126007362 Tetramer interface [polypeptide binding]; other site 1261126007363 active site 1261126007364 FMN-binding site [chemical binding]; other site 1261126007365 hypothetical protein; Provisional; Region: PRK11281 1261126007366 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1261126007367 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1261126007368 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1261126007369 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1261126007370 acyl-activating enzyme (AAE) consensus motif; other site 1261126007371 putative AMP binding site [chemical binding]; other site 1261126007372 putative active site [active] 1261126007373 putative CoA binding site [chemical binding]; other site 1261126007374 SeqA protein; Region: SeqA; pfam03925 1261126007375 acyl-CoA esterase; Provisional; Region: PRK10673 1261126007376 PGAP1-like protein; Region: PGAP1; pfam07819 1261126007377 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 1261126007378 S-adenosylmethionine binding site [chemical binding]; other site 1261126007379 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1261126007380 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1261126007381 DNA binding site [nucleotide binding] 1261126007382 domain linker motif; other site 1261126007383 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 1261126007384 dimerization interface [polypeptide binding]; other site 1261126007385 ligand binding site [chemical binding]; other site 1261126007386 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1261126007387 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1261126007388 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1261126007389 trimer interface [polypeptide binding]; other site 1261126007390 active site 1261126007391 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1261126007392 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 1261126007393 Sugar specificity; other site 1261126007394 Pyrimidine base specificity; other site 1261126007395 ATP-binding site [chemical binding]; other site 1261126007396 Lysine efflux permease [General function prediction only]; Region: COG1279 1261126007397 rod shape-determining protein MreB; Provisional; Region: PRK13927 1261126007398 MreB and similar proteins; Region: MreB_like; cd10225 1261126007399 nucleotide binding site [chemical binding]; other site 1261126007400 Mg binding site [ion binding]; other site 1261126007401 putative protofilament interaction site [polypeptide binding]; other site 1261126007402 RodZ interaction site [polypeptide binding]; other site 1261126007403 rod shape-determining protein MreC; Provisional; Region: PRK13922 1261126007404 rod shape-determining protein MreC; Region: MreC; pfam04085 1261126007405 rod shape-determining protein MreD; Region: MreD; cl01087 1261126007406 recombination factor protein RarA; Reviewed; Region: PRK13342 1261126007407 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 1261126007408 Walker A motif; other site 1261126007409 ATP binding site [chemical binding]; other site 1261126007410 Walker B motif; other site 1261126007411 arginine finger; other site 1261126007412 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1261126007413 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1261126007414 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 1261126007415 ABC-ATPase subunit interface; other site 1261126007416 dimer interface [polypeptide binding]; other site 1261126007417 putative PBP binding regions; other site 1261126007418 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1261126007419 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 1261126007420 putative active site [active] 1261126007421 putative dimer interface [polypeptide binding]; other site 1261126007422 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1261126007423 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1261126007424 substrate binding pocket [chemical binding]; other site 1261126007425 chain length determination region; other site 1261126007426 substrate-Mg2+ binding site; other site 1261126007427 catalytic residues [active] 1261126007428 aspartate-rich region 1; other site 1261126007429 active site lid residues [active] 1261126007430 aspartate-rich region 2; other site 1261126007431 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1261126007432 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1261126007433 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1261126007434 MOSC domain; Region: MOSC; pfam03473 1261126007435 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1261126007436 Sulfatase; Region: Sulfatase; pfam00884 1261126007437 fructokinase; Reviewed; Region: PRK09557 1261126007438 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1261126007439 nucleotide binding site [chemical binding]; other site 1261126007440 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 1261126007441 active site 1261126007442 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1261126007443 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1261126007444 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1261126007445 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1261126007446 putative metal binding site; other site 1261126007447 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1261126007448 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 1261126007449 putative active site [active] 1261126007450 argininosuccinate synthase; Validated; Region: PRK05370 1261126007451 argininosuccinate synthase; Provisional; Region: PRK13820 1261126007452 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1261126007453 RNA/DNA hybrid binding site [nucleotide binding]; other site 1261126007454 active site 1261126007455 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1261126007456 Colicin V production protein; Region: Colicin_V; cl00567 1261126007457 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1261126007458 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 1261126007459 active site 1261126007460 tetramer interface [polypeptide binding]; other site 1261126007461 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1261126007462 active site 1261126007463 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1261126007464 MltA specific insert domain; Region: MltA; smart00925 1261126007465 3D domain; Region: 3D; pfam06725 1261126007466 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1261126007467 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 1261126007468 P-loop; other site 1261126007469 Magnesium ion binding site [ion binding]; other site 1261126007470 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1261126007471 replicative DNA helicase; Region: DnaB; TIGR00665 1261126007472 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 1261126007473 Walker A motif; other site 1261126007474 ATP binding site [chemical binding]; other site 1261126007475 Walker B motif; other site 1261126007476 DNA binding loops [nucleotide binding] 1261126007477 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1261126007478 ParB-like nuclease domain; Region: ParBc; pfam02195 1261126007479 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1261126007480 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1261126007481 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1261126007482 DNA topoisomerase III; Provisional; Region: PRK07726 1261126007483 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 1261126007484 active site 1261126007485 putative interdomain interaction site [polypeptide binding]; other site 1261126007486 putative metal-binding site [ion binding]; other site 1261126007487 putative nucleotide binding site [chemical binding]; other site 1261126007488 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 1261126007489 domain I; other site 1261126007490 DNA binding groove [nucleotide binding] 1261126007491 phosphate binding site [ion binding]; other site 1261126007492 domain II; other site 1261126007493 domain III; other site 1261126007494 nucleotide binding site [chemical binding]; other site 1261126007495 catalytic site [active] 1261126007496 domain IV; other site 1261126007497 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1261126007498 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1261126007499 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1261126007500 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1261126007501 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1261126007502 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 1261126007503 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1261126007504 catalytic residue [active] 1261126007505 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1261126007506 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1261126007507 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1261126007508 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1261126007509 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1261126007510 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1261126007511 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1261126007512 Protein of unknown function (DUF2976); Region: DUF2976; pfam11190 1261126007513 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1261126007514 Protein of unknown function (DUF2895); Region: DUF2895; pfam11444 1261126007515 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1261126007516 TraK protein; Region: TraK; pfam06586 1261126007517 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1261126007518 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1261126007519 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1261126007520 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1261126007521 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1261126007522 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1261126007523 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1261126007524 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 1261126007525 catalytic residue [active] 1261126007526 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1261126007527 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511