-- dump date 20140619_104414 -- class Genbank::misc_feature -- table misc_feature_note -- id note 374931000001 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 374931000002 putative metal binding site [ion binding]; other site 374931000003 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 374931000004 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 374931000005 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 374931000006 active site 374931000007 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 374931000008 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 374931000009 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 374931000010 active site 374931000011 dimer interface [polypeptide binding]; other site 374931000012 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 374931000013 dimer interface [polypeptide binding]; other site 374931000014 active site 374931000015 alanine racemase; Reviewed; Region: alr; PRK00053 374931000016 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 374931000017 active site 374931000018 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 374931000019 substrate binding site [chemical binding]; other site 374931000020 catalytic residues [active] 374931000021 dimer interface [polypeptide binding]; other site 374931000022 potential frameshift: common BLAST hit: gi|68249840|ref|YP_248952.1| replicative DNA helicase [Haemophilus influenzae 86-028NP] 374931000023 potential frameshift: common BLAST hit: gi|68249840|ref|YP_248952.1| replicative DNA helicase [Haemophilus influenzae 86-028NP] 374931000024 pyruvate kinase; Provisional; Region: PRK05826 374931000025 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; cd00288 374931000026 domain interfaces; other site 374931000027 active site 374931000028 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 374931000029 DNA binding site [nucleotide binding] 374931000030 active site 374931000031 Int/Topo IB signature motif; other site 374931000032 Protein of unknown function (DUF935); Region: DUF935; pfam06074 374931000033 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 374931000034 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 374931000035 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 374931000036 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 374931000037 active site 374931000038 metal-binding site 374931000039 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 374931000040 EamA-like transporter family; Region: EamA; pfam00892 374931000041 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 374931000042 active site 374931000043 ATP binding site [chemical binding]; other site 374931000044 Phosphotransferase enzyme family; Region: APH; pfam01636 374931000045 substrate binding site [chemical binding]; other site 374931000046 dimer interface [polypeptide binding]; other site 374931000047 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 374931000048 Protein of unknown function, DUF462; Region: DUF462; cl01190 374931000049 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374931000050 Sel1-like repeats; Region: SEL1; smart00671 374931000051 Sel1-like repeats; Region: SEL1; smart00671 374931000052 Sel1-like repeats; Region: SEL1; smart00671 374931000053 Sel1-like repeats; Region: SEL1; smart00671 374931000054 Sel1-like repeats; Region: SEL1; smart00671 374931000055 Sel1-like repeats; Region: SEL1; smart00671 374931000056 Sel1-like repeats; Region: SEL1; smart00671 374931000057 Sel1-like repeats; Region: SEL1; smart00671 374931000058 Sel1-like repeats; Region: SEL1; smart00671 374931000059 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374931000060 Sel1-like repeats; Region: SEL1; smart00671 374931000061 Sel1-like repeats; Region: SEL1; smart00671 374931000062 Sel1-like repeats; Region: SEL1; smart00671 374931000063 Sel1-like repeats; Region: SEL1; smart00671 374931000064 Sel1 repeat; Region: Sel1; cl02723 374931000065 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374931000066 Sel1-like repeats; Region: SEL1; smart00671 374931000067 peptide chain release factor 1; Validated; Region: prfA; PRK00591 374931000068 This domain is found in peptide chain release factors; Region: PCRF; smart00937 374931000069 RF-1 domain; Region: RF-1; pfam00472 374931000070 Predicted membrane protein/domain [Function unknown]; Region: COG1714 374931000071 HemK family putative methylases; Region: hemK_fam; TIGR00536 374931000072 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 374931000073 Uncharacterized conserved protein [Function unknown]; Region: COG2912 374931000074 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 374931000075 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 374931000076 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 374931000077 glycerate dehydrogenase; Provisional; Region: PRK06932 374931000078 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 374931000079 putative ligand binding site [chemical binding]; other site 374931000080 putative NAD binding site [chemical binding]; other site 374931000081 catalytic site [active] 374931000082 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 374931000083 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 374931000084 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 374931000085 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 374931000086 inhibitor-cofactor binding pocket; inhibition site 374931000087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931000088 catalytic residue [active] 374931000089 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 374931000090 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 374931000091 substrate-cofactor binding pocket; other site 374931000092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931000093 catalytic residue [active] 374931000094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2830 374931000095 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 374931000096 Methyltransferase domain; Region: Methyltransf_11; pfam08241 374931000097 AAA domain; Region: AAA_26; pfam13500 374931000098 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 374931000099 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 374931000100 ADP binding site [chemical binding]; other site 374931000101 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 374931000102 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 374931000103 Walker A/P-loop; other site 374931000104 ATP binding site [chemical binding]; other site 374931000105 Q-loop/lid; other site 374931000106 ABC transporter signature motif; other site 374931000107 Walker B; other site 374931000108 D-loop; other site 374931000109 H-loop/switch region; other site 374931000110 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 374931000111 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 374931000112 FtsX-like permease family; Region: FtsX; pfam02687 374931000113 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 374931000114 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 374931000115 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 374931000116 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 374931000117 Catalytic site [active] 374931000118 serine/threonine transporter SstT; Provisional; Region: PRK13628 374931000119 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 374931000120 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 374931000121 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 374931000122 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 374931000123 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 374931000124 putative FMN binding site [chemical binding]; other site 374931000125 potential frameshift: common BLAST hit: gi|16273441|ref|NP_439690.1| protease IV [Haemophilus influenzae Rd KW20] 374931000126 potential frameshift: common BLAST hit: gi|68249944|ref|YP_249056.1| protease IV [Haemophilus influenzae 86-028NP] 374931000127 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 374931000128 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 374931000129 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 374931000130 active site 374931000131 metal-binding site 374931000132 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 374931000133 EamA-like transporter family; Region: EamA; pfam00892 374931000134 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 374931000135 active site 374931000136 ATP binding site [chemical binding]; other site 374931000137 Phosphotransferase enzyme family; Region: APH; pfam01636 374931000138 substrate binding site [chemical binding]; other site 374931000139 dimer interface [polypeptide binding]; other site 374931000140 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 374931000141 Uncharacterized conserved protein [Function unknown]; Region: COG4121 374931000142 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 374931000143 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 374931000144 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 374931000145 dimer interface [polypeptide binding]; other site 374931000146 active site 374931000147 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 374931000148 GSH binding site [chemical binding]; other site 374931000149 catalytic residues [active] 374931000150 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 374931000151 RimK-like ATP-grasp domain; Region: RimK; pfam08443 374931000152 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 374931000153 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 374931000154 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 374931000155 CAP-like domain; other site 374931000156 active site 374931000157 primary dimer interface [polypeptide binding]; other site 374931000158 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374931000159 potential frameshift: common BLAST hit: gi|68249955|ref|YP_249067.1| DNA topoisomerase IV subunit B [Haemophilus influenzae 86-028NP] 374931000160 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 374931000161 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 374931000162 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 374931000163 putative acyl-acceptor binding pocket; other site 374931000164 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 374931000165 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 374931000166 putative ribose interaction site [chemical binding]; other site 374931000167 putative ADP binding site [chemical binding]; other site 374931000168 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 374931000169 active site 374931000170 nucleotide binding site [chemical binding]; other site 374931000171 HIGH motif; other site 374931000172 KMSKS motif; other site 374931000173 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 374931000174 Abortive infection C-terminus; Region: Abi_C; pfam14355 374931000175 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374931000176 ABC transporter; Region: ABC_tran_2; pfam12848 374931000177 potential frameshift: common BLAST hit: gi|68250142|ref|YP_249254.1| ABC transporter ATP-binding protein [Haemophilus influenzae] 374931000178 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 374931000179 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 374931000180 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 374931000181 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 374931000182 dimer interface [polypeptide binding]; other site 374931000183 conserved gate region; other site 374931000184 ABC-ATPase subunit interface; other site 374931000185 potential frameshift: common BLAST hit: gi|68250139|ref|YP_249251.1| spermidine/putrescine ABC transporter membrane component 374931000186 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 374931000187 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 374931000188 Walker A/P-loop; other site 374931000189 ATP binding site [chemical binding]; other site 374931000190 Q-loop/lid; other site 374931000191 ABC transporter signature motif; other site 374931000192 Walker B; other site 374931000193 D-loop; other site 374931000194 H-loop/switch region; other site 374931000195 TOBE domain; Region: TOBE_2; pfam08402 374931000196 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 374931000197 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 374931000198 metal binding site [ion binding]; metal-binding site 374931000199 dimer interface [polypeptide binding]; other site 374931000200 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 374931000201 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 374931000202 dimerization interface [polypeptide binding]; other site 374931000203 DPS ferroxidase diiron center [ion binding]; other site 374931000204 ion pore; other site 374931000205 cytidine deaminase; Provisional; Region: PRK09027 374931000206 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 374931000207 active site 374931000208 catalytic motif [active] 374931000209 Zn binding site [ion binding]; other site 374931000210 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 374931000211 active site 374931000212 catalytic motif [active] 374931000213 Zn binding site [ion binding]; other site 374931000214 Methyltransferase domain; Region: Methyltransf_23; pfam13489 374931000215 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 374931000216 S-adenosylmethionine binding site [chemical binding]; other site 374931000217 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 374931000218 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 374931000219 Na binding site [ion binding]; other site 374931000220 potential frameshift: common BLAST hit: gi|68250132|ref|YP_249244.1| ribonuclease G [Haemophilus influenzae 86-028NP] 374931000221 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 374931000222 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374931000223 active site 374931000224 HIGH motif; other site 374931000225 nucleotide binding site [chemical binding]; other site 374931000226 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 374931000227 KMSKS motif; other site 374931000228 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 374931000229 Uncharacterized conserved protein [Function unknown]; Region: COG2983 374931000230 potential frameshift: common BLAST hit: gi|68250129|ref|YP_249241.1| 4-alpha-glucanotransferase [Haemophilus influenzae 86-028NP] 374931000231 glycogen branching enzyme; Provisional; Region: PRK05402 374931000232 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 374931000233 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 374931000234 active site 374931000235 catalytic site [active] 374931000236 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 374931000237 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 374931000238 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 374931000239 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 374931000240 active site 374931000241 catalytic site [active] 374931000242 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 374931000243 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 374931000244 ligand binding site; other site 374931000245 oligomer interface; other site 374931000246 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 374931000247 dimer interface [polypeptide binding]; other site 374931000248 N-terminal domain interface [polypeptide binding]; other site 374931000249 sulfate 1 binding site; other site 374931000250 glycogen synthase; Provisional; Region: glgA; PRK00654 374931000251 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 374931000252 ADP-binding pocket [chemical binding]; other site 374931000253 homodimer interface [polypeptide binding]; other site 374931000254 glycogen phosphorylase; Provisional; Region: PRK14986 374931000255 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 374931000256 homodimer interface [polypeptide binding]; other site 374931000257 active site pocket [active] 374931000258 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 374931000259 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 374931000260 ligand binding site [chemical binding]; other site 374931000261 homodimer interface [polypeptide binding]; other site 374931000262 NAD(P) binding site [chemical binding]; other site 374931000263 trimer interface B [polypeptide binding]; other site 374931000264 trimer interface A [polypeptide binding]; other site 374931000265 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 374931000266 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 374931000267 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 374931000268 potential frameshift: common BLAST hit: gi|68250121|ref|YP_249233.1| putative HTH-type transcriptional regulator [Haemophilus influenzae] 374931000269 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 374931000270 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 374931000271 active site 374931000272 interdomain interaction site; other site 374931000273 putative metal-binding site [ion binding]; other site 374931000274 nucleotide binding site [chemical binding]; other site 374931000275 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 374931000276 domain I; other site 374931000277 DNA binding groove [nucleotide binding] 374931000278 phosphate binding site [ion binding]; other site 374931000279 domain II; other site 374931000280 domain III; other site 374931000281 nucleotide binding site [chemical binding]; other site 374931000282 catalytic site [active] 374931000283 domain IV; other site 374931000284 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 374931000285 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 374931000286 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 374931000287 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 374931000288 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 374931000289 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 374931000290 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 374931000291 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 374931000292 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 374931000293 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 374931000294 active site 374931000295 dimer interface [polypeptide binding]; other site 374931000296 motif 1; other site 374931000297 motif 2; other site 374931000298 motif 3; other site 374931000299 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 374931000300 anticodon binding site; other site 374931000301 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 374931000302 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 374931000303 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 374931000304 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 374931000305 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 374931000306 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 374931000307 potential frameshift: common BLAST hit: gi|123440706|ref|YP_001004698.1| putative exported iron receptor protein [Yersinia enterocolitica] 374931000308 molybdenum-pterin binding domain; Region: Mop; TIGR00638 374931000309 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 374931000310 DsrC like protein; Region: DsrC; pfam04358 374931000311 potential frameshift: common BLAST hit: gi|68250114|ref|YP_249226.1| predicted ATPase of the PP-loop superfamily 374931000312 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukF; COG3006 374931000313 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 374931000314 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 374931000315 cofactor binding site; other site 374931000316 DNA binding site [nucleotide binding] 374931000317 substrate interaction site [chemical binding]; other site 374931000318 potential frameshift: common BLAST hit: gi|68250111|ref|YP_249223.1| type II restriction enzyme HaeII [Haemophilus influenzae 86-028NP] 374931000319 potential frameshift: common BLAST hit: gi|68250110|ref|YP_249222.1| condesin subunit E [Haemophilus influenzae 86-028NP] 374931000320 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 374931000321 P-loop containing region of AAA domain; Region: AAA_29; cl17516 374931000322 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 374931000323 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 374931000324 Uncharacterized conserved protein [Function unknown]; Region: COG3586 374931000325 exonuclease I; Provisional; Region: sbcB; PRK11779 374931000326 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 374931000327 active site 374931000328 catalytic site [active] 374931000329 substrate binding site [chemical binding]; other site 374931000330 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 374931000331 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 374931000332 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 374931000333 phage/plasmid replication protein, gene II/X family; Region: rep_II_X; TIGR01629 374931000334 Phage replication protein CRI; Region: Phage_CRI; pfam05144 374931000335 Phage X family; Region: Phage_X; cl11585 374931000336 Zonular occludens toxin (Zot); Region: Zot; cl17485 374931000337 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 374931000338 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 374931000339 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 374931000340 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 374931000341 putative active site [active] 374931000342 heme pocket [chemical binding]; other site 374931000343 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 374931000344 dimer interface [polypeptide binding]; other site 374931000345 phosphorylation site [posttranslational modification] 374931000346 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 374931000347 ATP binding site [chemical binding]; other site 374931000348 Mg2+ binding site [ion binding]; other site 374931000349 G-X-G motif; other site 374931000350 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 374931000351 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 374931000352 active site 374931000353 phosphorylation site [posttranslational modification] 374931000354 intermolecular recognition site; other site 374931000355 dimerization interface [polypeptide binding]; other site 374931000356 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 374931000357 DNA binding site [nucleotide binding] 374931000358 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 374931000359 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 374931000360 Walker A/P-loop; other site 374931000361 ATP binding site [chemical binding]; other site 374931000362 Q-loop/lid; other site 374931000363 ABC transporter signature motif; other site 374931000364 Walker B; other site 374931000365 D-loop; other site 374931000366 H-loop/switch region; other site 374931000367 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 374931000368 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 374931000369 dimer interface [polypeptide binding]; other site 374931000370 conserved gate region; other site 374931000371 putative PBP binding loops; other site 374931000372 ABC-ATPase subunit interface; other site 374931000373 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 374931000374 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 374931000375 dimer interface [polypeptide binding]; other site 374931000376 conserved gate region; other site 374931000377 putative PBP binding loops; other site 374931000378 ABC-ATPase subunit interface; other site 374931000379 PBP superfamily domain; Region: PBP_like_2; cl17296 374931000380 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 374931000381 Ferritin-like domain; Region: Ferritin; pfam00210 374931000382 ferroxidase diiron center [ion binding]; other site 374931000383 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 374931000384 Ferritin-like domain; Region: Ferritin; pfam00210 374931000385 ferroxidase diiron center [ion binding]; other site 374931000386 anthranilate synthase component I; Provisional; Region: PRK13564 374931000387 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 374931000388 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 374931000389 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 374931000390 Glutamine amidotransferase class-I; Region: GATase; pfam00117 374931000391 glutamine binding [chemical binding]; other site 374931000392 catalytic triad [active] 374931000393 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 374931000394 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 374931000395 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 374931000396 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 374931000397 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 374931000398 active site 374931000399 ribulose/triose binding site [chemical binding]; other site 374931000400 phosphate binding site [ion binding]; other site 374931000401 substrate (anthranilate) binding pocket [chemical binding]; other site 374931000402 product (indole) binding pocket [chemical binding]; other site 374931000403 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 374931000404 active site 374931000405 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 374931000406 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 374931000407 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 374931000408 HIGH motif; other site 374931000409 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 374931000410 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 374931000411 active site 374931000412 KMSKS motif; other site 374931000413 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 374931000414 tRNA binding surface [nucleotide binding]; other site 374931000415 anticodon binding site; other site 374931000416 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; cl00198 374931000417 substrate binding site [chemical binding]; other site 374931000418 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 374931000419 hinge regions; other site 374931000420 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 374931000421 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 374931000422 DNA polymerase III subunit chi; Validated; Region: PRK05728 374931000423 fumarate hydratase; Reviewed; Region: fumC; PRK00485 374931000424 Class II fumarases; Region: Fumarase_classII; cd01362 374931000425 active site 374931000426 tetramer interface [polypeptide binding]; other site 374931000427 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 374931000428 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 374931000429 active site 374931000430 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 374931000431 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 374931000432 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 374931000433 quinone interaction residues [chemical binding]; other site 374931000434 active site 374931000435 catalytic residues [active] 374931000436 FMN binding site [chemical binding]; other site 374931000437 substrate binding site [chemical binding]; other site 374931000438 potential frameshift: common BLAST hit: gi|68249907|ref|YP_249019.1| probable tail fiber protein [Haemophilus influenzae 86-028NP] 374931000439 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 374931000440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 374931000441 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 374931000442 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 374931000443 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 374931000444 Phage terminase large subunit; Region: Terminase_3; cl12054 374931000445 Terminase small subunit; Region: Terminase_2; pfam03592 374931000446 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 374931000447 non-specific DNA binding site [nucleotide binding]; other site 374931000448 salt bridge; other site 374931000449 sequence-specific DNA binding site [nucleotide binding]; other site 374931000450 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 374931000451 Predicted chitinase [General function prediction only]; Region: COG3179 374931000452 catalytic residue [active] 374931000453 phage holin, lambda family; Region: holin_lambda; TIGR01594 374931000454 Prophage antirepressor [Transcription]; Region: COG3617 374931000455 BRO family, N-terminal domain; Region: Bro-N; smart01040 374931000456 ProQ/FINO family; Region: ProQ; pfam04352 374931000457 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 374931000458 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 374931000459 active site 374931000460 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 374931000461 NinB protein; Region: NinB; pfam05772 374931000462 Replication protein P; Region: Phage_lambda_P; pfam06992 374931000463 Helix-turn-helix domain; Region: HTH_36; pfam13730 374931000464 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 374931000465 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 374931000466 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 374931000467 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 374931000468 sequence-specific DNA binding site [nucleotide binding]; other site 374931000469 salt bridge; other site 374931000470 Predicted transcriptional regulator [Transcription]; Region: COG2932 374931000471 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 374931000472 Catalytic site [active] 374931000473 Beta protein; Region: Beta_protein; pfam14350 374931000474 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 374931000475 AntA/AntB antirepressor; Region: AntA; pfam08346 374931000476 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 374931000477 catalytic residues [active] 374931000478 Int/Topo IB signature motif; other site 374931000479 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 374931000480 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 374931000481 ligand binding site [chemical binding]; other site 374931000482 flexible hinge region; other site 374931000483 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 374931000484 putative switch regulator; other site 374931000485 non-specific DNA interactions [nucleotide binding]; other site 374931000486 DNA binding site [nucleotide binding] 374931000487 sequence specific DNA binding site [nucleotide binding]; other site 374931000488 putative cAMP binding site [chemical binding]; other site 374931000489 universal stress protein UspE; Provisional; Region: PRK11175 374931000490 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 374931000491 Ligand Binding Site [chemical binding]; other site 374931000492 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 374931000493 Ligand Binding Site [chemical binding]; other site 374931000494 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 374931000495 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 374931000496 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 374931000497 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 374931000498 active site 374931000499 substrate binding site [chemical binding]; other site 374931000500 cosubstrate binding site; other site 374931000501 catalytic site [active] 374931000502 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 374931000503 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 374931000504 dimerization interface [polypeptide binding]; other site 374931000505 putative ATP binding site [chemical binding]; other site 374931000506 malonic semialdehyde reductase; Provisional; Region: PRK10538 374931000507 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 374931000508 putative NAD(P) binding site [chemical binding]; other site 374931000509 homotetramer interface [polypeptide binding]; other site 374931000510 homodimer interface [polypeptide binding]; other site 374931000511 active site 374931000512 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 374931000513 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 374931000514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931000515 catalytic residue [active] 374931000516 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 374931000517 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 374931000518 substrate binding site [chemical binding]; other site 374931000519 active site 374931000520 catalytic residues [active] 374931000521 heterodimer interface [polypeptide binding]; other site 374931000522 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 374931000523 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 374931000524 putative deacylase active site [active] 374931000525 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 374931000526 DNA-binding site [nucleotide binding]; DNA binding site 374931000527 RNA-binding motif; other site 374931000528 Uncharacterized protein family (UPF0181); Region: UPF0181; pfam03701 374931000529 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 374931000530 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 374931000531 probable active site [active] 374931000532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 374931000533 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 374931000534 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 374931000535 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 374931000536 Ligand Binding Site [chemical binding]; other site 374931000537 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 374931000538 active site residue [active] 374931000539 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 374931000540 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 374931000541 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 374931000542 substrate binding pocket [chemical binding]; other site 374931000543 chain length determination region; other site 374931000544 substrate-Mg2+ binding site; other site 374931000545 catalytic residues [active] 374931000546 aspartate-rich region 1; other site 374931000547 active site lid residues [active] 374931000548 aspartate-rich region 2; other site 374931000549 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 374931000550 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 374931000551 TPP-binding site; other site 374931000552 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 374931000553 PYR/PP interface [polypeptide binding]; other site 374931000554 dimer interface [polypeptide binding]; other site 374931000555 TPP binding site [chemical binding]; other site 374931000556 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 374931000557 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 374931000558 stringent starvation protein A; Provisional; Region: sspA; PRK09481 374931000559 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 374931000560 C-terminal domain interface [polypeptide binding]; other site 374931000561 putative GSH binding site (G-site) [chemical binding]; other site 374931000562 dimer interface [polypeptide binding]; other site 374931000563 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 374931000564 dimer interface [polypeptide binding]; other site 374931000565 N-terminal domain interface [polypeptide binding]; other site 374931000566 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 374931000567 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 374931000568 23S rRNA interface [nucleotide binding]; other site 374931000569 L3 interface [polypeptide binding]; other site 374931000570 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 374931000571 FAD binding site [chemical binding]; other site 374931000572 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 374931000573 AAA domain; Region: AAA_26; pfam13500 374931000574 YcgL domain; Region: YcgL; cl01189 374931000575 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 374931000576 homodecamer interface [polypeptide binding]; other site 374931000577 GTP cyclohydrolase I; Provisional; Region: PLN03044 374931000578 active site 374931000579 putative catalytic site residues [active] 374931000580 zinc binding site [ion binding]; other site 374931000581 GTP-CH-I/GFRP interaction surface; other site 374931000582 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 374931000583 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 374931000584 dimer interface [polypeptide binding]; other site 374931000585 putative functional site; other site 374931000586 putative MPT binding site; other site 374931000587 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 374931000588 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 374931000589 ATP binding site [chemical binding]; other site 374931000590 substrate interface [chemical binding]; other site 374931000591 dsDNA-mimic protein; Reviewed; Region: PRK05094 374931000592 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 374931000593 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 374931000594 catalytic residues [active] 374931000595 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 374931000596 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 374931000597 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 374931000598 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 374931000599 SelR domain; Region: SelR; pfam01641 374931000600 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 374931000601 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 374931000602 EamA-like transporter family; Region: EamA; cl17759 374931000603 Putative zinc-finger; Region: zf-HC2; pfam13490 374931000604 RNA polymerase sigma factor; Provisional; Region: PRK12530 374931000605 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 374931000606 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 374931000607 DNA binding residues [nucleotide binding] 374931000608 YadA-like C-terminal region; Region: YadA; pfam03895 374931000609 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 374931000610 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 374931000611 catalytic core [active] 374931000612 potential frameshift: common BLAST hit: gi|68250006|ref|YP_249118.1| predicted phosphomannomutase [Haemophilus influenzae 86-028NP] 374931000613 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 374931000614 dihydropteroate synthase; Region: DHPS; TIGR01496 374931000615 substrate binding pocket [chemical binding]; other site 374931000616 dimer interface [polypeptide binding]; other site 374931000617 inhibitor binding site; inhibition site 374931000618 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 374931000619 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 374931000620 Walker A motif; other site 374931000621 ATP binding site [chemical binding]; other site 374931000622 Walker B motif; other site 374931000623 arginine finger; other site 374931000624 Peptidase family M41; Region: Peptidase_M41; pfam01434 374931000625 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 374931000626 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 374931000627 S-adenosylmethionine binding site [chemical binding]; other site 374931000628 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 374931000629 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 374931000630 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 374931000631 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 374931000632 potential frameshift: common BLAST hit: gi|68250000|ref|YP_249112.1| penicillin-binding protein 4 precursor [Haemophilus influenzae] 374931000633 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 374931000634 16S/18S rRNA binding site [nucleotide binding]; other site 374931000635 S13e-L30e interaction site [polypeptide binding]; other site 374931000636 25S rRNA binding site [nucleotide binding]; other site 374931000637 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 374931000638 ATP binding site [chemical binding]; other site 374931000639 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 374931000640 active site 1 [active] 374931000641 dimer interface [polypeptide binding]; other site 374931000642 active site 2 [active] 374931000643 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 374931000644 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 374931000645 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 374931000646 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 374931000647 AAA domain; Region: AAA_30; pfam13604 374931000648 Family description; Region: UvrD_C_2; pfam13538 374931000649 potential frameshift: common BLAST hit: gi|16273231|ref|NP_439472.1| exodeoxyribonuclease V beta chain [Haemophilus influenzae Rd KW20] 374931000650 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 374931000651 23S rRNA binding site [nucleotide binding]; other site 374931000652 L21 binding site [polypeptide binding]; other site 374931000653 L13 binding site [polypeptide binding]; other site 374931000654 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 374931000655 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 374931000656 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 374931000657 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 374931000658 active site 374931000659 phosphate binding residues; other site 374931000660 catalytic residues [active] 374931000661 Sulfatase; Region: Sulfatase; cl17466 374931000662 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 374931000663 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 374931000664 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 374931000665 Walker A motif; other site 374931000666 ATP binding site [chemical binding]; other site 374931000667 Walker B motif; other site 374931000668 arginine finger; other site 374931000669 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 374931000670 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 374931000671 Walker A motif; other site 374931000672 ATP binding site [chemical binding]; other site 374931000673 Walker B motif; other site 374931000674 arginine finger; other site 374931000675 potential frameshift: common BLAST hit: gi|93005777|ref|YP_580214.1| protein of unknown function DUF262 [Psychrobacter cryohalolentis] 374931000676 Uncharacterized conserved protein [Function unknown]; Region: COG1479 374931000677 Protein of unknown function DUF262; Region: DUF262; pfam03235 374931000678 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 374931000679 active site 374931000680 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 374931000681 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 374931000682 potential frameshift: common BLAST hit: gi|93006199|ref|YP_580636.1| Death-on-curing protein [Psychrobacter cryohalolentis K5] 374931000683 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 374931000684 NAD-dependent deacetylase; Provisional; Region: PRK00481 374931000685 NAD+ binding site [chemical binding]; other site 374931000686 substrate binding site [chemical binding]; other site 374931000687 Zn binding site [ion binding]; other site 374931000688 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 374931000689 WYL domain; Region: WYL; pfam13280 374931000690 NlpC/P60 family; Region: NLPC_P60; pfam00877 374931000691 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 374931000692 IHF dimer interface [polypeptide binding]; other site 374931000693 IHF - DNA interface [nucleotide binding]; other site 374931000694 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 374931000695 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 374931000696 putative tRNA-binding site [nucleotide binding]; other site 374931000697 B3/4 domain; Region: B3_4; pfam03483 374931000698 tRNA synthetase B5 domain; Region: B5; smart00874 374931000699 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 374931000700 dimer interface [polypeptide binding]; other site 374931000701 motif 1; other site 374931000702 motif 3; other site 374931000703 motif 2; other site 374931000704 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 374931000705 potential frameshift: common BLAST hit: gi|113461002|ref|YP_719069.1| phenylalanyl-tRNA synthetase, alpha chain [Haemophilus somnus] 374931000706 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 374931000707 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 374931000708 catalytic loop [active] 374931000709 iron binding site [ion binding]; other site 374931000710 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 374931000711 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 374931000712 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 374931000713 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 374931000714 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 374931000715 tetramer interfaces [polypeptide binding]; other site 374931000716 binuclear metal-binding site [ion binding]; other site 374931000717 thiamine-monophosphate kinase; Region: thiL; TIGR01379 374931000718 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 374931000719 ATP binding site [chemical binding]; other site 374931000720 dimerization interface [polypeptide binding]; other site 374931000721 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 374931000722 putative RNA binding site [nucleotide binding]; other site 374931000723 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 374931000724 homopentamer interface [polypeptide binding]; other site 374931000725 active site 374931000726 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 374931000727 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 374931000728 putative anticodon binding site; other site 374931000729 putative dimer interface [polypeptide binding]; other site 374931000730 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 374931000731 homodimer interface [polypeptide binding]; other site 374931000732 motif 1; other site 374931000733 motif 2; other site 374931000734 active site 374931000735 motif 3; other site 374931000736 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 374931000737 active site clefts [active] 374931000738 zinc binding site [ion binding]; other site 374931000739 dimer interface [polypeptide binding]; other site 374931000740 ABC transporter ATPase component; Reviewed; Region: PRK11147 374931000741 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374931000742 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374931000743 ABC transporter; Region: ABC_tran_2; pfam12848 374931000744 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374931000745 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 374931000746 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 374931000747 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 374931000748 LrgB-like family; Region: LrgB; cl00596 374931000749 hypothetical protein; Provisional; Region: PRK01821 374931000750 Staphylococcal nuclease homologues; Region: SNc; smart00318 374931000751 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 374931000752 Catalytic site; other site 374931000753 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 374931000754 Aminotransferase class-V; Region: Aminotran_5; pfam00266 374931000755 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374931000756 catalytic residue [active] 374931000757 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 374931000758 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]; Region: COG5595 374931000759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 374931000760 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 374931000761 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 374931000762 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 374931000763 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 374931000764 prephenate dehydrogenase; Validated; Region: PRK08507 374931000765 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 374931000766 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 374931000767 RNA binding site [nucleotide binding]; other site 374931000768 active site 374931000769 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 374931000770 potential frameshift: common BLAST hit: gi|68250153|ref|YP_249265.1| ribosome-binding factor A [Haemophilus influenzae 86-028NP] 374931000771 HsdM N-terminal domain; Region: HsdM_N; pfam12161 374931000772 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 374931000773 Methyltransferase domain; Region: Methyltransf_26; pfam13659 374931000774 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 374931000775 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374931000776 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374931000777 potential frameshift: common BLAST hit: gi|16273199|ref|NP_439437.1| type I restriction enzyme [Haemophilus influenzae Rd KW20] 374931000778 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 374931000779 translation initiation factor IF-2; Region: IF-2; TIGR00487 374931000780 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 374931000781 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 374931000782 G1 box; other site 374931000783 putative GEF interaction site [polypeptide binding]; other site 374931000784 GTP/Mg2+ binding site [chemical binding]; other site 374931000785 Switch I region; other site 374931000786 G2 box; other site 374931000787 G3 box; other site 374931000788 Switch II region; other site 374931000789 G4 box; other site 374931000790 G5 box; other site 374931000791 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 374931000792 Translation-initiation factor 2; Region: IF-2; pfam11987 374931000793 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 374931000794 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 374931000795 NusA N-terminal domain; Region: NusA_N; pfam08529 374931000796 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 374931000797 RNA binding site [nucleotide binding]; other site 374931000798 homodimer interface [polypeptide binding]; other site 374931000799 NusA-like KH domain; Region: KH_5; pfam13184 374931000800 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 374931000801 G-X-X-G motif; other site 374931000802 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 374931000803 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 374931000804 ribosome maturation protein RimP; Reviewed; Region: PRK00092 374931000805 Sm and related proteins; Region: Sm_like; cl00259 374931000806 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 374931000807 putative oligomer interface [polypeptide binding]; other site 374931000808 putative RNA binding site [nucleotide binding]; other site 374931000809 Integrase core domain; Region: rve; pfam00665 374931000810 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 374931000811 ligand binding site; other site 374931000812 tetramer interface; other site 374931000813 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 374931000814 dimer interface [polypeptide binding]; other site 374931000815 FMN binding site [chemical binding]; other site 374931000816 antiporter inner membrane protein; Provisional; Region: PRK11670 374931000817 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 374931000818 Walker A motif; other site 374931000819 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 374931000820 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 374931000821 active site 374931000822 HIGH motif; other site 374931000823 KMSKS motif; other site 374931000824 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 374931000825 tRNA binding surface [nucleotide binding]; other site 374931000826 anticodon binding site; other site 374931000827 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 374931000828 dimer interface [polypeptide binding]; other site 374931000829 putative tRNA-binding site [nucleotide binding]; other site 374931000830 potential frameshift: common BLAST hit: gi|68250201|ref|YP_249313.1| tellurite resistance protein [Haemophilus influenzae 86-028NP] 374931000831 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 374931000832 potential frameshift: common BLAST hit: gi|16273187|ref|NP_439425.1| ABC transporter ATP-binding protein [Haemophilus influenzae Rd] 374931000833 potential frameshift: common BLAST hit: gi|16273187|ref|NP_439425.1| ABC transporter ATP-binding protein [Haemophilus influenzae Rd] 374931000834 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 374931000835 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 374931000836 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 374931000837 ABC-ATPase subunit interface; other site 374931000838 dimer interface [polypeptide binding]; other site 374931000839 putative PBP binding regions; other site 374931000840 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 374931000841 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 374931000842 potential frameshift: common BLAST hit: gi|68250206|ref|YP_249318.1| DNA gyrase subunit A [Haemophilus influenzae 86-028NP] 374931000843 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 374931000844 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 374931000845 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 374931000846 putative active site [active] 374931000847 potential frameshift: common BLAST hit: gi|68250209|ref|YP_249321.1| folylpolyglutamate synthase [Haemophilus influenzae 86-028NP] 374931000848 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 374931000849 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 374931000850 potential frameshift: common BLAST hit: gi|68250211|ref|YP_249323.1| probable periplasmic serine protease do/HhoA-like precursor 374931000851 transcription-repair coupling factor; Provisional; Region: PRK10689 374931000852 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 374931000853 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 374931000854 ATP binding site [chemical binding]; other site 374931000855 putative Mg++ binding site [ion binding]; other site 374931000856 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 374931000857 nucleotide binding region [chemical binding]; other site 374931000858 ATP-binding site [chemical binding]; other site 374931000859 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 374931000860 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 374931000861 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 374931000862 Helicase; Region: Helicase_RecD; pfam05127 374931000863 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 374931000864 Coenzyme A binding pocket [chemical binding]; other site 374931000865 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 374931000866 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 374931000867 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 374931000868 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374931000869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374931000870 ABC transporter; Region: ABC_tran_2; pfam12848 374931000871 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374931000872 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 374931000873 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 374931000874 non-specific DNA binding site [nucleotide binding]; other site 374931000875 salt bridge; other site 374931000876 sequence-specific DNA binding site [nucleotide binding]; other site 374931000877 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 374931000878 potential frameshift: common BLAST hit: gi|68250219|ref|YP_249331.1| predicted ABC-type transport system, periplasmic component 374931000879 potential frameshift: common BLAST hit: gi|68250220|ref|YP_249332.1| predicted ABC-type transport system, permease component 374931000880 excinuclease ABC, B subunit; Region: uvrb; TIGR00631 374931000881 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 374931000882 nucleotide binding region [chemical binding]; other site 374931000883 ATP-binding site [chemical binding]; other site 374931000884 Ultra-violet resistance protein B; Region: UvrB; pfam12344 374931000885 UvrB/uvrC motif; Region: UVR; pfam02151 374931000886 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 374931000887 Sulfatase; Region: Sulfatase; pfam00884 374931000888 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 374931000889 Malic enzyme, N-terminal domain; Region: malic; pfam00390 374931000890 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 374931000891 putative NAD(P) binding site [chemical binding]; other site 374931000892 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 374931000893 Exopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3955 374931000894 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 374931000895 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 374931000896 RNA binding surface [nucleotide binding]; other site 374931000897 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 374931000898 active site 374931000899 uracil binding [chemical binding]; other site 374931000900 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 374931000901 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 374931000902 putative substrate translocation pore; other site 374931000903 Predicted membrane protein [Function unknown]; Region: COG2860 374931000904 UPF0126 domain; Region: UPF0126; pfam03458 374931000905 UPF0126 domain; Region: UPF0126; pfam03458 374931000906 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 374931000907 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 374931000908 putative catalytic cysteine [active] 374931000909 chaperone protein DnaJ; Provisional; Region: PRK10767 374931000910 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 374931000911 HSP70 interaction site [polypeptide binding]; other site 374931000912 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 374931000913 substrate binding site [polypeptide binding]; other site 374931000914 dimer interface [polypeptide binding]; other site 374931000915 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 374931000916 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 374931000917 nucleotide binding site [chemical binding]; other site 374931000918 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 374931000919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 374931000920 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 374931000921 active site 374931000922 dimer interfaces [polypeptide binding]; other site 374931000923 catalytic residues [active] 374931000924 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 374931000925 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 374931000926 dimer interface [polypeptide binding]; other site 374931000927 TPP-binding site [chemical binding]; other site 374931000928 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 374931000929 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 374931000930 E3 interaction surface; other site 374931000931 lipoyl attachment site [posttranslational modification]; other site 374931000932 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 374931000933 E3 interaction surface; other site 374931000934 lipoyl attachment site [posttranslational modification]; other site 374931000935 e3 binding domain; Region: E3_binding; pfam02817 374931000936 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 374931000937 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 374931000938 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 374931000939 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 374931000940 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 374931000941 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931000942 active site 374931000943 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 374931000944 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 374931000945 Walker A motif; other site 374931000946 ATP binding site [chemical binding]; other site 374931000947 Walker B motif; other site 374931000948 DNA polymerase III subunit delta'; Validated; Region: PRK08485 374931000949 arginine finger; other site 374931000950 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 374931000951 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 374931000952 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931000953 active site 374931000954 uracil-xanthine permease; Region: ncs2; TIGR00801 374931000955 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 374931000956 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 374931000957 translation initiation factor Sui1; Validated; Region: PRK06824 374931000958 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 374931000959 putative rRNA binding site [nucleotide binding]; other site 374931000960 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 374931000961 active site 374931000962 dimer interface [polypeptide binding]; other site 374931000963 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 374931000964 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 374931000965 binding surface 374931000966 TPR motif; other site 374931000967 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 374931000968 Predicted membrane protein [Function unknown]; Region: COG3771 374931000969 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 374931000970 IHF dimer interface [polypeptide binding]; other site 374931000971 IHF - DNA interface [nucleotide binding]; other site 374931000972 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 374931000973 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 374931000974 RNA binding site [nucleotide binding]; other site 374931000975 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 374931000976 RNA binding site [nucleotide binding]; other site 374931000977 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 374931000978 RNA binding site [nucleotide binding]; other site 374931000979 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 374931000980 RNA binding site [nucleotide binding]; other site 374931000981 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 374931000982 RNA binding site [nucleotide binding]; other site 374931000983 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 374931000984 RNA binding site [nucleotide binding]; other site 374931000985 cytidylate kinase; Provisional; Region: cmk; PRK00023 374931000986 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 374931000987 CMP-binding site; other site 374931000988 The sites determining sugar specificity; other site 374931000989 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 374931000990 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 374931000991 active site 374931000992 multimer interface [polypeptide binding]; other site 374931000993 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 374931000994 predicted active site [active] 374931000995 catalytic triad [active] 374931000996 D-lactate dehydrogenase; Provisional; Region: PRK11183 374931000997 FAD binding domain; Region: FAD_binding_4; pfam01565 374931000998 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 374931000999 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 374931001000 potential frameshift: common BLAST hit: gi|68250254|ref|YP_249366.1| probable lipoprotein NlpC [Haemophilus influenzae 86-028NP] 374931001001 protease TldD; Provisional; Region: tldD; PRK10735 374931001002 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 374931001003 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 374931001004 putative SAM binding site [chemical binding]; other site 374931001005 putative homodimer interface [polypeptide binding]; other site 374931001006 LppC putative lipoprotein; Region: LppC; pfam04348 374931001007 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 374931001008 putative ligand binding site [chemical binding]; other site 374931001009 TIGR00252 family protein; Region: TIGR00252 374931001010 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 374931001011 dimer interface [polypeptide binding]; other site 374931001012 active site 374931001013 outer membrane lipoprotein; Provisional; Region: PRK11023 374931001014 BON domain; Region: BON; pfam04972 374931001015 BON domain; Region: BON; cl02771 374931001016 potential frameshift: common BLAST hit: gi|68250261|ref|YP_249373.1| ribonucleotide-diphosphate reductase alpha subunit [Haemophilus] 374931001017 potential frameshift: common BLAST hit: gi|68250262|ref|YP_249374.1| ribonucleotide-diphosphate reductase beta subunit [Haemophilus] 374931001018 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 374931001019 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 374931001020 E3 interaction surface; other site 374931001021 lipoyl attachment site [posttranslational modification]; other site 374931001022 e3 binding domain; Region: E3_binding; pfam02817 374931001023 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 374931001024 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 374931001025 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 374931001026 TPP-binding site [chemical binding]; other site 374931001027 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 374931001028 PYR/PP interface [polypeptide binding]; other site 374931001029 dimer interface [polypeptide binding]; other site 374931001030 TPP binding site [chemical binding]; other site 374931001031 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374931001032 Sel1 repeat; Region: Sel1; cl02723 374931001033 Sel1 repeat; Region: Sel1; cl02723 374931001034 Sel1 repeat; Region: Sel1; cl02723 374931001035 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374931001036 Sel1-like repeats; Region: SEL1; smart00671 374931001037 Sel1-like repeats; Region: SEL1; smart00671 374931001038 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 374931001039 potential frameshift: common BLAST hit: gi|68250266|ref|YP_249378.1| conserved putative deoxyribonuclease [Haemophilus influenzae] 374931001040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 374931001041 Peptidase M15; Region: Peptidase_M15_3; cl01194 374931001042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 374931001043 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 374931001044 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 374931001045 carboxy-terminal protease; Provisional; Region: PRK11186 374931001046 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 374931001047 protein binding site [polypeptide binding]; other site 374931001048 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 374931001049 Catalytic dyad [active] 374931001050 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 374931001051 ProP expression regulator; Provisional; Region: PRK04950 374931001052 ProQ/FINO family; Region: ProQ; smart00945 374931001053 KOW motif; Region: KOW; pfam00467 374931001054 potential frameshift: common BLAST hit: gi|68250271|ref|YP_249383.1| paraquat-inducible protein A-like protein [Haemophilus influenzae] 374931001055 potential frameshift: common BLAST hit: gi|68250272|ref|YP_249384.1| paraquat-inducible protein B-like protein [Haemophilus influenzae] 374931001056 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 374931001057 MoaE homodimer interface [polypeptide binding]; other site 374931001058 MoaD interaction [polypeptide binding]; other site 374931001059 active site residues [active] 374931001060 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 374931001061 MoaE interaction surface [polypeptide binding]; other site 374931001062 MoeB interaction surface [polypeptide binding]; other site 374931001063 thiocarboxylated glycine; other site 374931001064 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 374931001065 trimer interface [polypeptide binding]; other site 374931001066 dimer interface [polypeptide binding]; other site 374931001067 putative active site [active] 374931001068 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 374931001069 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 374931001070 FeS/SAM binding site; other site 374931001071 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 374931001072 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 374931001073 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 374931001074 Hemerythrin-like domain; Region: Hr-like; cd12108 374931001075 Fe binding site [ion binding]; other site 374931001076 KpsF/GutQ family protein; Region: kpsF; TIGR00393 374931001077 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 374931001078 putative active site [active] 374931001079 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 374931001080 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 374931001081 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 374931001082 active site 374931001083 motif I; other site 374931001084 motif II; other site 374931001085 TIGR01666 family membrane protein; Region: YCCS 374931001086 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 374931001087 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 374931001088 hypothetical protein; Provisional; Region: PRK01904 374931001089 hypothetical protein; Provisional; Region: PRK03641 374931001090 potential frameshift: common BLAST hit: gi|68250286|ref|YP_249398.1| possible protease SohB [Haemophilus influenzae 86-028NP] 374931001091 electron transport complex protein RsxA; Provisional; Region: PRK05151 374931001092 electron transport complex protein RnfB; Provisional; Region: PRK05113 374931001093 Putative Fe-S cluster; Region: FeS; pfam04060 374931001094 4Fe-4S binding domain; Region: Fer4; pfam00037 374931001095 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 374931001096 SLBB domain; Region: SLBB; pfam10531 374931001097 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 374931001098 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 374931001099 electron transport complex protein RnfG; Validated; Region: PRK01908 374931001100 electron transport complex RsxE subunit; Provisional; Region: PRK12405 374931001101 endonuclease III; Provisional; Region: PRK10702 374931001102 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 374931001103 minor groove reading motif; other site 374931001104 helix-hairpin-helix signature motif; other site 374931001105 substrate binding pocket [chemical binding]; other site 374931001106 active site 374931001107 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 374931001108 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 374931001109 Na2 binding site [ion binding]; other site 374931001110 putative substrate binding site 1 [chemical binding]; other site 374931001111 Na binding site 1 [ion binding]; other site 374931001112 putative substrate binding site 2 [chemical binding]; other site 374931001113 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 374931001114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931001115 Walker A/P-loop; other site 374931001116 ATP binding site [chemical binding]; other site 374931001117 Q-loop/lid; other site 374931001118 ABC transporter signature motif; other site 374931001119 Walker B; other site 374931001120 D-loop; other site 374931001121 H-loop/switch region; other site 374931001122 molybdenum-pterin binding domain; Region: Mop; TIGR00638 374931001123 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 374931001124 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 374931001125 dimer interface [polypeptide binding]; other site 374931001126 conserved gate region; other site 374931001127 putative PBP binding loops; other site 374931001128 ABC-ATPase subunit interface; other site 374931001129 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 374931001130 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 374931001131 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 374931001132 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 374931001133 molybdenum-pterin binding domain; Region: Mop; TIGR00638 374931001134 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 374931001135 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 374931001136 potential frameshift: common BLAST hit: gi|68250300|ref|YP_249412.1| putative UDP-galactose--lipooligosaccharide galactosyltransferase 374931001137 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 374931001138 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 374931001139 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 374931001140 putative ADP-binding pocket [chemical binding]; other site 374931001141 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 374931001142 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 374931001143 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 374931001144 Uncharacterized conserved protein [Function unknown]; Region: COG1434 374931001145 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 374931001146 putative active site [active] 374931001147 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 374931001148 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 374931001149 THF binding site; other site 374931001150 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 374931001151 substrate binding site [chemical binding]; other site 374931001152 THF binding site; other site 374931001153 zinc-binding site [ion binding]; other site 374931001154 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 374931001155 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 374931001156 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 374931001157 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 374931001158 multifunctional aminopeptidase A; Provisional; Region: PRK00913 374931001159 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 374931001160 interface (dimer of trimers) [polypeptide binding]; other site 374931001161 Substrate-binding/catalytic site; other site 374931001162 Zn-binding sites [ion binding]; other site 374931001163 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 374931001164 sensor protein QseC; Provisional; Region: PRK10337 374931001165 HAMP domain; Region: HAMP; pfam00672 374931001166 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 374931001167 dimer interface [polypeptide binding]; other site 374931001168 phosphorylation site [posttranslational modification] 374931001169 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 374931001170 ATP binding site [chemical binding]; other site 374931001171 Mg2+ binding site [ion binding]; other site 374931001172 G-X-G motif; other site 374931001173 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 374931001174 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 374931001175 active site 374931001176 phosphorylation site [posttranslational modification] 374931001177 intermolecular recognition site; other site 374931001178 dimerization interface [polypeptide binding]; other site 374931001179 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 374931001180 DNA binding site [nucleotide binding] 374931001181 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 374931001182 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 374931001183 HPr interaction site; other site 374931001184 glycerol kinase (GK) interaction site [polypeptide binding]; other site 374931001185 active site 374931001186 phosphorylation site [posttranslational modification] 374931001187 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 374931001188 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 374931001189 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 374931001190 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 374931001191 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 374931001192 dimerization domain swap beta strand [polypeptide binding]; other site 374931001193 regulatory protein interface [polypeptide binding]; other site 374931001194 active site 374931001195 regulatory phosphorylation site [posttranslational modification]; other site 374931001196 GTPase RsgA; Reviewed; Region: PRK12288 374931001197 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 374931001198 RNA binding site [nucleotide binding]; other site 374931001199 homodimer interface [polypeptide binding]; other site 374931001200 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 374931001201 GTPase/Zn-binding domain interface [polypeptide binding]; other site 374931001202 GTP/Mg2+ binding site [chemical binding]; other site 374931001203 G4 box; other site 374931001204 G5 box; other site 374931001205 G1 box; other site 374931001206 Switch I region; other site 374931001207 G2 box; other site 374931001208 G3 box; other site 374931001209 Switch II region; other site 374931001210 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 374931001211 catalytic site [active] 374931001212 putative active site [active] 374931001213 putative substrate binding site [chemical binding]; other site 374931001214 dimer interface [polypeptide binding]; other site 374931001215 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 374931001216 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 374931001217 Mg++ binding site [ion binding]; other site 374931001218 putative catalytic motif [active] 374931001219 substrate binding site [chemical binding]; other site 374931001220 potential frameshift: common BLAST hit: gi|68250319|ref|YP_249431.1| PII uridylyl-transferase [Haemophilus influenzae 86-028NP] 374931001221 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 374931001222 active site 374931001223 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 374931001224 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 374931001225 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 374931001226 ATP binding site [chemical binding]; other site 374931001227 active site 374931001228 substrate binding site [chemical binding]; other site 374931001229 argininosuccinate synthase; Provisional; Region: PRK13820 374931001230 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 374931001231 ANP binding site [chemical binding]; other site 374931001232 Substrate Binding Site II [chemical binding]; other site 374931001233 Substrate Binding Site I [chemical binding]; other site 374931001234 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 374931001235 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 374931001236 putative active site [active] 374931001237 potential frameshift: common BLAST hit: gi|68250328|ref|YP_249440.1| predicted allophanate hydrolase subunit 2 [Haemophilus influenzae] 374931001238 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 374931001239 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 374931001240 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 374931001241 YadA-like C-terminal region; Region: YadA; pfam03895 374931001242 exoribonuclease II; Provisional; Region: PRK05054 374931001243 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 374931001244 RNB domain; Region: RNB; pfam00773 374931001245 S1 RNA binding domain; Region: S1; pfam00575 374931001246 RNA binding site [nucleotide binding]; other site 374931001247 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 374931001248 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 374931001249 NAD binding site [chemical binding]; other site 374931001250 homotetramer interface [polypeptide binding]; other site 374931001251 homodimer interface [polypeptide binding]; other site 374931001252 substrate binding site [chemical binding]; other site 374931001253 active site 374931001254 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 374931001255 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 374931001256 G1 box; other site 374931001257 putative GEF interaction site [polypeptide binding]; other site 374931001258 GTP/Mg2+ binding site [chemical binding]; other site 374931001259 Switch I region; other site 374931001260 G2 box; other site 374931001261 G3 box; other site 374931001262 Switch II region; other site 374931001263 G4 box; other site 374931001264 G5 box; other site 374931001265 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 374931001266 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 374931001267 4-azaleucine resistance probable transporter AzlC; Region: azlC; TIGR00346 374931001268 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 374931001269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374931001270 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 374931001271 putative dimerization interface [polypeptide binding]; other site 374931001272 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 374931001273 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 374931001274 phosphate binding site [ion binding]; other site 374931001275 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 374931001276 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 374931001277 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 374931001278 generic binding surface II; other site 374931001279 ssDNA binding site; other site 374931001280 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 374931001281 ATP binding site [chemical binding]; other site 374931001282 putative Mg++ binding site [ion binding]; other site 374931001283 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 374931001284 nucleotide binding region [chemical binding]; other site 374931001285 ATP-binding site [chemical binding]; other site 374931001286 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 374931001287 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 374931001288 Zn2+ binding site [ion binding]; other site 374931001289 Mg2+ binding site [ion binding]; other site 374931001290 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 374931001291 synthetase active site [active] 374931001292 NTP binding site [chemical binding]; other site 374931001293 metal binding site [ion binding]; metal-binding site 374931001294 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 374931001295 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 374931001296 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 374931001297 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 374931001298 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 374931001299 catalytic site [active] 374931001300 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 374931001301 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 374931001302 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 374931001303 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 374931001304 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 374931001305 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 374931001306 acyl-activating enzyme (AAE) consensus motif; other site 374931001307 putative AMP binding site [chemical binding]; other site 374931001308 putative active site [active] 374931001309 putative CoA binding site [chemical binding]; other site 374931001310 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 374931001311 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 374931001312 active site 374931001313 motif I; other site 374931001314 motif II; other site 374931001315 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 374931001316 metal-binding heat shock protein; Provisional; Region: PRK00016 374931001317 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 374931001318 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 374931001319 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 374931001320 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 374931001321 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 374931001322 molybdopterin cofactor binding site; other site 374931001323 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 374931001324 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 374931001325 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 374931001326 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 374931001327 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 374931001328 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 374931001329 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 374931001330 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 374931001331 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 374931001332 Coenzyme A binding pocket [chemical binding]; other site 374931001333 DNA polymerase III, psi subunit; Region: DNA_III_psi; TIGR00664 374931001334 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 374931001335 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 374931001336 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 374931001337 S-adenosylmethionine binding site [chemical binding]; other site 374931001338 GTPase Era; Reviewed; Region: era; PRK00089 374931001339 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 374931001340 Switch II region; other site 374931001341 G3 box; other site 374931001342 G4 box; other site 374931001343 G5 box; other site 374931001344 KH domain; Region: KH_2; pfam07650 374931001345 ribonuclease III; Reviewed; Region: rnc; PRK00102 374931001346 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 374931001347 dimerization interface [polypeptide binding]; other site 374931001348 active site 374931001349 metal binding site [ion binding]; metal-binding site 374931001350 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 374931001351 dsRNA binding site [nucleotide binding]; other site 374931001352 potential frameshift: common BLAST hit: gi|16271990|ref|NP_438188.1| signal peptidase I [Haemophilus influenzae Rd KW20] 374931001353 GTP-binding protein LepA; Provisional; Region: PRK05433 374931001354 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 374931001355 G1 box; other site 374931001356 putative GEF interaction site [polypeptide binding]; other site 374931001357 GTP/Mg2+ binding site [chemical binding]; other site 374931001358 Switch I region; other site 374931001359 G2 box; other site 374931001360 G3 box; other site 374931001361 Switch II region; other site 374931001362 G4 box; other site 374931001363 G5 box; other site 374931001364 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 374931001365 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 374931001366 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 374931001367 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 374931001368 potential frameshift: common BLAST hit: gi|16271993|ref|NP_438191.1| uracil-DNA glycosylase [Haemophilus influenzae Rd KW20] 374931001369 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 374931001370 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 374931001371 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 374931001372 FeS/SAM binding site; other site 374931001373 TRAM domain; Region: TRAM; pfam01938 374931001374 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 374931001375 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 374931001376 transmembrane helices; other site 374931001377 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 374931001378 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 374931001379 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 374931001380 potential frameshift: common BLAST hit: gi|68248573|ref|YP_247685.1| citrate lyase alpha chain [Haemophilus influenzae 86-028NP] 374931001381 potential frameshift: common BLAST hit: gi|16271997|ref|NP_438195.1| citrate lyase alpha chain [Haemophilus influenzae Rd KW20] 374931001382 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 374931001383 citrate lyase subunit gamma; Provisional; Region: PRK13253 374931001384 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 374931001385 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 374931001386 putative active site [active] 374931001387 (T/H)XGH motif; other site 374931001388 Lipoate synthase [Coenzyme metabolism]; Region: LipA; COG0320 374931001389 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 374931001390 FeS/SAM binding site; other site 374931001391 lipoate-protein ligase B; Provisional; Region: PRK14342 374931001392 hypothetical protein; Provisional; Region: PRK04998 374931001393 potential frameshift: common BLAST hit: gi|68248580|ref|YP_247692.1| penicillin-binding protein 5 precursor [Haemophilus influenzae] 374931001394 potential frameshift: common BLAST hit: gi|16272005|ref|NP_438203.1| lipoprotein [Haemophilus influenzae Rd KW20] 374931001395 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 374931001396 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 374931001397 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 374931001398 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 374931001399 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 374931001400 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 374931001401 putative transporter; Validated; Region: PRK03818 374931001402 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 374931001403 TrkA-C domain; Region: TrkA_C; pfam02080 374931001404 TrkA-C domain; Region: TrkA_C; pfam02080 374931001405 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 374931001406 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 374931001407 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 374931001408 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 374931001409 rod shape-determining protein MreB; Provisional; Region: PRK13927 374931001410 MreB and similar proteins; Region: MreB_like; cd10225 374931001411 nucleotide binding site [chemical binding]; other site 374931001412 Mg binding site [ion binding]; other site 374931001413 putative protofilament interaction site [polypeptide binding]; other site 374931001414 RodZ interaction site [polypeptide binding]; other site 374931001415 rod shape-determining protein MreC; Region: mreC; TIGR00219 374931001416 rod shape-determining protein MreC; Region: MreC; pfam04085 374931001417 rod shape-determining protein MreD; Region: MreD; cl01087 374931001418 TIGR01619 family protein; Region: hyp_HI0040 374931001419 Family of unknown function (DUF695); Region: DUF695; pfam05117 374931001420 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 374931001421 putative catalytic site [active] 374931001422 putative phosphate binding site [ion binding]; other site 374931001423 active site 374931001424 metal binding site A [ion binding]; metal-binding site 374931001425 DNA binding site [nucleotide binding] 374931001426 putative AP binding site [nucleotide binding]; other site 374931001427 putative metal binding site B [ion binding]; other site 374931001428 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 374931001429 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 374931001430 active site 374931001431 Predicted membrane protein [Function unknown]; Region: COG3768 374931001432 Domain of unknown function (DUF697); Region: DUF697; cl12064 374931001433 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 374931001434 YccA-like proteins; Region: YccA_like; cd10433 374931001435 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 374931001436 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 374931001437 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 374931001438 PhnA protein; Region: PhnA; pfam03831 374931001439 potential frameshift: common BLAST hit: gi|68248598|ref|YP_247710.1| keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase 374931001440 Glucuronate isomerase; Region: UxaC; pfam02614 374931001441 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 374931001442 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 374931001443 MFS/sugar transport protein; Region: MFS_2; pfam13347 374931001444 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 374931001445 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 374931001446 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 374931001447 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 374931001448 D-mannonate oxidoreductase; Provisional; Region: PRK08277 374931001449 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 374931001450 putative NAD(P) binding site [chemical binding]; other site 374931001451 active site 374931001452 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 374931001453 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 374931001454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 374931001455 DNA-binding site [nucleotide binding]; DNA binding site 374931001456 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 374931001457 mannonate dehydratase; Provisional; Region: PRK03906 374931001458 mannonate dehydratase; Region: uxuA; TIGR00695 374931001459 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 374931001460 potential frameshift: common BLAST hit: gi|68248608|ref|YP_247720.1| excinuclease ABC subunit C [Haemophilus influenzae 86-028NP] 374931001461 potential frameshift: common BLAST hit: gi|68248608|ref|YP_247720.1| excinuclease ABC subunit C [Haemophilus influenzae 86-028NP] 374931001462 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 374931001463 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 374931001464 Ligand binding site; other site 374931001465 oligomer interface; other site 374931001466 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 374931001467 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 374931001468 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 374931001469 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 374931001470 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 374931001471 Walker A/P-loop; other site 374931001472 ATP binding site [chemical binding]; other site 374931001473 Q-loop/lid; other site 374931001474 ABC transporter signature motif; other site 374931001475 Walker B; other site 374931001476 D-loop; other site 374931001477 H-loop/switch region; other site 374931001478 potential frameshift: common BLAST hit: gi|68248612|ref|YP_247724.1| recombination protein 2 [Haemophilus influenzae 86-028NP] 374931001479 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 374931001480 poly(A) polymerase; Region: pcnB; TIGR01942 374931001481 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 374931001482 active site 374931001483 NTP binding site [chemical binding]; other site 374931001484 metal binding triad [ion binding]; metal-binding site 374931001485 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 374931001486 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 374931001487 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 374931001488 catalytic center binding site [active] 374931001489 ATP binding site [chemical binding]; other site 374931001490 tRNA threonylcarbamoyl adenosine modification protein YjeE; Region: T6A_YjeE; TIGR00150 374931001491 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 374931001492 active site 374931001493 metal binding site [ion binding]; metal-binding site 374931001494 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 374931001495 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 374931001496 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 374931001497 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 374931001498 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 374931001499 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 374931001500 ATP binding site [chemical binding]; other site 374931001501 Mg2+ binding site [ion binding]; other site 374931001502 G-X-G motif; other site 374931001503 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 374931001504 ATP binding site [chemical binding]; other site 374931001505 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 374931001506 potential frameshift: common BLAST hit: gi|16272042|ref|NP_438241.1| tRNA delta(2)-isopentenylpyrophosphate transferase [Haemophilus] 374931001507 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 374931001508 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 374931001509 metal binding triad; other site 374931001510 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 374931001511 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 374931001512 metal binding triad; other site 374931001513 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 374931001514 potential frameshift: common BLAST hit: gi|68248621|ref|YP_247733.1| DNA repair protein RecN [Haemophilus influenzae 86-028NP] 374931001515 potential frameshift: common BLAST hit: gi|68248621|ref|YP_247733.1| DNA repair protein RecN [Haemophilus influenzae 86-028NP] 374931001516 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 374931001517 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 374931001518 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 374931001519 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 374931001520 dimer interface [polypeptide binding]; other site 374931001521 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 374931001522 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 374931001523 active site 374931001524 NTP binding site [chemical binding]; other site 374931001525 metal binding triad [ion binding]; metal-binding site 374931001526 antibiotic binding site [chemical binding]; other site 374931001527 nucleotidyltransferase substrate binding protein, HI0074 family; Region: HI0074; TIGR01987 374931001528 potential frameshift: common BLAST hit: gi|68248626|ref|YP_247738.1| anaerobic ribonucleoside triphosphate reductase [Haemophilus] 374931001529 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 374931001530 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 374931001531 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 374931001532 active site 374931001533 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 374931001534 catalytic triad [active] 374931001535 dimer interface [polypeptide binding]; other site 374931001536 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 374931001537 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 374931001538 active site 374931001539 HIGH motif; other site 374931001540 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 374931001541 KMSKS motif; other site 374931001542 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 374931001543 tRNA binding surface [nucleotide binding]; other site 374931001544 anticodon binding site; other site 374931001545 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 374931001546 substrate binding site [chemical binding]; other site 374931001547 potential frameshift: common BLAST hit: gi|68248631|ref|YP_247743.1| putative deoxyribonuclease [Haemophilus influenzae 86-028NP] 374931001548 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 374931001549 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 374931001550 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 374931001551 catalytic residues [active] 374931001552 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 374931001553 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 374931001554 putative ligand binding site [chemical binding]; other site 374931001555 putative NAD binding site [chemical binding]; other site 374931001556 catalytic site [active] 374931001557 potential frameshift: common BLAST hit: gi|16272060|ref|NP_438259.1| cystathionine beta-lyase [Haemophilus influenzae Rd KW20] 374931001558 threonine synthase; Validated; Region: PRK09225 374931001559 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 374931001560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374931001561 catalytic residue [active] 374931001562 homoserine kinase; Region: thrB; TIGR00191 374931001563 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 374931001564 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 374931001565 potential frameshift: common BLAST hit: gi|16272063|ref|NP_438262.1| bifunctional aspartokinase I/homeserine dehydrogenase I 374931001566 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 374931001567 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 374931001568 catalytic residue [active] 374931001569 Methyltransferase domain; Region: Methyltransf_31; pfam13847 374931001570 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 374931001571 S-adenosylmethionine binding site [chemical binding]; other site 374931001572 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 374931001573 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 374931001574 potential frameshift: common BLAST hit: gi|68248709|ref|YP_247821.1| iron(III)-transport system permease protein hFbpB [Haemophilus] 374931001575 potential frameshift: common BLAST hit: gi|16272073|ref|NP_438273.1| iron(III) ABC transporter ATP-binding protein [Haemophilus] 374931001576 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 374931001577 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 374931001578 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 374931001579 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 374931001580 metal binding site [ion binding]; metal-binding site 374931001581 dimer interface [polypeptide binding]; other site 374931001582 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 374931001583 ArsC family; Region: ArsC; pfam03960 374931001584 putative catalytic residues [active] 374931001585 heat shock protein 90; Provisional; Region: PRK05218 374931001586 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 374931001587 ATP binding site [chemical binding]; other site 374931001588 Mg2+ binding site [ion binding]; other site 374931001589 G-X-G motif; other site 374931001590 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 374931001591 HsdM N-terminal domain; Region: HsdM_N; pfam12161 374931001592 Methyltransferase domain; Region: Methyltransf_26; pfam13659 374931001593 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 374931001594 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374931001595 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374931001596 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 374931001597 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 374931001598 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 374931001599 signal recognition particle protein; Provisional; Region: PRK10867 374931001600 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 374931001601 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 374931001602 P loop; other site 374931001603 GTP binding site [chemical binding]; other site 374931001604 Signal peptide binding domain; Region: SRP_SPB; pfam02978 374931001605 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 374931001606 Domain of unknown function DUF21; Region: DUF21; pfam01595 374931001607 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 374931001608 Transporter associated domain; Region: CorC_HlyC; smart01091 374931001609 Uncharacterized conserved protein [Function unknown]; Region: COG2966 374931001610 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 374931001611 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 374931001612 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 374931001613 seryl-tRNA synthetase; Provisional; Region: PRK05431 374931001614 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 374931001615 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 374931001616 dimer interface [polypeptide binding]; other site 374931001617 active site 374931001618 motif 1; other site 374931001619 motif 2; other site 374931001620 motif 3; other site 374931001621 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 374931001622 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 374931001623 C-terminal domain interface [polypeptide binding]; other site 374931001624 GSH binding site (G-site) [chemical binding]; other site 374931001625 dimer interface [polypeptide binding]; other site 374931001626 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 374931001627 dimer interface [polypeptide binding]; other site 374931001628 N-terminal domain interface [polypeptide binding]; other site 374931001629 substrate binding pocket (H-site) [chemical binding]; other site 374931001630 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 374931001631 Helix-turn-helix domain; Region: HTH_28; pfam13518 374931001632 potential frameshift: common BLAST hit: gi|68248728|ref|YP_247840.1| hemin receptor [Haemophilus influenzae 86-028NP] 374931001633 potential frameshift: common BLAST hit: gi|16272087|ref|NP_438287.1| hemin receptor [Haemophilus influenzae Rd KW20] 374931001634 potential frameshift: common BLAST hit: gi|16272087|ref|NP_438287.1| hemin receptor [Haemophilus influenzae Rd KW20] 374931001635 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 374931001636 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 374931001637 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 374931001638 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 374931001639 putative RNA binding site [nucleotide binding]; other site 374931001640 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 374931001641 S-adenosylmethionine binding site [chemical binding]; other site 374931001642 murein transglycosylase A; Provisional; Region: mltA; PRK11162 374931001643 MltA specific insert domain; Region: MltA; smart00925 374931001644 3D domain; Region: 3D; pfam06725 374931001645 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 374931001646 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 374931001647 putative ATP binding site [chemical binding]; other site 374931001648 putative substrate interface [chemical binding]; other site 374931001649 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 374931001650 intersubunit interface [polypeptide binding]; other site 374931001651 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 374931001652 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 374931001653 metal binding site [ion binding]; metal-binding site 374931001654 Uncharacterized integral membrane protein [Function unknown]; Region: COG5413 374931001655 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 374931001656 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374931001657 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374931001658 cystathionine beta-lyase; Provisional; Region: PRK08114 374931001659 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 374931001660 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374931001661 catalytic residue [active] 374931001662 peroxidase; Provisional; Region: PRK15000 374931001663 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 374931001664 dimer interface [polypeptide binding]; other site 374931001665 decamer (pentamer of dimers) interface [polypeptide binding]; other site 374931001666 catalytic triad [active] 374931001667 peroxidatic and resolving cysteines [active] 374931001668 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 374931001669 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 374931001670 dimer interface [polypeptide binding]; other site 374931001671 substrate binding site [chemical binding]; other site 374931001672 metal binding sites [ion binding]; metal-binding site 374931001673 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 374931001674 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 374931001675 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 374931001676 Walker A/P-loop; other site 374931001677 ATP binding site [chemical binding]; other site 374931001678 Q-loop/lid; other site 374931001679 ABC transporter signature motif; other site 374931001680 Walker B; other site 374931001681 D-loop; other site 374931001682 H-loop/switch region; other site 374931001683 TOBE domain; Region: TOBE_2; pfam08402 374931001684 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 374931001685 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 374931001686 dimer interface [polypeptide binding]; other site 374931001687 conserved gate region; other site 374931001688 putative PBP binding loops; other site 374931001689 ABC-ATPase subunit interface; other site 374931001690 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 374931001691 dimer interface [polypeptide binding]; other site 374931001692 conserved gate region; other site 374931001693 putative PBP binding loops; other site 374931001694 ABC-ATPase subunit interface; other site 374931001695 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 374931001696 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 374931001697 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 374931001698 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 374931001699 Sugar specificity; other site 374931001700 Pyrimidine base specificity; other site 374931001701 ATP-binding site [chemical binding]; other site 374931001702 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 374931001703 trimer interface [polypeptide binding]; other site 374931001704 active site 374931001705 putative arabinose transporter; Provisional; Region: PRK03545 374931001706 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 374931001707 putative substrate translocation pore; other site 374931001708 GTP-binding protein Der; Reviewed; Region: PRK00093 374931001709 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 374931001710 G1 box; other site 374931001711 GTP/Mg2+ binding site [chemical binding]; other site 374931001712 Switch I region; other site 374931001713 G2 box; other site 374931001714 Switch II region; other site 374931001715 G3 box; other site 374931001716 G4 box; other site 374931001717 G5 box; other site 374931001718 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 374931001719 G1 box; other site 374931001720 GTP/Mg2+ binding site [chemical binding]; other site 374931001721 Switch I region; other site 374931001722 G2 box; other site 374931001723 G3 box; other site 374931001724 Switch II region; other site 374931001725 G4 box; other site 374931001726 G5 box; other site 374931001727 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 374931001728 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 374931001729 active site 374931001730 catalytic site [active] 374931001731 substrate binding site [chemical binding]; other site 374931001732 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 374931001733 RNA/DNA hybrid binding site [nucleotide binding]; other site 374931001734 active site 374931001735 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 374931001736 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 374931001737 trimer interface [polypeptide binding]; other site 374931001738 eyelet of channel; other site 374931001739 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 374931001740 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 374931001741 active site 374931001742 dimer interface [polypeptide binding]; other site 374931001743 potential frameshift: common BLAST hit: gi|16272108|ref|NP_438310.1| glucosamine-6-phosphate deaminase [Haemophilus influenzae Rd KW20] 374931001744 N-acetylneuraminate lyase; Provisional; Region: PRK04147 374931001745 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 374931001746 inhibitor site; inhibition site 374931001747 active site 374931001748 dimer interface [polypeptide binding]; other site 374931001749 catalytic residue [active] 374931001750 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 374931001751 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 374931001752 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 374931001753 putative active site [active] 374931001754 N-acetylmannosamine kinase; Provisional; Region: PRK05082 374931001755 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 374931001756 nucleotide binding site [chemical binding]; other site 374931001757 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 374931001758 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 374931001759 putative active site cavity [active] 374931001760 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 374931001761 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 374931001762 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 374931001763 DctM-like transporters; Region: DctM; pfam06808 374931001764 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 374931001765 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 374931001766 Kelch motif; Region: Kelch_1; pfam01344 374931001767 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 374931001768 FtsH protease regulator HflC; Provisional; Region: PRK11029 374931001769 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 374931001770 FtsH protease regulator HflK; Provisional; Region: PRK10930 374931001771 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 374931001772 potential frameshift: common BLAST hit: gi|68248760|ref|YP_247872.1| putative 4'-phosphopantetheinyl transferase [Haemophilus influenzae] 374931001773 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 374931001774 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 374931001775 acyl carrier protein; Provisional; Region: acpP; PRK00982 374931001776 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 374931001777 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 374931001778 NAD(P) binding site [chemical binding]; other site 374931001779 homotetramer interface [polypeptide binding]; other site 374931001780 homodimer interface [polypeptide binding]; other site 374931001781 active site 374931001782 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 374931001783 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 374931001784 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 374931001785 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 374931001786 dimer interface [polypeptide binding]; other site 374931001787 active site 374931001788 CoA binding pocket [chemical binding]; other site 374931001789 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 374931001790 hypothetical protein; Provisional; Region: PRK11193 374931001791 potential frameshift: common BLAST hit: gi|68248768|ref|YP_247880.1| phosphatidylserine decarboxylase [Haemophilus influenzae] 374931001792 glutathione reductase; Validated; Region: PRK06116 374931001793 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 374931001794 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 374931001795 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 374931001796 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 374931001797 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 374931001798 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 374931001799 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 374931001800 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 374931001801 E3 interaction surface; other site 374931001802 lipoyl attachment site [posttranslational modification]; other site 374931001803 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 374931001804 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 374931001805 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 374931001806 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 374931001807 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 374931001808 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 374931001809 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 374931001810 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 374931001811 FAD binding pocket [chemical binding]; other site 374931001812 FAD binding motif [chemical binding]; other site 374931001813 phosphate binding motif [ion binding]; other site 374931001814 beta-alpha-beta structure motif; other site 374931001815 NAD binding pocket [chemical binding]; other site 374931001816 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 374931001817 ApbE family; Region: ApbE; pfam02424 374931001818 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 374931001819 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 374931001820 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 374931001821 Ligand Binding Site [chemical binding]; other site 374931001822 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 374931001823 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 374931001824 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 374931001825 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 374931001826 RNA binding surface [nucleotide binding]; other site 374931001827 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 374931001828 active site 374931001829 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 374931001830 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 374931001831 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 374931001832 FeS/SAM binding site; other site 374931001833 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 374931001834 Pyruvate formate lyase 1; Region: PFL1; cd01678 374931001835 coenzyme A binding site [chemical binding]; other site 374931001836 active site 374931001837 catalytic residues [active] 374931001838 glycine loop; other site 374931001839 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 374931001840 formate transporter FocA; Region: formate_focA; TIGR04060 374931001841 fructokinase; Reviewed; Region: PRK09557 374931001842 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 374931001843 nucleotide binding site [chemical binding]; other site 374931001844 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 374931001845 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 374931001846 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 374931001847 S-formylglutathione hydrolase; Region: PLN02442 374931001848 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 374931001849 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 374931001850 substrate binding site [chemical binding]; other site 374931001851 catalytic Zn binding site [ion binding]; other site 374931001852 NAD binding site [chemical binding]; other site 374931001853 structural Zn binding site [ion binding]; other site 374931001854 dimer interface [polypeptide binding]; other site 374931001855 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 374931001856 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 374931001857 DNA binding residues [nucleotide binding] 374931001858 putative dimer interface [polypeptide binding]; other site 374931001859 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 374931001860 sec-independent translocase; Provisional; Region: PRK01770 374931001861 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 374931001862 potential frameshift: common BLAST hit: gi|68248794|ref|YP_247906.1| glutamate dehydrogenase [Haemophilus influenzae 86-028NP] 374931001863 ferric uptake regulator; Provisional; Region: fur; PRK09462 374931001864 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 374931001865 metal binding site 2 [ion binding]; metal-binding site 374931001866 putative DNA binding helix; other site 374931001867 metal binding site 1 [ion binding]; metal-binding site 374931001868 dimer interface [polypeptide binding]; other site 374931001869 structural Zn2+ binding site [ion binding]; other site 374931001870 flavodoxin FldA; Validated; Region: PRK09267 374931001871 acyl-CoA esterase; Provisional; Region: PRK10673 374931001872 PGAP1-like protein; Region: PGAP1; pfam07819 374931001873 replication initiation regulator SeqA; Provisional; Region: PRK11187 374931001874 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 374931001875 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 374931001876 acyl-activating enzyme (AAE) consensus motif; other site 374931001877 putative AMP binding site [chemical binding]; other site 374931001878 putative active site [active] 374931001879 putative CoA binding site [chemical binding]; other site 374931001880 hypothetical protein; Provisional; Region: PRK11281 374931001881 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 374931001882 Mechanosensitive ion channel; Region: MS_channel; pfam00924 374931001883 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 374931001884 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 374931001885 Tetramer interface [polypeptide binding]; other site 374931001886 active site 374931001887 FMN-binding site [chemical binding]; other site 374931001888 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 374931001889 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 374931001890 potential frameshift: common BLAST hit: gi|113461346|ref|YP_719415.1| possible permease [Haemophilus somnus 129PT] 374931001891 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 374931001892 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 374931001893 putative acyl-acceptor binding pocket; other site 374931001894 selenophosphate synthetase; Provisional; Region: PRK00943 374931001895 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 374931001896 dimerization interface [polypeptide binding]; other site 374931001897 putative ATP binding site [chemical binding]; other site 374931001898 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 374931001899 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 374931001900 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 374931001901 RimM N-terminal domain; Region: RimM; pfam01782 374931001902 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 374931001903 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 374931001904 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 374931001905 active site 374931001906 metal binding site [ion binding]; metal-binding site 374931001907 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 374931001908 shikimate kinase; Reviewed; Region: aroK; PRK00131 374931001909 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 374931001910 ADP binding site [chemical binding]; other site 374931001911 magnesium binding site [ion binding]; other site 374931001912 putative shikimate binding site; other site 374931001913 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 374931001914 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 374931001915 active site 374931001916 dimer interface [polypeptide binding]; other site 374931001917 metal binding site [ion binding]; metal-binding site 374931001918 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 374931001919 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 374931001920 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 374931001921 active site 374931001922 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 374931001923 dimerization interface [polypeptide binding]; other site 374931001924 active site 374931001925 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 374931001926 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 374931001927 peptide binding site [polypeptide binding]; other site 374931001928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 374931001929 oligopeptidase A; Provisional; Region: PRK10911 374931001930 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 374931001931 active site 374931001932 Zn binding site [ion binding]; other site 374931001933 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 374931001934 HsdM N-terminal domain; Region: HsdM_N; pfam12161 374931001935 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 374931001936 S-adenosylmethionine binding site [chemical binding]; other site 374931001937 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374931001938 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 374931001939 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 374931001940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 374931001941 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 374931001942 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 374931001943 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 374931001944 ATP binding site [chemical binding]; other site 374931001945 putative Mg++ binding site [ion binding]; other site 374931001946 Predicted membrane protein [Function unknown]; Region: COG3059 374931001947 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 374931001948 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 374931001949 dimer interface [polypeptide binding]; other site 374931001950 phosphorylation site [posttranslational modification] 374931001951 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 374931001952 ATP binding site [chemical binding]; other site 374931001953 Mg2+ binding site [ion binding]; other site 374931001954 G-X-G motif; other site 374931001955 Response regulator receiver domain; Region: Response_reg; pfam00072 374931001956 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 374931001957 active site 374931001958 phosphorylation site [posttranslational modification] 374931001959 intermolecular recognition site; other site 374931001960 dimerization interface [polypeptide binding]; other site 374931001961 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 374931001962 putative binding surface; other site 374931001963 active site 374931001964 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 374931001965 putative uracil binding site [chemical binding]; other site 374931001966 putative active site [active] 374931001967 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 374931001968 HTH domain; Region: HTH_11; cl17392 374931001969 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 374931001970 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 374931001971 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 374931001972 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 374931001973 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 374931001974 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 374931001975 active site 374931001976 GMP synthase; Reviewed; Region: guaA; PRK00074 374931001977 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 374931001978 AMP/PPi binding site [chemical binding]; other site 374931001979 candidate oxyanion hole; other site 374931001980 catalytic triad [active] 374931001981 potential glutamine specificity residues [chemical binding]; other site 374931001982 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 374931001983 ATP Binding subdomain [chemical binding]; other site 374931001984 Ligand Binding sites [chemical binding]; other site 374931001985 Dimerization subdomain; other site 374931001986 Predicted permeases [General function prediction only]; Region: RarD; COG2962 374931001987 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 374931001988 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 374931001989 putative DNA binding site [nucleotide binding]; other site 374931001990 putative Zn2+ binding site [ion binding]; other site 374931001991 AsnC family; Region: AsnC_trans_reg; pfam01037 374931001992 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 374931001993 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 374931001994 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 374931001995 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 374931001996 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 374931001997 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 374931001998 RNase E interface [polypeptide binding]; other site 374931001999 trimer interface [polypeptide binding]; other site 374931002000 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 374931002001 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 374931002002 RNase E interface [polypeptide binding]; other site 374931002003 trimer interface [polypeptide binding]; other site 374931002004 active site 374931002005 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 374931002006 putative nucleic acid binding region [nucleotide binding]; other site 374931002007 G-X-X-G motif; other site 374931002008 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 374931002009 RNA binding site [nucleotide binding]; other site 374931002010 domain interface; other site 374931002011 potential frameshift: common BLAST hit: gi|68248839|ref|YP_247951.1| lipoprotein NlpI [Haemophilus influenzae 86-028NP] 374931002012 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 374931002013 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 374931002014 ATP binding site [chemical binding]; other site 374931002015 Mg++ binding site [ion binding]; other site 374931002016 motif III; other site 374931002017 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 374931002018 nucleotide binding region [chemical binding]; other site 374931002019 ATP-binding site [chemical binding]; other site 374931002020 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 374931002021 putative RNA binding site [nucleotide binding]; other site 374931002022 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 374931002023 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 374931002024 substrate binding pocket [chemical binding]; other site 374931002025 membrane-bound complex binding site; other site 374931002026 hinge residues; other site 374931002027 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 374931002028 N-acetyl-D-glucosamine binding site [chemical binding]; other site 374931002029 catalytic residue [active] 374931002030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 374931002031 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 374931002032 ArsC family; Region: ArsC; pfam03960 374931002033 catalytic residues [active] 374931002034 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 374931002035 Domain of unknown function DUF20; Region: UPF0118; pfam01594 374931002036 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 374931002037 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 374931002038 Protein export membrane protein; Region: SecD_SecF; pfam02355 374931002039 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 374931002040 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 374931002041 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 374931002042 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 374931002043 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 374931002044 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 374931002045 CPxP motif; other site 374931002046 Hemerythrin-like domain; Region: Hr-like; cd12108 374931002047 Fe binding site [ion binding]; other site 374931002048 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 374931002049 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 374931002050 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 374931002051 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 374931002052 potential frameshift: common BLAST hit: gi|68248855|ref|YP_247967.1| adhesion and penetration protein Hap [Haemophilus influenzae] 374931002053 potential frameshift: common BLAST hit: gi|68248855|ref|YP_247967.1| adhesion and penetration protein Hap [Haemophilus influenzae] 374931002054 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 374931002055 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 374931002056 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 374931002057 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 374931002058 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 374931002059 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 374931002060 dimer interface [polypeptide binding]; other site 374931002061 ssDNA binding site [nucleotide binding]; other site 374931002062 tetramer (dimer of dimers) interface [polypeptide binding]; other site 374931002063 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 374931002064 Int/Topo IB signature motif; other site 374931002065 DNA binding site [nucleotide binding] 374931002066 potential frameshift: common BLAST hit: gi|78484674|ref|YP_390599.1| Phage integrase [Thiomicrospira crunogena XCL-2] 374931002067 potential frameshift: common BLAST hit: gi|78484675|ref|YP_390600.1| putative integrase [Thiomicrospira crunogena XCL-2] 374931002068 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 374931002069 nucleophile elbow; other site 374931002070 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 374931002071 ATP binding site [chemical binding]; other site 374931002072 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 374931002073 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 374931002074 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 374931002075 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 374931002076 TonB system transport protein ExbD, group 2; Region: ExbD_2; TIGR02804 374931002077 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 374931002078 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 374931002079 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 374931002080 catalytic triad [active] 374931002081 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 374931002082 dihydrodipicolinate synthase; Region: dapA; TIGR00674 374931002083 dimer interface [polypeptide binding]; other site 374931002084 active site 374931002085 catalytic residue [active] 374931002086 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 374931002087 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 374931002088 30S subunit binding site; other site 374931002089 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 374931002090 primosomal protein DnaI; Provisional; Region: PRK02854 374931002091 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 374931002092 Ash protein family; Region: Phage_ASH; pfam10554 374931002093 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 374931002094 potential frameshift: common BLAST hit: gi|59712619|ref|YP_205395.1| major capsid protein precursor [Vibrio fischeri ES114] 374931002095 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 374931002096 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 374931002097 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 374931002098 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 374931002099 active site 374931002100 Int/Topo IB signature motif; other site 374931002101 potential frameshift: common BLAST hit: gi|68248865|ref|YP_247977.1| UDP-galactose--lipooligosaccharide galactosyltransferase 374931002102 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 374931002103 active site 374931002104 dimerization interface [polypeptide binding]; other site 374931002105 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 374931002106 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 374931002107 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 374931002108 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 374931002109 putative active site [active] 374931002110 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 374931002111 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 374931002112 N-terminal plug; other site 374931002113 ligand-binding site [chemical binding]; other site 374931002114 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 374931002115 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 374931002116 potential frameshift: common BLAST hit: gi|16272222|ref|NP_438433.1| heme-hemopexin utilization protein A [Haemophilus influenzae Rd] 374931002117 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 374931002118 homooctamer interface [polypeptide binding]; other site 374931002119 active site 374931002120 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 374931002121 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 374931002122 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 374931002123 HAMP domain; Region: HAMP; pfam00672 374931002124 Histidine kinase; Region: HisKA_3; pfam07730 374931002125 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 374931002126 ATP binding site [chemical binding]; other site 374931002127 Mg2+ binding site [ion binding]; other site 374931002128 G-X-G motif; other site 374931002129 potential frameshift: common BLAST hit: gi|16272226|ref|NP_438437.1| UDP-N-acetylenolpyruvoylglucosamine reductase [Haemophilus] 374931002130 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 374931002131 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 374931002132 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 374931002133 DNA binding residues [nucleotide binding] 374931002134 potential frameshift: common BLAST hit: gi|113461433|ref|YP_719502.1| tRNA-dihydrouridine synthase C [Haemophilus somnus 129PT] 374931002135 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 374931002136 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 374931002137 putative metal binding site [ion binding]; other site 374931002138 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 374931002139 HSP70 interaction site [polypeptide binding]; other site 374931002140 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931002141 active site 374931002142 ribonuclease PH; Reviewed; Region: rph; PRK00173 374931002143 Ribonuclease PH; Region: RNase_PH_bact; cd11362 374931002144 hexamer interface [polypeptide binding]; other site 374931002145 active site 374931002146 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 374931002147 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 374931002148 HIGH motif; other site 374931002149 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 374931002150 active site 374931002151 KMSKS motif; other site 374931002152 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 374931002153 Sulfatase; Region: Sulfatase; cl17466 374931002154 hypothetical protein; Reviewed; Region: PRK01637 374931002155 hypothetical protein; Provisional; Region: PRK01752 374931002156 SEC-C motif; Region: SEC-C; pfam02810 374931002157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 374931002158 MOSC domain; Region: MOSC; pfam03473 374931002159 uridine phosphorylase; Provisional; Region: PRK11178 374931002160 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 374931002161 metabolite-proton symporter; Region: 2A0106; TIGR00883 374931002162 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 374931002163 putative substrate translocation pore; other site 374931002164 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 374931002165 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 374931002166 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 374931002167 dimer interface [polypeptide binding]; other site 374931002168 tetramer interface [polypeptide binding]; other site 374931002169 PYR/PP interface [polypeptide binding]; other site 374931002170 TPP binding site [chemical binding]; other site 374931002171 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 374931002172 TPP-binding site; other site 374931002173 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 374931002174 isochorismate synthases; Region: isochor_syn; TIGR00543 374931002175 aminotransferase AlaT; Validated; Region: PRK09265 374931002176 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 374931002177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931002178 homodimer interface [polypeptide binding]; other site 374931002179 catalytic residue [active] 374931002180 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 374931002181 aromatic amino acid transport protein; Region: araaP; TIGR00837 374931002182 potential frameshift: common BLAST hit: gi|16272243|ref|NP_438455.1| L-serine deaminase [Haemophilus influenzae Rd KW20] 374931002183 potential frameshift: common BLAST hit: gi|68248892|ref|YP_248004.1| L-serine dehydratase [Haemophilus influenzae 86-028NP] 374931002184 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 374931002185 serine transporter; Region: stp; TIGR00814 374931002186 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 374931002187 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 374931002188 metal-binding site [ion binding] 374931002189 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 374931002190 Soluble P-type ATPase [General function prediction only]; Region: COG4087 374931002191 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 374931002192 metal-binding site [ion binding] 374931002193 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 374931002194 metal-binding site [ion binding] 374931002195 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 374931002196 metal-binding site [ion binding] 374931002197 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 374931002198 metal-binding site [ion binding] 374931002199 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 374931002200 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 374931002201 DNA binding residues [nucleotide binding] 374931002202 dimer interface [polypeptide binding]; other site 374931002203 copper binding site [ion binding]; other site 374931002204 transcriptional repressor protein MetJ; Provisional; Region: PRK05264 374931002205 corepressor binding sites; other site 374931002206 transcription termination factor Rho; Provisional; Region: rho; PRK09376 374931002207 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 374931002208 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 374931002209 RNA binding site [nucleotide binding]; other site 374931002210 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 374931002211 multimer interface [polypeptide binding]; other site 374931002212 Walker A motif; other site 374931002213 ATP binding site [chemical binding]; other site 374931002214 Walker B motif; other site 374931002215 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 374931002216 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 374931002217 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 374931002218 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 374931002219 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 374931002220 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 374931002221 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 374931002222 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 374931002223 Walker A motif; other site 374931002224 ATP binding site [chemical binding]; other site 374931002225 Walker B motif; other site 374931002226 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 374931002227 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 374931002228 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 374931002229 amidase catalytic site [active] 374931002230 Zn binding residues [ion binding]; other site 374931002231 substrate binding site [chemical binding]; other site 374931002232 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 374931002233 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 374931002234 Transporter associated domain; Region: CorC_HlyC; smart01091 374931002235 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 374931002236 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 374931002237 putative active site [active] 374931002238 catalytic triad [active] 374931002239 putative dimer interface [polypeptide binding]; other site 374931002240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 374931002241 RNA methyltransferase, RsmE family; Region: TIGR00046 374931002242 Putative transcriptional regulator [Transcription]; Region: COG1678 374931002243 RNAse H-fold protein YqgF; Region: RNAse_H_YqgF; TIGR00250 374931002244 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 374931002245 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 374931002246 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 374931002247 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 374931002248 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 374931002249 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 374931002250 active site 374931002251 Int/Topo IB signature motif; other site 374931002252 potential frameshift: common BLAST hit: gi|68248919|ref|YP_248031.1| Holliday junction DNA helicase RuvB [Haemophilus influenzae] 374931002253 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 374931002254 RuvA N terminal domain; Region: RuvA_N; pfam01330 374931002255 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 374931002256 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 374931002257 active site 374931002258 putative DNA-binding cleft [nucleotide binding]; other site 374931002259 dimer interface [polypeptide binding]; other site 374931002260 hypothetical protein; Validated; Region: PRK00110 374931002261 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 374931002262 nudix motif; other site 374931002263 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 374931002264 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 374931002265 dimer interface [polypeptide binding]; other site 374931002266 anticodon binding site; other site 374931002267 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 374931002268 homodimer interface [polypeptide binding]; other site 374931002269 motif 1; other site 374931002270 active site 374931002271 motif 2; other site 374931002272 GAD domain; Region: GAD; pfam02938 374931002273 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 374931002274 active site 374931002275 motif 3; other site 374931002276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 374931002277 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 374931002278 S-adenosylmethionine binding site [chemical binding]; other site 374931002279 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 374931002280 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 374931002281 dimer interface [polypeptide binding]; other site 374931002282 active site 374931002283 metal binding site [ion binding]; metal-binding site 374931002284 glutathione binding site [chemical binding]; other site 374931002285 ribonuclease T; Provisional; Region: PRK05168 374931002286 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 374931002287 active site 374931002288 catalytic site [active] 374931002289 substrate binding site [chemical binding]; other site 374931002290 Predicted permease [General function prediction only]; Region: COG2056 374931002291 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 374931002292 Primosomal replication protein N'' [DNA replication, recombination, and repair]; Region: PriC; COG3923 374931002293 elongation factor P; Validated; Region: PRK00529 374931002294 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 374931002295 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 374931002296 RNA binding site [nucleotide binding]; other site 374931002297 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 374931002298 RNA binding site [nucleotide binding]; other site 374931002299 potential frameshift: common BLAST hit: gi|68248934|ref|YP_248046.1| predicted lysine 2,3-aminomutase [Haemophilus influenzae 86-028NP] 374931002300 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 374931002301 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 374931002302 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 374931002303 Recombination protein O N terminal; Region: RecO_N; pfam11967 374931002304 Recombination protein O C terminal; Region: RecO_C; pfam02565 374931002305 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 374931002306 TRAM domain; Region: TRAM; pfam01938 374931002307 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 374931002308 S-adenosylmethionine binding site [chemical binding]; other site 374931002309 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 374931002310 HD domain; Region: HD_4; pfam13328 374931002311 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 374931002312 synthetase active site [active] 374931002313 NTP binding site [chemical binding]; other site 374931002314 metal binding site [ion binding]; metal-binding site 374931002315 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 374931002316 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 374931002317 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 374931002318 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 374931002319 MPT binding site; other site 374931002320 trimer interface [polypeptide binding]; other site 374931002321 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 374931002322 Nitrogen regulatory protein P-II; Region: P-II; smart00938 374931002323 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 374931002324 Domain of unknown function DUF20; Region: UPF0118; pfam01594 374931002325 potential frameshift: common BLAST hit: gi|68248944|ref|YP_248056.1| primosome assembly protein PriA [Haemophilus influenzae 86-028NP] 374931002326 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 374931002327 hypothetical protein; Provisional; Region: PRK11702 374931002328 ferredoxin-type protein NapF; Region: napF; TIGR00402 374931002329 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 374931002330 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 374931002331 potential frameshift: common BLAST hit: gi|68248949|ref|YP_248061.1| periplasmic nitrate reductase [Haemophilus influenzae 86-028NP] 374931002332 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 374931002333 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 374931002334 4Fe-4S binding domain; Region: Fer4_5; pfam12801 374931002335 4Fe-4S binding domain; Region: Fer4_6; pfam12837 374931002336 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 374931002337 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 374931002338 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 374931002339 adenylate kinase; Reviewed; Region: adk; PRK00279 374931002340 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 374931002341 AMP-binding site [chemical binding]; other site 374931002342 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 374931002343 muropeptide transporter; Reviewed; Region: ampG; PRK11902 374931002344 AmpG-like permease; Region: 2A0125; TIGR00901 374931002345 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 374931002346 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 374931002347 NAD binding site [chemical binding]; other site 374931002348 homodimer interface [polypeptide binding]; other site 374931002349 active site 374931002350 substrate binding site [chemical binding]; other site 374931002351 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 374931002352 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 374931002353 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931002354 Walker A/P-loop; other site 374931002355 ATP binding site [chemical binding]; other site 374931002356 Q-loop/lid; other site 374931002357 ABC transporter signature motif; other site 374931002358 Walker B; other site 374931002359 D-loop; other site 374931002360 H-loop/switch region; other site 374931002361 potential frameshift: common BLAST hit: gi|68248959|ref|YP_248071.1| putative ABC-type nitrate/sulfonate/bicarbonate transport system 374931002362 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 374931002363 NMT1/THI5 like; Region: NMT1; pfam09084 374931002364 Putative transcription activator [Transcription]; Region: TenA; COG0819 374931002365 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 374931002366 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 374931002367 ABC-ATPase subunit interface; other site 374931002368 dimer interface [polypeptide binding]; other site 374931002369 putative PBP binding regions; other site 374931002370 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 374931002371 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 374931002372 ABC-ATPase subunit interface; other site 374931002373 dimer interface [polypeptide binding]; other site 374931002374 putative PBP binding regions; other site 374931002375 potential frameshift: common BLAST hit: gi|16272310|ref|NP_438523.1| iron (chelated) transporter ATP-binding protein [Haemophilus] 374931002376 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 374931002377 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 374931002378 metal binding site [ion binding]; metal-binding site 374931002379 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 374931002380 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 374931002381 potential frameshift: common BLAST hit: gi|68248968|ref|YP_248080.1| predicted Fe-S-cluster redox enzyme [Haemophilus influenzae] 374931002382 TPR repeat; Region: TPR_11; pfam13414 374931002383 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 374931002384 TPR motif; other site 374931002385 binding surface 374931002386 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 374931002387 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 374931002388 non-specific DNA binding site [nucleotide binding]; other site 374931002389 salt bridge; other site 374931002390 sequence-specific DNA binding site [nucleotide binding]; other site 374931002391 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 374931002392 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 374931002393 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 374931002394 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 374931002395 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 374931002396 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 374931002397 dimer interface [polypeptide binding]; other site 374931002398 motif 1; other site 374931002399 active site 374931002400 motif 2; other site 374931002401 motif 3; other site 374931002402 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 374931002403 anticodon binding site; other site 374931002404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 374931002405 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 374931002406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2975 374931002407 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 374931002408 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 374931002409 catalytic loop [active] 374931002410 iron binding site [ion binding]; other site 374931002411 chaperone protein HscA; Provisional; Region: hscA; PRK05183 374931002412 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 374931002413 nucleotide binding site [chemical binding]; other site 374931002414 putative NEF/HSP70 interaction site [polypeptide binding]; other site 374931002415 SBD interface [polypeptide binding]; other site 374931002416 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 374931002417 co-chaperone HscB; Provisional; Region: hscB; PRK01773 374931002418 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 374931002419 HSP70 interaction site [polypeptide binding]; other site 374931002420 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 374931002421 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 374931002422 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 374931002423 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 374931002424 trimerization site [polypeptide binding]; other site 374931002425 active site 374931002426 cysteine desulfurase; Provisional; Region: PRK14012 374931002427 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 374931002428 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374931002429 catalytic residue [active] 374931002430 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 374931002431 Rrf2 family protein; Region: rrf2_super; TIGR00738 374931002432 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 374931002433 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 374931002434 potential frameshift: common BLAST hit: gi|68249907|ref|YP_249019.1| probable tail fiber protein [Haemophilus influenzae 86-028NP] 374931002435 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 374931002436 Baseplate J-like protein; Region: Baseplate_J; cl01294 374931002437 tape measure domain; Region: tape_meas_nterm; TIGR02675 374931002438 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 374931002439 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 374931002440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 374931002441 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 374931002442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 374931002443 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 374931002444 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 374931002445 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 374931002446 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 374931002447 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 374931002448 Phage terminase large subunit; Region: Terminase_3; cl12054 374931002449 Terminase-like family; Region: Terminase_6; pfam03237 374931002450 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 374931002451 DNA binding residues [nucleotide binding] 374931002452 ParB-like nuclease domain; Region: ParBc; pfam02195 374931002453 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 374931002454 Methyltransferase domain; Region: Methyltransf_26; pfam13659 374931002455 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 374931002456 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 374931002457 non-specific DNA binding site [nucleotide binding]; other site 374931002458 salt bridge; other site 374931002459 sequence-specific DNA binding site [nucleotide binding]; other site 374931002460 Predicted transcriptional regulator [Transcription]; Region: COG2932 374931002461 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 374931002462 Catalytic site [active] 374931002463 Helix-turn-helix domain; Region: HTH_39; pfam14090 374931002464 Helix-turn-helix domain; Region: HTH_36; pfam13730 374931002465 NinB protein; Region: NinB; pfam05772 374931002466 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 374931002467 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 374931002468 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 374931002469 DNA binding residues [nucleotide binding] 374931002470 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 374931002471 Uncharacterized conserved protein [Function unknown]; Region: COG4748 374931002472 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 374931002473 HNH endonuclease; Region: HNH_3; pfam13392 374931002474 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 374931002475 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 374931002476 DNA methylase; Region: N6_N4_Mtase; pfam01555 374931002477 RecT family; Region: RecT; cl04285 374931002478 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 374931002479 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 374931002480 dimer interface [polypeptide binding]; other site 374931002481 ssDNA binding site [nucleotide binding]; other site 374931002482 tetramer (dimer of dimers) interface [polypeptide binding]; other site 374931002483 hypothetical protein; Provisional; Region: PRK09946 374931002484 Putative exonuclease, RdgC; Region: RdgC; pfam04381 374931002485 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 374931002486 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 374931002487 cofactor binding site; other site 374931002488 DNA binding site [nucleotide binding] 374931002489 substrate interaction site [chemical binding]; other site 374931002490 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 374931002491 Nitrous oxide reductase [Energy production and conversion]; Region: NosZ; COG4263 374931002492 Protein of unknown function (DUF551); Region: DUF551; pfam04448 374931002493 Helix-turn-helix domain; Region: HTH_17; cl17695 374931002494 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 374931002495 active site 374931002496 DNA binding site [nucleotide binding] 374931002497 Int/Topo IB signature motif; other site 374931002498 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 374931002499 ligand binding site [chemical binding]; other site 374931002500 translocation protein TolB; Provisional; Region: tolB; PRK01742 374931002501 TolB amino-terminal domain; Region: TolB_N; pfam04052 374931002502 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 374931002503 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 374931002504 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 374931002505 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 374931002506 TolA C-terminal; Region: TolA; pfam06519 374931002507 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 374931002508 colicin uptake protein TolR; Provisional; Region: PRK11024 374931002509 potential frameshift: common BLAST hit: gi|68248988|ref|YP_248100.1| TolQ [Haemophilus influenzae 86-028NP] 374931002510 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 374931002511 active site 374931002512 potential frameshift: common BLAST hit: gi|68248990|ref|YP_248102.1| probable ATP-dependent helicase [Haemophilus influenzae 86-028NP] 374931002513 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 374931002514 Glycoprotease family; Region: Peptidase_M22; pfam00814 374931002515 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 374931002516 potential frameshift: common BLAST hit: gi|68248993|ref|YP_248105.1| acyl-CoA synthase [Haemophilus influenzae 86-028NP] 374931002517 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 374931002518 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 374931002519 catalytic site [active] 374931002520 putative active site [active] 374931002521 putative substrate binding site [chemical binding]; other site 374931002522 Helicase and RNase D C-terminal; Region: HRDC; smart00341 374931002523 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 374931002524 GTP-binding protein YchF; Reviewed; Region: PRK09601 374931002525 YchF GTPase; Region: YchF; cd01900 374931002526 G1 box; other site 374931002527 GTP/Mg2+ binding site [chemical binding]; other site 374931002528 Switch I region; other site 374931002529 G2 box; other site 374931002530 Switch II region; other site 374931002531 G3 box; other site 374931002532 G4 box; other site 374931002533 G5 box; other site 374931002534 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 374931002535 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 374931002536 putative active site [active] 374931002537 catalytic residue [active] 374931002538 hypothetical protein; Validated; Region: PRK01777 374931002539 Uncharacterized conserved protein [Function unknown]; Region: COG2850 374931002540 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 374931002541 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 374931002542 generic binding surface II; other site 374931002543 generic binding surface I; other site 374931002544 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 374931002545 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 374931002546 dimer interface [polypeptide binding]; other site 374931002547 ADP-ribose binding site [chemical binding]; other site 374931002548 active site 374931002549 nudix motif; other site 374931002550 metal binding site [ion binding]; metal-binding site 374931002551 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 374931002552 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 374931002553 active site 374931002554 metal binding site [ion binding]; metal-binding site 374931002555 hexamer interface [polypeptide binding]; other site 374931002556 conserved hypothetical protein; Region: TIGR00743 374931002557 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 374931002558 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 374931002559 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 374931002560 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 374931002561 DNA binding site [nucleotide binding] 374931002562 active site 374931002563 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 374931002564 putative DNA-binding cleft [nucleotide binding]; other site 374931002565 putative DNA clevage site; other site 374931002566 molecular lever; other site 374931002567 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 374931002568 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 374931002569 Ligand Binding Site [chemical binding]; other site 374931002570 TilS substrate binding domain; Region: TilS; pfam09179 374931002571 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 374931002572 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 374931002573 potential frameshift: common BLAST hit: gi|16272355|ref|NP_438568.1| acetyl-CoA carboxylase alpha subunit [Haemophilus influenzae Rd] 374931002574 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 374931002575 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 374931002576 ABC-ATPase subunit interface; other site 374931002577 dimer interface [polypeptide binding]; other site 374931002578 putative PBP binding regions; other site 374931002579 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 374931002580 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931002581 Walker A/P-loop; other site 374931002582 ATP binding site [chemical binding]; other site 374931002583 Q-loop/lid; other site 374931002584 ABC transporter signature motif; other site 374931002585 Walker B; other site 374931002586 D-loop; other site 374931002587 H-loop/switch region; other site 374931002588 potential frameshift: common BLAST hit: gi|52424846|ref|YP_087983.1| NlpD protein [Mannheimia succiniciproducens MBEL55E] 374931002589 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 374931002590 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 374931002591 Walker A motif; other site 374931002592 ATP binding site [chemical binding]; other site 374931002593 Walker B motif; other site 374931002594 arginine finger; other site 374931002595 bacterial Hfq-like; Region: Hfq; cd01716 374931002596 hexamer interface [polypeptide binding]; other site 374931002597 Sm1 motif; other site 374931002598 RNA binding site [nucleotide binding]; other site 374931002599 Sm2 motif; other site 374931002600 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 374931002601 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 374931002602 RNA binding surface [nucleotide binding]; other site 374931002603 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 374931002604 active site 374931002605 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 374931002606 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 374931002607 homodimer interface [polypeptide binding]; other site 374931002608 oligonucleotide binding site [chemical binding]; other site 374931002609 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 374931002610 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 374931002611 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 374931002612 substrate binding site [chemical binding]; other site 374931002613 multimerization interface [polypeptide binding]; other site 374931002614 ATP binding site [chemical binding]; other site 374931002615 potential frameshift: common BLAST hit: gi|16272365|ref|NP_438578.1| phosphomethylpyrimidine kinase [Haemophilus influenzae Rd KW20] 374931002616 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 374931002617 thiamine phosphate binding site [chemical binding]; other site 374931002618 active site 374931002619 pyrophosphate binding site [ion binding]; other site 374931002620 potential frameshift: common BLAST hit: gi|16272367|ref|NP_438580.1| transport protein [Haemophilus influenzae Rd KW20] 374931002621 potential frameshift: common BLAST hit: gi|68249022|ref|YP_248134.1| putative protease [Haemophilus influenzae 86-028NP] 374931002622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 374931002623 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 374931002624 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 374931002625 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 374931002626 Coenzyme A binding pocket [chemical binding]; other site 374931002627 YadA-like C-terminal region; Region: YadA; pfam03895 374931002628 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 374931002629 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 374931002630 ATP binding site [chemical binding]; other site 374931002631 Mg++ binding site [ion binding]; other site 374931002632 motif III; other site 374931002633 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 374931002634 nucleotide binding region [chemical binding]; other site 374931002635 ATP-binding site [chemical binding]; other site 374931002636 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 374931002637 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 374931002638 S-adenosylmethionine binding site [chemical binding]; other site 374931002639 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 374931002640 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 374931002641 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 374931002642 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 374931002643 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 374931002644 domain interface [polypeptide binding]; other site 374931002645 putative active site [active] 374931002646 catalytic site [active] 374931002647 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 374931002648 domain interface [polypeptide binding]; other site 374931002649 putative active site [active] 374931002650 catalytic site [active] 374931002651 fatty acid metabolism transcriptional regulator FadR; Region: fadR_gamma; TIGR02812 374931002652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 374931002653 DNA-binding site [nucleotide binding]; DNA binding site 374931002654 FadR C-terminal domain; Region: FadR_C; pfam07840 374931002655 potential frameshift: common BLAST hit: gi|30995374|ref|NP_438588.2| Na+/H+ antiporter [Haemophilus influenzae Rd KW20] 374931002656 disulfide bond formation protein B; Provisional; Region: PRK01749 374931002657 potential frameshift: common BLAST hit: gi|68249029|ref|YP_248141.1| D-fructose-6-phosphate amidotransferase [Haemophilus influenzae] 374931002658 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 374931002659 IHF dimer interface [polypeptide binding]; other site 374931002660 IHF - DNA interface [nucleotide binding]; other site 374931002661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 374931002662 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 374931002663 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 374931002664 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 374931002665 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 374931002666 putative NADH binding site [chemical binding]; other site 374931002667 putative active site [active] 374931002668 nudix motif; other site 374931002669 putative metal binding site [ion binding]; other site 374931002670 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 374931002671 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 374931002672 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 374931002673 comF family protein; Region: comF; TIGR00201 374931002674 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931002675 active site 374931002676 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 374931002677 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 374931002678 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 374931002679 Pilus assembly protein, PilP; Region: PilP; pfam04351 374931002680 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 374931002681 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 374931002682 Transglycosylase; Region: Transgly; pfam00912 374931002683 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 374931002684 potential frameshift: common BLAST hit: gi|15603099|ref|NP_246171.1| OrfJ [Pasteurella multocida subsp. multocida str. Pm70] 374931002685 hypothetical protein; Validated; Region: PRK00153 374931002686 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 374931002687 RecR protein; Region: RecR; pfam02132 374931002688 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 374931002689 putative active site [active] 374931002690 putative metal-binding site [ion binding]; other site 374931002691 tetramer interface [polypeptide binding]; other site 374931002692 DNA topoisomerase III; Provisional; Region: PRK07726 374931002693 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 374931002694 active site 374931002695 putative interdomain interaction site [polypeptide binding]; other site 374931002696 putative metal-binding site [ion binding]; other site 374931002697 putative nucleotide binding site [chemical binding]; other site 374931002698 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 374931002699 domain I; other site 374931002700 phosphate binding site [ion binding]; other site 374931002701 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 374931002702 domain II; other site 374931002703 domain III; other site 374931002704 nucleotide binding site [chemical binding]; other site 374931002705 DNA binding groove [nucleotide binding] 374931002706 catalytic site [active] 374931002707 domain IV; other site 374931002708 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 374931002709 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 374931002710 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 374931002711 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 374931002712 active site 374931002713 P-loop; other site 374931002714 phosphorylation site [posttranslational modification] 374931002715 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 374931002716 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 374931002717 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 374931002718 putative substrate binding site [chemical binding]; other site 374931002719 putative ATP binding site [chemical binding]; other site 374931002720 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 374931002721 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 374931002722 active site 374931002723 phosphorylation site [posttranslational modification] 374931002724 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 374931002725 dimerization domain swap beta strand [polypeptide binding]; other site 374931002726 regulatory protein interface [polypeptide binding]; other site 374931002727 active site 374931002728 regulatory phosphorylation site [posttranslational modification]; other site 374931002729 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 374931002730 dimerization domain swap beta strand [polypeptide binding]; other site 374931002731 regulatory protein interface [polypeptide binding]; other site 374931002732 active site 374931002733 regulatory phosphorylation site [posttranslational modification]; other site 374931002734 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 374931002735 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 374931002736 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 374931002737 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 374931002738 active site 374931002739 DNA polymerase III subunit delta'; Validated; Region: PRK06871 374931002740 DNA polymerase III subunit delta'; Validated; Region: PRK08485 374931002741 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 374931002742 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 374931002743 Autotransporter beta-domain; Region: Autotransporter; pfam03797 374931002744 thymidylate kinase; Validated; Region: tmk; PRK00698 374931002745 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 374931002746 TMP-binding site; other site 374931002747 ATP-binding site [chemical binding]; other site 374931002748 conserved hypothetical protein, YceG family; Region: TIGR00247 374931002749 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 374931002750 dimerization interface [polypeptide binding]; other site 374931002751 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 374931002752 SurA N-terminal domain; Region: SurA_N; pfam09312 374931002753 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 374931002754 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 374931002755 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931002756 active site 374931002757 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 374931002758 homodimer interface [polypeptide binding]; other site 374931002759 MazG family protein; Region: mazG; TIGR00444 374931002760 metal binding site [ion binding]; metal-binding site 374931002761 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 374931002762 homodimer interface [polypeptide binding]; other site 374931002763 active site 374931002764 putative chemical substrate binding site [chemical binding]; other site 374931002765 metal binding site [ion binding]; metal-binding site 374931002766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 374931002767 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 374931002768 Found in ATP-dependent protease La (LON); Region: LON; smart00464 374931002769 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 374931002770 Walker A motif; other site 374931002771 ATP binding site [chemical binding]; other site 374931002772 Walker B motif; other site 374931002773 arginine finger; other site 374931002774 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 374931002775 HemN family oxidoreductase; Provisional; Region: PRK05660 374931002776 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 374931002777 FeS/SAM binding site; other site 374931002778 HemN C-terminal domain; Region: HemN_C; pfam06969 374931002779 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 374931002780 tetramer (dimer of dimers) interface [polypeptide binding]; other site 374931002781 active site 374931002782 dimer interface [polypeptide binding]; other site 374931002783 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 374931002784 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 374931002785 ligand binding site [chemical binding]; other site 374931002786 NAD binding site [chemical binding]; other site 374931002787 tetramer interface [polypeptide binding]; other site 374931002788 catalytic site [active] 374931002789 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 374931002790 L-serine binding site [chemical binding]; other site 374931002791 ACT domain interface; other site 374931002792 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 374931002793 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 374931002794 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 374931002795 hypothetical protein; Provisional; Region: PRK11820 374931002796 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 374931002797 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 374931002798 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 374931002799 ATP phosphoribosyltransferase; Region: HisG; pfam01634 374931002800 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 374931002801 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 374931002802 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 374931002803 NAD binding site [chemical binding]; other site 374931002804 dimerization interface [polypeptide binding]; other site 374931002805 product binding site; other site 374931002806 substrate binding site [chemical binding]; other site 374931002807 zinc binding site [ion binding]; other site 374931002808 catalytic residues [active] 374931002809 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 374931002810 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 374931002811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931002812 homodimer interface [polypeptide binding]; other site 374931002813 catalytic residue [active] 374931002814 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 374931002815 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 374931002816 active site 374931002817 motif I; other site 374931002818 motif II; other site 374931002819 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 374931002820 putative active site pocket [active] 374931002821 4-fold oligomerization interface [polypeptide binding]; other site 374931002822 metal binding residues [ion binding]; metal-binding site 374931002823 3-fold/trimer interface [polypeptide binding]; other site 374931002824 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 374931002825 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 374931002826 putative active site [active] 374931002827 oxyanion strand; other site 374931002828 catalytic triad [active] 374931002829 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 374931002830 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 374931002831 catalytic residues [active] 374931002832 potential frameshift: common BLAST hit: gi|68249076|ref|YP_248188.1| imidazole glycerol phosphate synthase subunit HisF [Haemophilus] 374931002833 potential frameshift: common BLAST hit: gi|68249077|ref|YP_248189.1| histidine biosynthesis bifunctional protein HisIE [Haemophilus] 374931002834 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 374931002835 aromatic amino acid transport protein; Region: araaP; TIGR00837 374931002836 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 374931002837 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 374931002838 gamma subunit interface [polypeptide binding]; other site 374931002839 epsilon subunit interface [polypeptide binding]; other site 374931002840 LBP interface [polypeptide binding]; other site 374931002841 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 374931002842 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 374931002843 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 374931002844 alpha subunit interaction interface [polypeptide binding]; other site 374931002845 Walker A motif; other site 374931002846 ATP binding site [chemical binding]; other site 374931002847 Walker B motif; other site 374931002848 inhibitor binding site; inhibition site 374931002849 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 374931002850 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 374931002851 core domain interface [polypeptide binding]; other site 374931002852 delta subunit interface [polypeptide binding]; other site 374931002853 epsilon subunit interface [polypeptide binding]; other site 374931002854 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 374931002855 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 374931002856 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 374931002857 beta subunit interaction interface [polypeptide binding]; other site 374931002858 Walker A motif; other site 374931002859 ATP binding site [chemical binding]; other site 374931002860 Walker B motif; other site 374931002861 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 374931002862 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 374931002863 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 374931002864 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 374931002865 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 374931002866 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 374931002867 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 374931002868 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 374931002869 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 374931002870 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 374931002871 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 374931002872 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 374931002873 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 374931002874 motif II; other site 374931002875 Predicted membrane protein [Function unknown]; Region: COG1238 374931002876 S-ribosylhomocysteinase; Provisional; Region: PRK02260 374931002877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 374931002878 Helix-turn-helix domain; Region: HTH_28; pfam13518 374931002879 Integrase core domain; Region: rve; pfam00665 374931002880 Integrase core domain; Region: rve_3; cl15866 374931002881 acid phosphatase/phosphotransferase; Provisional; Region: aphA; PRK11009 374931002882 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 374931002883 HslU subunit interaction site [polypeptide binding]; other site 374931002884 potential frameshift: common BLAST hit: gi|16272441|ref|NP_438655.1| ATP-dependent protease ATP-binding subunit [Haemophilus influenzae] 374931002885 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 374931002886 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 374931002887 potential frameshift: common BLAST hit: gi|68249098|ref|YP_248210.1| probable oxidoreductase OrdL [Haemophilus influenzae 86-028NP] 374931002888 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 374931002889 RmuC family; Region: RmuC; pfam02646 374931002890 D-ribose pyranase; Provisional; Region: PRK11797 374931002891 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 374931002892 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 374931002893 Walker A/P-loop; other site 374931002894 ATP binding site [chemical binding]; other site 374931002895 Q-loop/lid; other site 374931002896 ABC transporter signature motif; other site 374931002897 Walker B; other site 374931002898 D-loop; other site 374931002899 H-loop/switch region; other site 374931002900 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 374931002901 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 374931002902 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 374931002903 TM-ABC transporter signature motif; other site 374931002904 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 374931002905 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 374931002906 ligand binding site [chemical binding]; other site 374931002907 dimerization interface [polypeptide binding]; other site 374931002908 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 374931002909 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 374931002910 substrate binding site [chemical binding]; other site 374931002911 dimer interface [polypeptide binding]; other site 374931002912 ATP binding site [chemical binding]; other site 374931002913 transcriptional repressor RbsR; Provisional; Region: PRK10423 374931002914 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 374931002915 DNA binding site [nucleotide binding] 374931002916 domain linker motif; other site 374931002917 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 374931002918 dimerization interface [polypeptide binding]; other site 374931002919 ligand binding site [chemical binding]; other site 374931002920 hypothetical protein; Provisional; Region: PRK05208 374931002921 regulator of ribonuclease activity A; Region: RraA_entero; TIGR02998 374931002922 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 374931002923 UbiA prenyltransferase family; Region: UbiA; pfam01040 374931002924 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 374931002925 homodimer interaction site [polypeptide binding]; other site 374931002926 cofactor binding site; other site 374931002927 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 374931002928 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 374931002929 gating phenylalanine in ion channel; other site 374931002930 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 374931002931 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 374931002932 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 374931002933 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 374931002934 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 374931002935 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 374931002936 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 374931002937 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 374931002938 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 374931002939 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 374931002940 DNA binding site [nucleotide binding] 374931002941 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 374931002942 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 374931002943 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 374931002944 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 374931002945 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 374931002946 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 374931002947 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 374931002948 RPB1 interaction site [polypeptide binding]; other site 374931002949 RPB11 interaction site [polypeptide binding]; other site 374931002950 RPB10 interaction site [polypeptide binding]; other site 374931002951 RPB3 interaction site [polypeptide binding]; other site 374931002952 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 374931002953 mRNA/rRNA interface [nucleotide binding]; other site 374931002954 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 374931002955 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 374931002956 23S rRNA interface [nucleotide binding]; other site 374931002957 L7/L12 interface [polypeptide binding]; other site 374931002958 putative thiostrepton binding site; other site 374931002959 L25 interface [polypeptide binding]; other site 374931002960 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 374931002961 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 374931002962 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 374931002963 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 374931002964 Nucleoside recognition; Region: Gate; pfam07670 374931002965 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 374931002966 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 374931002967 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 374931002968 FeS/SAM binding site; other site 374931002969 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 374931002970 Pyruvate formate lyase; Region: PFL; pfam02901 374931002971 Predicted membrane protein [Function unknown]; Region: COG2364 374931002972 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 374931002973 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 374931002974 putative active site [active] 374931002975 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 374931002976 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 374931002977 active site 374931002978 intersubunit interface [polypeptide binding]; other site 374931002979 zinc binding site [ion binding]; other site 374931002980 Na+ binding site [ion binding]; other site 374931002981 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 374931002982 Phosphoglycerate kinase; Region: PGK; pfam00162 374931002983 substrate binding site [chemical binding]; other site 374931002984 hinge regions; other site 374931002985 ADP binding site [chemical binding]; other site 374931002986 catalytic site [active] 374931002987 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 374931002988 B1 nucleotide binding pocket [chemical binding]; other site 374931002989 B2 nucleotide binding pocket [chemical binding]; other site 374931002990 CAS motifs; other site 374931002991 active site 374931002992 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 374931002993 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 374931002994 aromatic amino acid transport protein; Region: araaP; TIGR00837 374931002995 thymidine kinase; Provisional; Region: PRK04296 374931002996 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 374931002997 ATP binding site [chemical binding]; other site 374931002998 Walker A motif; other site 374931002999 Walker B motif; other site 374931003000 UGMP family protein; Validated; Region: PRK09604 374931003001 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 374931003002 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 374931003003 DNA primase; Validated; Region: dnaG; PRK05667 374931003004 CHC2 zinc finger; Region: zf-CHC2; pfam01807 374931003005 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 374931003006 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 374931003007 active site 374931003008 metal binding site [ion binding]; metal-binding site 374931003009 interdomain interaction site; other site 374931003010 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 374931003011 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 374931003012 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 374931003013 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 374931003014 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 374931003015 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 374931003016 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 374931003017 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 374931003018 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 374931003019 DNA binding residues [nucleotide binding] 374931003020 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 374931003021 Aspartase; Region: Aspartase; cd01357 374931003022 active sites [active] 374931003023 tetramer interface [polypeptide binding]; other site 374931003024 UreD urease accessory protein; Region: UreD; cl00530 374931003025 urease accessory protein UreG; Region: ureG; TIGR00101 374931003026 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 374931003027 UreF; Region: UreF; pfam01730 374931003028 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 374931003029 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 374931003030 dimer interface [polypeptide binding]; other site 374931003031 catalytic residues [active] 374931003032 urease subunit alpha; Reviewed; Region: ureC; PRK13207 374931003033 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 374931003034 subunit interactions [polypeptide binding]; other site 374931003035 active site 374931003036 flap region; other site 374931003037 potential frameshift: common BLAST hit: gi|68249137|ref|YP_248249.1| urease beta subunit [Haemophilus influenzae 86-028NP] 374931003038 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 374931003039 alpha-gamma subunit interface [polypeptide binding]; other site 374931003040 beta-gamma subunit interface [polypeptide binding]; other site 374931003041 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 374931003042 oligomerisation interface [polypeptide binding]; other site 374931003043 mobile loop; other site 374931003044 roof hairpin; other site 374931003045 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 374931003046 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 374931003047 ring oligomerisation interface [polypeptide binding]; other site 374931003048 ATP/Mg binding site [chemical binding]; other site 374931003049 stacking interactions; other site 374931003050 hinge regions; other site 374931003051 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 374931003052 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 374931003053 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 374931003054 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 374931003055 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 374931003056 generic binding surface I; other site 374931003057 generic binding surface II; other site 374931003058 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 374931003059 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 374931003060 rRNA binding site [nucleotide binding]; other site 374931003061 predicted 30S ribosome binding site; other site 374931003062 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 374931003063 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 374931003064 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 374931003065 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 374931003066 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 374931003067 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 374931003068 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 374931003069 potential frameshift: common BLAST hit: gi|16272494|ref|NP_438708.1| lipooligosaccharide biosynthesis protein [Haemophilus influenzae Rd] 374931003070 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 374931003071 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 374931003072 active site 374931003073 metal binding site [ion binding]; metal-binding site 374931003074 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 374931003075 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 374931003076 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 374931003077 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 374931003078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 374931003079 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 374931003080 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 374931003081 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 374931003082 putative active site [active] 374931003083 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 374931003084 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 374931003085 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 374931003086 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 374931003087 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 374931003088 active site 374931003089 Predicted membrane protein [Function unknown]; Region: COG1297 374931003090 putative oligopeptide transporter, OPT family; Region: TIGR00733 374931003091 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 374931003092 RNA binding surface [nucleotide binding]; other site 374931003093 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 374931003094 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 374931003095 dimerization interface [polypeptide binding]; other site 374931003096 putative DNA binding site [nucleotide binding]; other site 374931003097 putative Zn2+ binding site [ion binding]; other site 374931003098 AsnC family; Region: AsnC_trans_reg; pfam01037 374931003099 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 374931003100 dimer interface [polypeptide binding]; other site 374931003101 active site 374931003102 phosphoglycolate phosphatase; Provisional; Region: PRK13222 374931003103 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 374931003104 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 374931003105 motif II; other site 374931003106 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 374931003107 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 374931003108 substrate binding site [chemical binding]; other site 374931003109 hexamer interface [polypeptide binding]; other site 374931003110 metal binding site [ion binding]; metal-binding site 374931003111 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 374931003112 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 374931003113 ATP binding site [chemical binding]; other site 374931003114 Mg2+ binding site [ion binding]; other site 374931003115 G-X-G motif; other site 374931003116 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 374931003117 anchoring element; other site 374931003118 dimer interface [polypeptide binding]; other site 374931003119 ATP binding site [chemical binding]; other site 374931003120 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 374931003121 active site 374931003122 putative metal-binding site [ion binding]; other site 374931003123 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 374931003124 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 374931003125 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 374931003126 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 374931003127 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 374931003128 RNA binding site [nucleotide binding]; other site 374931003129 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 374931003130 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 374931003131 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 374931003132 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 374931003133 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 374931003134 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 374931003135 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374931003136 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 374931003137 dimerization interface [polypeptide binding]; other site 374931003138 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 374931003139 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 374931003140 catalytic triad [active] 374931003141 dimer interface [polypeptide binding]; other site 374931003142 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 374931003143 GSH binding site [chemical binding]; other site 374931003144 catalytic residues [active] 374931003145 hypothetical protein; Provisional; Region: PRK02119 374931003146 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 374931003147 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 374931003148 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 374931003149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 374931003150 YheO-like PAS domain; Region: PAS_6; pfam08348 374931003151 HTH domain; Region: HTH_22; pfam13309 374931003152 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 374931003153 Uncharacterized conserved protein involved in oxidation of intracellular sulfur [Inorganic ion transport and metabolism]; Region: DsrH; COG2168 374931003154 potential frameshift: common BLAST hit: gi|68249179|ref|YP_248291.1| elongation factor Tu [Haemophilus influenzae 86-028NP] 374931003155 pantothenate kinase; Provisional; Region: PRK05439 374931003156 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 374931003157 ATP-binding site [chemical binding]; other site 374931003158 CoA-binding site [chemical binding]; other site 374931003159 Mg2+-binding site [ion binding]; other site 374931003160 anti-sigma E factor; Provisional; Region: rseB; PRK09455 374931003161 MucB/RseB family; Region: MucB_RseB; pfam03888 374931003162 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 374931003163 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 374931003164 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 374931003165 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 374931003166 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 374931003167 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 374931003168 DNA binding residues [nucleotide binding] 374931003169 Uncharacterized conserved protein [Function unknown]; Region: COG2938 374931003170 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 374931003171 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 374931003172 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 374931003173 TrkA-N domain; Region: TrkA_N; pfam02254 374931003174 TrkA-C domain; Region: TrkA_C; pfam02080 374931003175 TrkA-N domain; Region: TrkA_N; pfam02254 374931003176 TrkA-C domain; Region: TrkA_C; pfam02080 374931003177 potential frameshift: common BLAST hit: gi|16272567|ref|NP_438784.1| sun protein [Haemophilus influenzae Rd KW20] 374931003178 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 374931003179 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 374931003180 putative active site [active] 374931003181 substrate binding site [chemical binding]; other site 374931003182 putative cosubstrate binding site; other site 374931003183 catalytic site [active] 374931003184 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 374931003185 substrate binding site [chemical binding]; other site 374931003186 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 374931003187 active site 374931003188 catalytic residues [active] 374931003189 metal binding site [ion binding]; metal-binding site 374931003190 similar to hypothetical protein 374931003191 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 374931003192 TfoX C-terminal domain; Region: TfoX_C; pfam04994 374931003193 recombinase A; Provisional; Region: recA; PRK09354 374931003194 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 374931003195 hexamer interface [polypeptide binding]; other site 374931003196 Walker A motif; other site 374931003197 ATP binding site [chemical binding]; other site 374931003198 Walker B motif; other site 374931003199 recombination regulator RecX; Reviewed; Region: recX; PRK00117 374931003200 chromosome condensation membrane protein; Provisional; Region: PRK14196 374931003201 putative hydrolase; Provisional; Region: PRK10976 374931003202 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 374931003203 active site 374931003204 motif I; other site 374931003205 motif II; other site 374931003206 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 374931003207 ornithine carbamoyltransferase; Provisional; Region: PRK01713 374931003208 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 374931003209 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 374931003210 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 374931003211 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 374931003212 putative substrate binding site [chemical binding]; other site 374931003213 nucleotide binding site [chemical binding]; other site 374931003214 nucleotide binding site [chemical binding]; other site 374931003215 homodimer interface [polypeptide binding]; other site 374931003216 Predicted membrane protein [Function unknown]; Region: COG1288 374931003217 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 374931003218 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 374931003219 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 374931003220 putative DNA binding site [nucleotide binding]; other site 374931003221 putative Zn2+ binding site [ion binding]; other site 374931003222 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 374931003223 AsnC family; Region: AsnC_trans_reg; pfam01037 374931003224 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 374931003225 Protein of unknown function (DUF2618); Region: DUF2618; pfam10940 374931003226 ornithine decarboxylase; Provisional; Region: PRK13578 374931003227 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 374931003228 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 374931003229 homodimer interface [polypeptide binding]; other site 374931003230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931003231 catalytic residue [active] 374931003232 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 374931003233 putrescine transporter; Provisional; Region: potE; PRK10655 374931003234 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 374931003235 allantoate amidohydrolase; Reviewed; Region: PRK09290 374931003236 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 374931003237 active site 374931003238 metal binding site [ion binding]; metal-binding site 374931003239 dimer interface [polypeptide binding]; other site 374931003240 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 374931003241 active site pocket [active] 374931003242 oxyanion hole [active] 374931003243 catalytic triad [active] 374931003244 active site nucleophile [active] 374931003245 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 374931003246 potential frameshift: common BLAST hit: gi|68249202|ref|YP_248314.1| aminobenzoyl-glutamate utilization protein A [Haemophilus] 374931003247 potential frameshift: common BLAST hit: gi|68249203|ref|YP_248315.1| 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase 374931003248 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 374931003249 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 374931003250 DNA binding residues [nucleotide binding] 374931003251 dimer interface [polypeptide binding]; other site 374931003252 putative metal binding site [ion binding]; other site 374931003253 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 374931003254 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 374931003255 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 374931003256 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 374931003257 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 374931003258 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 374931003259 S17 interaction site [polypeptide binding]; other site 374931003260 S8 interaction site; other site 374931003261 16S rRNA interaction site [nucleotide binding]; other site 374931003262 streptomycin interaction site [chemical binding]; other site 374931003263 23S rRNA interaction site [nucleotide binding]; other site 374931003264 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 374931003265 30S ribosomal protein S7; Validated; Region: PRK05302 374931003266 potential frameshift: common BLAST hit: gi|68249209|ref|YP_248321.1| elongation factor EF-2 [Haemophilus influenzae 86-028NP] 374931003267 elongation factor Tu; Reviewed; Region: PRK00049 374931003268 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 374931003269 G1 box; other site 374931003270 GEF interaction site [polypeptide binding]; other site 374931003271 GTP/Mg2+ binding site [chemical binding]; other site 374931003272 Switch I region; other site 374931003273 G2 box; other site 374931003274 G3 box; other site 374931003275 Switch II region; other site 374931003276 G4 box; other site 374931003277 G5 box; other site 374931003278 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 374931003279 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 374931003280 Antibiotic Binding Site [chemical binding]; other site 374931003281 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 374931003282 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 374931003283 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 374931003284 FMN binding site [chemical binding]; other site 374931003285 active site 374931003286 catalytic residues [active] 374931003287 substrate binding site [chemical binding]; other site 374931003288 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 374931003289 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 374931003290 conserved hypothetical protein; Region: TIGR00743 374931003291 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 374931003292 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 374931003293 active site 374931003294 HIGH motif; other site 374931003295 dimer interface [polypeptide binding]; other site 374931003296 KMSKS motif; other site 374931003297 Uncharacterized protein involved in purine metabolism [General function prediction only]; Region: COG2915 374931003298 adenylosuccinate lyase; Provisional; Region: PRK09285 374931003299 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 374931003300 tetramer interface [polypeptide binding]; other site 374931003301 active site 374931003302 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 374931003303 23S rRNA interface [nucleotide binding]; other site 374931003304 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 374931003305 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 374931003306 core dimer interface [polypeptide binding]; other site 374931003307 peripheral dimer interface [polypeptide binding]; other site 374931003308 L10 interface [polypeptide binding]; other site 374931003309 L11 interface [polypeptide binding]; other site 374931003310 putative EF-Tu interaction site [polypeptide binding]; other site 374931003311 putative EF-G interaction site [polypeptide binding]; other site 374931003312 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 374931003313 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 374931003314 Substrate binding site; other site 374931003315 Mg++ binding site; other site 374931003316 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 374931003317 active site 374931003318 substrate binding site [chemical binding]; other site 374931003319 CoA binding site [chemical binding]; other site 374931003320 potential frameshift: common BLAST hit: gi|16272586|ref|NP_438803.1| biotin sulfoxide reductase [Haemophilus influenzae Rd KW20] 374931003321 potential frameshift: common BLAST hit: gi|16272586|ref|NP_438803.1| biotin sulfoxide reductase [Haemophilus influenzae Rd KW20] 374931003322 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 374931003323 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 374931003324 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 374931003325 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 374931003326 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 374931003327 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 374931003328 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 374931003329 MgtC family; Region: MgtC; pfam02308 374931003330 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 374931003331 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 374931003332 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 374931003333 Part of AAA domain; Region: AAA_19; pfam13245 374931003334 Family description; Region: UvrD_C_2; pfam13538 374931003335 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 374931003336 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 374931003337 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 374931003338 active site 374931003339 (T/H)XGH motif; other site 374931003340 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 374931003341 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 374931003342 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 374931003343 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 374931003344 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 374931003345 putative metal binding site; other site 374931003346 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 374931003347 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 374931003348 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 374931003349 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 374931003350 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 374931003351 shikimate binding site; other site 374931003352 NAD(P) binding site [chemical binding]; other site 374931003353 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 374931003354 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 374931003355 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 374931003356 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 374931003357 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 374931003358 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 374931003359 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931003360 Walker A/P-loop; other site 374931003361 ATP binding site [chemical binding]; other site 374931003362 Q-loop/lid; other site 374931003363 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374931003364 ABC transporter; Region: ABC_tran_2; pfam12848 374931003365 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 374931003366 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 374931003367 non-specific DNA binding site [nucleotide binding]; other site 374931003368 salt bridge; other site 374931003369 sequence-specific DNA binding site [nucleotide binding]; other site 374931003370 Phage-related protein [Function unknown]; Region: COG4679 374931003371 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 374931003372 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 374931003373 ligand-binding site [chemical binding]; other site 374931003374 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 374931003375 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 374931003376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931003377 Walker A/P-loop; other site 374931003378 ATP binding site [chemical binding]; other site 374931003379 Q-loop/lid; other site 374931003380 ABC transporter signature motif; other site 374931003381 Walker B; other site 374931003382 D-loop; other site 374931003383 H-loop/switch region; other site 374931003384 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 374931003385 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 374931003386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931003387 Walker A/P-loop; other site 374931003388 ATP binding site [chemical binding]; other site 374931003389 Q-loop/lid; other site 374931003390 ABC transporter signature motif; other site 374931003391 Walker B; other site 374931003392 D-loop; other site 374931003393 H-loop/switch region; other site 374931003394 potential frameshift: common BLAST hit: gi|68249246|ref|YP_248358.1| fructose 1,6-bisphosphatase II [Haemophilus influenzae 86-028NP] 374931003395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 374931003396 FMN-binding protein MioC; Provisional; Region: PRK09004 374931003397 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 374931003398 putative active site [active] 374931003399 dimerization interface [polypeptide binding]; other site 374931003400 putative tRNAtyr binding site [nucleotide binding]; other site 374931003401 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 374931003402 homotrimer interaction site [polypeptide binding]; other site 374931003403 zinc binding site [ion binding]; other site 374931003404 CDP-binding sites; other site 374931003405 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 374931003406 substrate binding site; other site 374931003407 dimer interface; other site 374931003408 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 374931003409 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 374931003410 similar to hypothetical protein; COG2919 Septum formation initiator 374931003411 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931003412 active site 374931003413 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 374931003414 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 374931003415 metal binding site [ion binding]; metal-binding site 374931003416 dimer interface [polypeptide binding]; other site 374931003417 potential frameshift: common BLAST hit: gi|68249255|ref|YP_248367.1| tyrosine recombinase [Haemophilus influenzae 86-028NP] 374931003418 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 374931003419 triosephosphate isomerase; Provisional; Region: PRK14567 374931003420 substrate binding site [chemical binding]; other site 374931003421 dimer interface [polypeptide binding]; other site 374931003422 catalytic triad [active] 374931003423 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 374931003424 active site residue [active] 374931003425 potential frameshift: common BLAST hit: gi|16272622|ref|NP_438840.1| RarD [Haemophilus influenzae Rd KW20] 374931003426 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374931003427 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 374931003428 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 374931003429 putative dimerization interface [polypeptide binding]; other site 374931003430 ketol-acid reductoisomerase; Validated; Region: PRK05225 374931003431 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 374931003432 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 374931003433 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 374931003434 potential frameshift: common BLAST hit: gi|68249262|ref|YP_248374.1| anaerobic glycerol-3-phosphate dehydrogenase subunit C [Haemophilus] 374931003435 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 374931003436 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 374931003437 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 374931003438 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 374931003439 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 374931003440 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 374931003441 putative substrate translocation pore; other site 374931003442 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 374931003443 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 374931003444 active site 374931003445 catalytic site [active] 374931003446 metal binding site [ion binding]; metal-binding site 374931003447 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 374931003448 amphipathic channel; other site 374931003449 Asn-Pro-Ala signature motifs; other site 374931003450 glycerol kinase; Provisional; Region: glpK; PRK00047 374931003451 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 374931003452 N- and C-terminal domain interface [polypeptide binding]; other site 374931003453 active site 374931003454 MgATP binding site [chemical binding]; other site 374931003455 catalytic site [active] 374931003456 metal binding site [ion binding]; metal-binding site 374931003457 glycerol binding site [chemical binding]; other site 374931003458 homotetramer interface [polypeptide binding]; other site 374931003459 homodimer interface [polypeptide binding]; other site 374931003460 FBP binding site [chemical binding]; other site 374931003461 protein IIAGlc interface [polypeptide binding]; other site 374931003462 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931003463 active site 374931003464 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 374931003465 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 374931003466 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 374931003467 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 374931003468 probable active site [active] 374931003469 exopolyphosphatase; Region: exo_poly_only; TIGR03706 374931003470 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 374931003471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 374931003472 Family of unknown function (DUF490); Region: DUF490; pfam04357 374931003473 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 374931003474 Surface antigen; Region: Bac_surface_Ag; pfam01103 374931003475 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 374931003476 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 374931003477 RNase E inhibitor protein; Provisional; Region: PRK11191 374931003478 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 374931003479 potential frameshift: common BLAST hit: gi|16272642|ref|NP_438860.1| tRNA pseudouridine synthase D [Haemophilus influenzae Rd KW20] 374931003480 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 374931003481 Predicted membrane protein [Function unknown]; Region: COG1238 374931003482 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 374931003483 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 374931003484 Peptidase family M23; Region: Peptidase_M23; pfam01551 374931003485 potential frameshift: common BLAST hit: gi|68249281|ref|YP_248393.1| tryptophanase [Haemophilus influenzae 86-028NP] 374931003486 potential frameshift: common BLAST hit: gi|68249281|ref|YP_248393.1| tryptophanase [Haemophilus influenzae 86-028NP] 374931003487 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 374931003488 aromatic amino acid transport protein; Region: araaP; TIGR00837 374931003489 potential frameshift: common BLAST hit: gi|68249283|ref|YP_248395.1| DNA mismatch repair protein [Haemophilus influenzae 86-028NP] 374931003490 potential frameshift: common BLAST hit: gi|16272648|ref|NP_438866.1| selenocysteine synthase [Haemophilus influenzae Rd KW20] 374931003491 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 374931003492 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 374931003493 G1 box; other site 374931003494 putative GEF interaction site [polypeptide binding]; other site 374931003495 GTP/Mg2+ binding site [chemical binding]; other site 374931003496 Switch I region; other site 374931003497 G2 box; other site 374931003498 G3 box; other site 374931003499 Switch II region; other site 374931003500 G4 box; other site 374931003501 G5 box; other site 374931003502 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 374931003503 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 374931003504 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 374931003505 DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is...; Region: DEP; cl02442 374931003506 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 374931003507 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 374931003508 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 374931003509 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 374931003510 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 374931003511 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 374931003512 trigger factor; Provisional; Region: tig; PRK01490 374931003513 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 374931003514 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 374931003515 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 374931003516 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 374931003517 oligomer interface [polypeptide binding]; other site 374931003518 active site residues [active] 374931003519 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 374931003520 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 374931003521 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 374931003522 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 374931003523 Walker A motif; other site 374931003524 ATP binding site [chemical binding]; other site 374931003525 Walker B motif; other site 374931003526 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 374931003527 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 374931003528 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 374931003529 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 374931003530 putative homodimer interface [polypeptide binding]; other site 374931003531 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 374931003532 heterodimer interface [polypeptide binding]; other site 374931003533 homodimer interface [polypeptide binding]; other site 374931003534 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 374931003535 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 374931003536 homotrimer interaction site [polypeptide binding]; other site 374931003537 putative active site [active] 374931003538 heat shock protein HtpX; Provisional; Region: PRK05457 374931003539 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 374931003540 CPxP motif; other site 374931003541 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 374931003542 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 374931003543 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 374931003544 Cation transport protein; Region: TrkH; cl17365 374931003545 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 374931003546 Predicted membrane protein [Function unknown]; Region: COG3223 374931003547 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 374931003548 HemY protein N-terminus; Region: HemY_N; pfam07219 374931003549 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 374931003550 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 374931003551 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 374931003552 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 374931003553 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 374931003554 potential frameshift: common BLAST hit: gi|16272547|ref|NP_438763.1| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase [Haemophilus] 374931003555 serine acetyltransferase; Provisional; Region: cysE; PRK11132 374931003556 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 374931003557 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 374931003558 trimer interface [polypeptide binding]; other site 374931003559 active site 374931003560 substrate binding site [chemical binding]; other site 374931003561 CoA binding site [chemical binding]; other site 374931003562 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 374931003563 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 374931003564 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 374931003565 shikimate binding site; other site 374931003566 NAD(P) binding site [chemical binding]; other site 374931003567 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 374931003568 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 374931003569 transmembrane helices; other site 374931003570 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 374931003571 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 374931003572 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 374931003573 homodimer interface [polypeptide binding]; other site 374931003574 NADP binding site [chemical binding]; other site 374931003575 substrate binding site [chemical binding]; other site 374931003576 potential frameshift: common BLAST hit: gi|16272552|ref|NP_438768.1| L-fucose permease [Haemophilus influenzae Rd KW20] 374931003577 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 374931003578 intersubunit interface [polypeptide binding]; other site 374931003579 active site 374931003580 Zn2+ binding site [ion binding]; other site 374931003581 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 374931003582 potential frameshift: common BLAST hit: gi|68249312|ref|YP_248424.1| L-fuculokinase [Haemophilus influenzae 86-028NP] 374931003583 L-fucose isomerase; Provisional; Region: fucI; PRK10991 374931003584 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 374931003585 hexamer (dimer of trimers) interface [polypeptide binding]; other site 374931003586 substrate binding site [chemical binding]; other site 374931003587 trimer interface [polypeptide binding]; other site 374931003588 Mn binding site [ion binding]; other site 374931003589 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 374931003590 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 374931003591 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 374931003592 potential frameshift: common BLAST hit: gi|16272558|ref|NP_438774.1| ATP-dependent helicase HepA [Haemophilus influenzae Rd KW20] 374931003593 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 374931003594 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 374931003595 active site 374931003596 Rhomboid family; Region: Rhomboid; pfam01694 374931003597 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 374931003598 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 374931003599 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 374931003600 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 374931003601 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 374931003602 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 374931003603 dimer interface [polypeptide binding]; other site 374931003604 conserved gate region; other site 374931003605 ABC-ATPase subunit interface; other site 374931003606 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 374931003607 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 374931003608 Walker A/P-loop; other site 374931003609 ATP binding site [chemical binding]; other site 374931003610 Q-loop/lid; other site 374931003611 ABC transporter signature motif; other site 374931003612 Walker B; other site 374931003613 D-loop; other site 374931003614 H-loop/switch region; other site 374931003615 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 374931003616 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 374931003617 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 374931003618 active site 374931003619 motif I; other site 374931003620 motif II; other site 374931003621 Der GTPase activator (YihI); Region: YihI; cl01172 374931003622 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 374931003623 transcriptional regulator NarP; Provisional; Region: PRK10403 374931003624 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 374931003625 active site 374931003626 phosphorylation site [posttranslational modification] 374931003627 intermolecular recognition site; other site 374931003628 dimerization interface [polypeptide binding]; other site 374931003629 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 374931003630 DNA binding residues [nucleotide binding] 374931003631 dimerization interface [polypeptide binding]; other site 374931003632 diaminopimelate decarboxylase; Region: lysA; TIGR01048 374931003633 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 374931003634 active site 374931003635 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 374931003636 substrate binding site [chemical binding]; other site 374931003637 catalytic residues [active] 374931003638 dimer interface [polypeptide binding]; other site 374931003639 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 374931003640 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 374931003641 putative iron binding site [ion binding]; other site 374931003642 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 374931003643 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 374931003644 ATP binding site [chemical binding]; other site 374931003645 putative Mg++ binding site [ion binding]; other site 374931003646 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 374931003647 nucleotide binding region [chemical binding]; other site 374931003648 ATP-binding site [chemical binding]; other site 374931003649 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 374931003650 Helicase and RNase D C-terminal; Region: HRDC; smart00341 374931003651 prolyl-tRNA synthetase; Provisional; Region: PRK09194 374931003652 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 374931003653 dimer interface [polypeptide binding]; other site 374931003654 motif 1; other site 374931003655 active site 374931003656 motif 2; other site 374931003657 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 374931003658 putative deacylase active site [active] 374931003659 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 374931003660 active site 374931003661 motif 3; other site 374931003662 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 374931003663 anticodon binding site; other site 374931003664 potential frameshift: common BLAST hit: gi|68249331|ref|YP_248443.1| organic solvent tolerance protein precursor [Haemophilus influenzae] 374931003665 FtsI repressor; Provisional; Region: PRK10883 374931003666 FtsI repressor; Provisional; Region: PRK10883 374931003667 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 374931003668 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 374931003669 putative acyl-acceptor binding pocket; other site 374931003670 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 374931003671 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 374931003672 putative active site [active] 374931003673 putative metal binding site [ion binding]; other site 374931003674 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 374931003675 Na2 binding site [ion binding]; other site 374931003676 putative substrate binding site 1 [chemical binding]; other site 374931003677 Na binding site 1 [ion binding]; other site 374931003678 putative substrate binding site 2 [chemical binding]; other site 374931003679 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 374931003680 PYR/PP interface [polypeptide binding]; other site 374931003681 dimer interface [polypeptide binding]; other site 374931003682 TPP binding site [chemical binding]; other site 374931003683 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 374931003684 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 374931003685 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 374931003686 potential frameshift: common BLAST hit: gi|68249338|ref|YP_248450.1| threonine dehydratase [Haemophilus influenzae 86-028NP] 374931003687 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 374931003688 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 374931003689 putative active site [active] 374931003690 putative PHP Thumb interface [polypeptide binding]; other site 374931003691 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 374931003692 generic binding surface II; other site 374931003693 generic binding surface I; other site 374931003694 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 374931003695 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 374931003696 active site 374931003697 substrate binding site [chemical binding]; other site 374931003698 metal binding site [ion binding]; metal-binding site 374931003699 similar to hypothetical protein; COG1109 Phosphomannomutase 374931003700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 374931003701 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 374931003702 SecA binding site; other site 374931003703 Preprotein binding site; other site 374931003704 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 374931003705 active site residue [active] 374931003706 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 374931003707 active site 374931003708 homotetramer interface [polypeptide binding]; other site 374931003709 homodimer interface [polypeptide binding]; other site 374931003710 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 374931003711 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 374931003712 potential frameshift: common BLAST hit: gi|68249344|ref|YP_248456.1| NADH dehydrogenase [Haemophilus influenzae 86-028NP] 374931003713 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 374931003714 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 374931003715 putative acyl-acceptor binding pocket; other site 374931003716 LexA repressor; Validated; Region: PRK00215 374931003717 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 374931003718 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 374931003719 Catalytic site [active] 374931003720 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 374931003721 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 374931003722 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 374931003723 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 374931003724 dimer interface [polypeptide binding]; other site 374931003725 catalytic triad [active] 374931003726 peroxidatic and resolving cysteines [active] 374931003727 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 374931003728 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 374931003729 dimerization interface [polypeptide binding]; other site 374931003730 ATP binding site [chemical binding]; other site 374931003731 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 374931003732 dimerization interface [polypeptide binding]; other site 374931003733 ATP binding site [chemical binding]; other site 374931003734 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 374931003735 putative active site [active] 374931003736 catalytic triad [active] 374931003737 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 374931003738 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 374931003739 NodB motif; other site 374931003740 putative active site [active] 374931003741 putative catalytic site [active] 374931003742 Zn binding site [ion binding]; other site 374931003743 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 374931003744 Peptidase family M23; Region: Peptidase_M23; pfam01551 374931003745 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 374931003746 catalytic core [active] 374931003747 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 374931003748 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 374931003749 adenine DNA glycosylase; Provisional; Region: PRK10880 374931003750 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 374931003751 minor groove reading motif; other site 374931003752 helix-hairpin-helix signature motif; other site 374931003753 substrate binding pocket [chemical binding]; other site 374931003754 active site 374931003755 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 374931003756 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 374931003757 DNA binding and oxoG recognition site [nucleotide binding] 374931003758 oxidative damage protection protein; Provisional; Region: PRK05408 374931003759 murein transglycosylase C; Provisional; Region: mltC; PRK11671 374931003760 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 374931003761 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 374931003762 N-acetyl-D-glucosamine binding site [chemical binding]; other site 374931003763 catalytic residue [active] 374931003764 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 374931003765 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 374931003766 active site 374931003767 metal binding site [ion binding]; metal-binding site 374931003768 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 374931003769 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 374931003770 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 374931003771 active site 374931003772 (T/H)XGH motif; other site 374931003773 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 374931003774 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK01792 374931003775 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 374931003776 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 374931003777 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 374931003778 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 374931003779 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 374931003780 S-adenosylmethionine binding site [chemical binding]; other site 374931003781 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 374931003782 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 374931003783 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 374931003784 P loop; other site 374931003785 GTP binding site [chemical binding]; other site 374931003786 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 374931003787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931003788 Walker A/P-loop; other site 374931003789 ATP binding site [chemical binding]; other site 374931003790 Q-loop/lid; other site 374931003791 ABC transporter signature motif; other site 374931003792 Walker B; other site 374931003793 D-loop; other site 374931003794 H-loop/switch region; other site 374931003795 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 374931003796 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 374931003797 putative acyltransferase; Provisional; Region: PRK05790 374931003798 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 374931003799 dimer interface [polypeptide binding]; other site 374931003800 active site 374931003801 potential frameshift: common BLAST hit: gi|16272713|ref|NP_438931.1| short chain fatty acids transporter [Haemophilus influenzae Rd] 374931003802 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 374931003803 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 374931003804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 374931003805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374931003806 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 374931003807 dimerization interface [polypeptide binding]; other site 374931003808 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 374931003809 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 374931003810 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 374931003811 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 374931003812 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 374931003813 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 374931003814 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 374931003815 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 374931003816 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 374931003817 protein-rRNA interface [nucleotide binding]; other site 374931003818 putative translocon binding site; other site 374931003819 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 374931003820 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 374931003821 G-X-X-G motif; other site 374931003822 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 374931003823 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 374931003824 23S rRNA interface [nucleotide binding]; other site 374931003825 5S rRNA interface [nucleotide binding]; other site 374931003826 putative antibiotic binding site [chemical binding]; other site 374931003827 L25 interface [polypeptide binding]; other site 374931003828 L27 interface [polypeptide binding]; other site 374931003829 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 374931003830 23S rRNA interface [nucleotide binding]; other site 374931003831 putative translocon interaction site; other site 374931003832 signal recognition particle (SRP54) interaction site; other site 374931003833 L23 interface [polypeptide binding]; other site 374931003834 trigger factor interaction site; other site 374931003835 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 374931003836 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 374931003837 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 374931003838 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 374931003839 RNA binding site [nucleotide binding]; other site 374931003840 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 374931003841 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 374931003842 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 374931003843 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 374931003844 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 374931003845 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 374931003846 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 374931003847 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 374931003848 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 374931003849 5S rRNA interface [nucleotide binding]; other site 374931003850 L27 interface [polypeptide binding]; other site 374931003851 23S rRNA interface [nucleotide binding]; other site 374931003852 L5 interface [polypeptide binding]; other site 374931003853 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 374931003854 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 374931003855 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 374931003856 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 374931003857 23S rRNA binding site [nucleotide binding]; other site 374931003858 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 374931003859 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 374931003860 SecY translocase; Region: SecY; pfam00344 374931003861 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 374931003862 30S ribosomal protein S13; Region: bact_S13; TIGR03631 374931003863 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 374931003864 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 374931003865 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 374931003866 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 374931003867 RNA binding surface [nucleotide binding]; other site 374931003868 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 374931003869 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 374931003870 alphaNTD homodimer interface [polypeptide binding]; other site 374931003871 alphaNTD - beta interaction site [polypeptide binding]; other site 374931003872 alphaNTD - beta' interaction site [polypeptide binding]; other site 374931003873 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 374931003874 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 374931003875 putative switch regulator; other site 374931003876 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; cl17320 374931003877 non-specific DNA interactions [nucleotide binding]; other site 374931003878 DNA binding site [nucleotide binding] 374931003879 sequence specific DNA binding site [nucleotide binding]; other site 374931003880 putative cAMP binding site [chemical binding]; other site 374931003881 Predicted permeases [General function prediction only]; Region: COG0730 374931003882 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 374931003883 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 374931003884 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 374931003885 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 374931003886 ribosome recycling factor; Reviewed; Region: frr; PRK00083 374931003887 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 374931003888 hinge region; other site 374931003889 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 374931003890 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 374931003891 active site 374931003892 substrate-binding site [chemical binding]; other site 374931003893 metal-binding site [ion binding] 374931003894 ATP binding site [chemical binding]; other site 374931003895 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 374931003896 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 374931003897 dimerization interface [polypeptide binding]; other site 374931003898 domain crossover interface; other site 374931003899 redox-dependent activation switch; other site 374931003900 argininosuccinate lyase; Provisional; Region: PRK04833 374931003901 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 374931003902 active sites [active] 374931003903 tetramer interface [polypeptide binding]; other site 374931003904 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 374931003905 active site 374931003906 tetramer interface; other site 374931003907 carbon storage regulator; Provisional; Region: PRK01712 374931003908 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 374931003909 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 374931003910 motif 1; other site 374931003911 active site 374931003912 motif 2; other site 374931003913 motif 3; other site 374931003914 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 374931003915 DHHA1 domain; Region: DHHA1; pfam02272 374931003916 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 374931003917 Ligand Binding Site [chemical binding]; other site 374931003918 potential frameshift: common BLAST hit: gi|16272757|ref|NP_438976.1| aminopeptidase P [Haemophilus influenzae Rd KW20] 374931003919 hypothetical protein; Reviewed; Region: PRK01736 374931003920 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 374931003921 active site 374931003922 catalytic residues [active] 374931003923 galactokinase; Provisional; Region: PRK05101 374931003924 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 374931003925 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 374931003926 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 374931003927 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 374931003928 dimer interface [polypeptide binding]; other site 374931003929 active site 374931003930 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 374931003931 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 374931003932 DNA binding site [nucleotide binding] 374931003933 domain linker motif; other site 374931003934 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 374931003935 ligand binding site [chemical binding]; other site 374931003936 dimerization interface (closed form) [polypeptide binding]; other site 374931003937 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 374931003938 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 374931003939 ligand binding site [chemical binding]; other site 374931003940 calcium binding site [ion binding]; other site 374931003941 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 374931003942 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 374931003943 Walker A/P-loop; other site 374931003944 ATP binding site [chemical binding]; other site 374931003945 Q-loop/lid; other site 374931003946 ABC transporter signature motif; other site 374931003947 Walker B; other site 374931003948 D-loop; other site 374931003949 H-loop/switch region; other site 374931003950 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 374931003951 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 374931003952 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 374931003953 TM-ABC transporter signature motif; other site 374931003954 Intracellular septation protein A [Cell division and chromosome partitioning]; Region: COG2917 374931003955 potential frameshift: common BLAST hit: gi|68249422|ref|YP_248534.1| putative acyl-CoA thioester hydrolase [Haemophilus influenzae] 374931003956 YciI-like protein; Reviewed; Region: PRK11370 374931003957 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 374931003958 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 374931003959 N-acetyl-D-glucosamine binding site [chemical binding]; other site 374931003960 catalytic residue [active] 374931003961 Trp operon repressor; Provisional; Region: PRK01381 374931003962 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 374931003963 monofunctional biosynthetic peptidoglycan transglycosylase; Region: mono_pep_trsgly; TIGR02070 374931003964 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 374931003965 Iron-sulfur protein interface; other site 374931003966 proximal quinone binding site [chemical binding]; other site 374931003967 C-subunit interface; other site 374931003968 distal quinone binding site; other site 374931003969 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 374931003970 D-subunit interface [polypeptide binding]; other site 374931003971 Iron-sulfur protein interface; other site 374931003972 proximal quinone binding site [chemical binding]; other site 374931003973 distal quinone binding site [chemical binding]; other site 374931003974 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 374931003975 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 374931003976 catalytic loop [active] 374931003977 iron binding site [ion binding]; other site 374931003978 potential frameshift: common BLAST hit: gi|68249430|ref|YP_248542.1| fumarate reductase [Haemophilus influenzae 86-028NP] 374931003979 poxB regulator PoxA; Provisional; Region: PRK09350 374931003980 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 374931003981 motif 1; other site 374931003982 dimer interface [polypeptide binding]; other site 374931003983 active site 374931003984 motif 2; other site 374931003985 motif 3; other site 374931003986 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 374931003987 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 374931003988 active site 374931003989 phosphorylation site [posttranslational modification] 374931003990 intermolecular recognition site; other site 374931003991 dimerization interface [polypeptide binding]; other site 374931003992 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 374931003993 DNA binding site [nucleotide binding] 374931003994 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 374931003995 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 374931003996 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 374931003997 Nucleoid-associated protein [General function prediction only]; Region: COG3081 374931003998 nucleoid-associated protein NdpA; Validated; Region: PRK00378 374931003999 hypothetical protein; Provisional; Region: PRK13689 374931004000 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 374931004001 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 374931004002 Sulfatase; Region: Sulfatase; cl17466 374931004003 hypothetical protein; Validated; Region: PRK06886 374931004004 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 374931004005 active site 374931004006 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 374931004007 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 374931004008 GTP binding site; other site 374931004009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3084 374931004010 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 374931004011 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 374931004012 catalytic residues [active] 374931004013 hinge region; other site 374931004014 alpha helical domain; other site 374931004015 hypothetical protein; Provisional; Region: PRK11027 374931004016 potential frameshift: common BLAST hit: gi|68249442|ref|YP_248554.1| tRNA (uracil-5-)-methyltransferase [Haemophilus influenzae] 374931004017 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 374931004018 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 374931004019 similar to hypothetical protein; COG3086 Positive regulator of sigma E activity 374931004020 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 374931004021 Walker A motif; other site 374931004022 putative transporter; Provisional; Region: PRK10504 374931004023 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 374931004024 putative substrate translocation pore; other site 374931004025 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 374931004026 potential frameshift: common BLAST hit: gi|68249447|ref|YP_248559.1| heme-binding protein A [Haemophilus influenzae 86-028NP] 374931004027 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 374931004028 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 374931004029 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 374931004030 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 374931004031 DNA polymerase I; Provisional; Region: PRK05755 374931004032 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 374931004033 active site 374931004034 metal binding site 1 [ion binding]; metal-binding site 374931004035 putative 5' ssDNA interaction site; other site 374931004036 metal binding site 3; metal-binding site 374931004037 metal binding site 2 [ion binding]; metal-binding site 374931004038 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 374931004039 putative DNA binding site [nucleotide binding]; other site 374931004040 putative metal binding site [ion binding]; other site 374931004041 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 374931004042 active site 374931004043 catalytic site [active] 374931004044 substrate binding site [chemical binding]; other site 374931004045 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 374931004046 active site 374931004047 DNA binding site [nucleotide binding] 374931004048 catalytic site [active] 374931004049 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 374931004050 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 374931004051 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 374931004052 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 374931004053 Clp amino terminal domain; Region: Clp_N; pfam02861 374931004054 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 374931004055 Walker A motif; other site 374931004056 ATP binding site [chemical binding]; other site 374931004057 Walker B motif; other site 374931004058 arginine finger; other site 374931004059 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 374931004060 Walker A motif; other site 374931004061 ATP binding site [chemical binding]; other site 374931004062 Walker B motif; other site 374931004063 arginine finger; other site 374931004064 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 374931004065 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 374931004066 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 374931004067 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 374931004068 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 374931004069 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 374931004070 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 374931004071 RNB domain; Region: RNB; pfam00773 374931004072 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 374931004073 RNA binding site [nucleotide binding]; other site 374931004074 hypothetical protein; Provisional; Region: PRK11212 374931004075 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 374931004076 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 374931004077 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 374931004078 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 374931004079 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 374931004080 G1 box; other site 374931004081 putative GEF interaction site [polypeptide binding]; other site 374931004082 GTP/Mg2+ binding site [chemical binding]; other site 374931004083 Switch I region; other site 374931004084 G2 box; other site 374931004085 G3 box; other site 374931004086 Switch II region; other site 374931004087 G4 box; other site 374931004088 G5 box; other site 374931004089 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 374931004090 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 374931004091 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 374931004092 glutamine synthetase; Provisional; Region: glnA; PRK09469 374931004093 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 374931004094 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 374931004095 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 374931004096 potential frameshift: common BLAST hit: gi|16272807|ref|NP_439027.1| lipopolysaccharide biosynthesis protein [Haemophilus influenzae Rd] 374931004097 potential frameshift: common BLAST hit: gi|16272807|ref|NP_439027.1| lipopolysaccharide biosynthesis protein [Haemophilus influenzae Rd] 374931004098 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 374931004099 active site 374931004100 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 374931004101 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 374931004102 active site 374931004103 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 374931004104 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 374931004105 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 374931004106 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 374931004107 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 374931004108 NAD binding site [chemical binding]; other site 374931004109 substrate binding site [chemical binding]; other site 374931004110 homodimer interface [polypeptide binding]; other site 374931004111 active site 374931004112 potential frameshift: common BLAST hit: gi|52424298|ref|YP_087435.1| RfaL protein [Mannheimia succiniciproducens MBEL55E] 374931004113 aminopeptidase B; Provisional; Region: PRK05015 374931004114 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 374931004115 interface (dimer of trimers) [polypeptide binding]; other site 374931004116 Substrate-binding/catalytic site; other site 374931004117 Zn-binding sites [ion binding]; other site 374931004118 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 374931004119 active site 374931004120 multimer interface [polypeptide binding]; other site 374931004121 GTPase CgtA; Reviewed; Region: obgE; PRK12298 374931004122 GTP1/OBG; Region: GTP1_OBG; pfam01018 374931004123 Obg GTPase; Region: Obg; cd01898 374931004124 G1 box; other site 374931004125 GTP/Mg2+ binding site [chemical binding]; other site 374931004126 Switch I region; other site 374931004127 G2 box; other site 374931004128 G3 box; other site 374931004129 Switch II region; other site 374931004130 G4 box; other site 374931004131 G5 box; other site 374931004132 potential frameshift: common BLAST hit: gi|52425650|ref|YP_088787.1| RhaT protein [Mannheimia succiniciproducens MBEL55E] 374931004133 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 374931004134 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 374931004135 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 374931004136 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 374931004137 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 374931004138 substrate binding pocket [chemical binding]; other site 374931004139 chain length determination region; other site 374931004140 substrate-Mg2+ binding site; other site 374931004141 catalytic residues [active] 374931004142 aspartate-rich region 1; other site 374931004143 active site lid residues [active] 374931004144 aspartate-rich region 2; other site 374931004145 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 374931004146 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 374931004147 two-component response regulator; Provisional; Region: PRK11173 374931004148 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 374931004149 active site 374931004150 phosphorylation site [posttranslational modification] 374931004151 intermolecular recognition site; other site 374931004152 dimerization interface [polypeptide binding]; other site 374931004153 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 374931004154 DNA binding site [nucleotide binding] 374931004155 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 374931004156 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 374931004157 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 374931004158 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 374931004159 DsbD alpha interface [polypeptide binding]; other site 374931004160 catalytic residues [active] 374931004161 Predicted membrane protein [Function unknown]; Region: COG2259 374931004162 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 374931004163 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 374931004164 purine monophosphate binding site [chemical binding]; other site 374931004165 dimer interface [polypeptide binding]; other site 374931004166 putative catalytic residues [active] 374931004167 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 374931004168 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 374931004169 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 374931004170 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 374931004171 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 374931004172 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 374931004173 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 374931004174 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 374931004175 dimer interface [polypeptide binding]; other site 374931004176 active site 374931004177 glycine-pyridoxal phosphate binding site [chemical binding]; other site 374931004178 folate binding site [chemical binding]; other site 374931004179 dephospho-CoA kinase; Region: TIGR00152 374931004180 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 374931004181 CoA-binding site [chemical binding]; other site 374931004182 ATP-binding [chemical binding]; other site 374931004183 DNA gyrase inhibitor; Reviewed; Region: PRK00418 374931004184 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 374931004185 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 374931004186 ATP binding site [chemical binding]; other site 374931004187 Mg++ binding site [ion binding]; other site 374931004188 motif III; other site 374931004189 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 374931004190 nucleotide binding region [chemical binding]; other site 374931004191 ATP-binding site [chemical binding]; other site 374931004192 similar to hypothetical protein; COG0513 Superfamily II DNA and RNA helicases 374931004193 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 374931004194 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 374931004195 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 374931004196 HlyD family secretion protein; Region: HlyD_3; pfam13437 374931004197 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 374931004198 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 374931004199 Sporulation related domain; Region: SPOR; pfam05036 374931004200 potential frameshift: common BLAST hit: gi|68249484|ref|YP_248596.1| multidrug resistance protein [Haemophilus influenzae 86-028NP] 374931004201 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 374931004202 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 374931004203 HlyD family secretion protein; Region: HlyD_3; pfam13437 374931004204 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 374931004205 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 374931004206 folate binding site [chemical binding]; other site 374931004207 NADP+ binding site [chemical binding]; other site 374931004208 gamma-glutamyl kinase; Provisional; Region: PRK05429 374931004209 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 374931004210 nucleotide binding site [chemical binding]; other site 374931004211 homotetrameric interface [polypeptide binding]; other site 374931004212 putative phosphate binding site [ion binding]; other site 374931004213 putative allosteric binding site; other site 374931004214 PUA domain; Region: PUA; pfam01472 374931004215 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 374931004216 putative active site [active] 374931004217 Ap4A binding site [chemical binding]; other site 374931004218 nudix motif; other site 374931004219 putative metal binding site [ion binding]; other site 374931004220 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 374931004221 potential frameshift: common BLAST hit: gi|16272841|ref|NP_439064.1| prolipoprotein diacylglyceryl transferase [Haemophilus influenzae] 374931004222 thymidylate synthase; Reviewed; Region: thyA; PRK01827 374931004223 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 374931004224 dimerization interface [polypeptide binding]; other site 374931004225 active site 374931004226 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 374931004227 nucleoside/Zn binding site; other site 374931004228 dimer interface [polypeptide binding]; other site 374931004229 catalytic motif [active] 374931004230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 374931004231 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 374931004232 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 374931004233 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 374931004234 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 374931004235 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 374931004236 nucleotide binding region [chemical binding]; other site 374931004237 ATP-binding site [chemical binding]; other site 374931004238 SEC-C motif; Region: SEC-C; pfam02810 374931004239 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 374931004240 active site 374931004241 8-oxo-dGMP binding site [chemical binding]; other site 374931004242 nudix motif; other site 374931004243 metal binding site [ion binding]; metal-binding site 374931004244 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 374931004245 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 374931004246 TrkA-N domain; Region: TrkA_N; pfam02254 374931004247 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 374931004248 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 374931004249 rRNA interaction site [nucleotide binding]; other site 374931004250 S8 interaction site; other site 374931004251 putative laminin-1 binding site; other site 374931004252 elongation factor Ts; Provisional; Region: tsf; PRK09377 374931004253 UBA/TS-N domain; Region: UBA; pfam00627 374931004254 Elongation factor TS; Region: EF_TS; pfam00889 374931004255 Elongation factor TS; Region: EF_TS; pfam00889 374931004256 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 374931004257 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 374931004258 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 374931004259 trimer interface [polypeptide binding]; other site 374931004260 active site 374931004261 UDP-GlcNAc binding site [chemical binding]; other site 374931004262 lipid binding site [chemical binding]; lipid-binding site 374931004263 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 374931004264 periplasmic chaperone; Provisional; Region: PRK10780 374931004265 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 374931004266 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374931004267 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374931004268 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374931004269 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374931004270 Surface antigen; Region: Bac_surface_Ag; pfam01103 374931004271 zinc metallopeptidase RseP; Provisional; Region: PRK10779 374931004272 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 374931004273 active site 374931004274 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 374931004275 protein binding site [polypeptide binding]; other site 374931004276 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 374931004277 protein binding site [polypeptide binding]; other site 374931004278 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 374931004279 putative substrate binding region [chemical binding]; other site 374931004280 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 374931004281 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 374931004282 potential frameshift: common BLAST hit: gi|68249506|ref|YP_248618.1| undecaprenyl pyrophosphate synthetase [Haemophilus influenzae] 374931004283 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 374931004284 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 374931004285 HIGH motif; other site 374931004286 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 374931004287 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374931004288 active site 374931004289 KMSKS motif; other site 374931004290 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 374931004291 tRNA binding surface [nucleotide binding]; other site 374931004292 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 374931004293 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 374931004294 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 374931004295 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 374931004296 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 374931004297 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 374931004298 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 374931004299 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 374931004300 dimer interface [polypeptide binding]; other site 374931004301 motif 1; other site 374931004302 active site 374931004303 motif 2; other site 374931004304 motif 3; other site 374931004305 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 374931004306 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 374931004307 tetramer interface [polypeptide binding]; other site 374931004308 heme binding pocket [chemical binding]; other site 374931004309 NADPH binding site [chemical binding]; other site 374931004310 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 374931004311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 374931004312 enolase; Provisional; Region: eno; PRK00077 374931004313 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 374931004314 dimer interface [polypeptide binding]; other site 374931004315 metal binding site [ion binding]; metal-binding site 374931004316 substrate binding pocket [chemical binding]; other site 374931004317 Predicted flavoproteins [General function prediction only]; Region: COG2081 374931004318 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 374931004319 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 374931004320 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 374931004321 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 374931004322 binding surface 374931004323 TPR motif; other site 374931004324 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 374931004325 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 374931004326 catalytic residues [active] 374931004327 central insert; other site 374931004328 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 374931004329 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 374931004330 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 374931004331 active site 374931004332 dimerization interface [polypeptide binding]; other site 374931004333 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 374931004334 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 374931004335 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 374931004336 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 374931004337 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 374931004338 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 374931004339 ATP cone domain; Region: ATP-cone; pfam03477 374931004340 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 374931004341 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 374931004342 catalytic motif [active] 374931004343 Zn binding site [ion binding]; other site 374931004344 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 374931004345 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 374931004346 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 374931004347 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 374931004348 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 374931004349 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 374931004350 DNA binding site [nucleotide binding] 374931004351 catalytic residue [active] 374931004352 H2TH interface [polypeptide binding]; other site 374931004353 putative catalytic residues [active] 374931004354 turnover-facilitating residue; other site 374931004355 intercalation triad [nucleotide binding]; other site 374931004356 8OG recognition residue [nucleotide binding]; other site 374931004357 putative reading head residues; other site 374931004358 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 374931004359 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 374931004360 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 374931004361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931004362 catalytic residue [active] 374931004363 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 374931004364 oligomeric interface; other site 374931004365 putative active site [active] 374931004366 homodimer interface [polypeptide binding]; other site 374931004367 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 374931004368 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 374931004369 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 374931004370 inhibitor-cofactor binding pocket; inhibition site 374931004371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931004372 catalytic residue [active] 374931004373 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 374931004374 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 374931004375 potential frameshift: common BLAST hit: gi|68249540|ref|YP_248652.1| DNA repair protein RadC [Haemophilus influenzae 86-028NP] 374931004376 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 374931004377 Flavoprotein; Region: Flavoprotein; pfam02441 374931004378 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 374931004379 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 374931004380 trimer interface [polypeptide binding]; other site 374931004381 active site 374931004382 division inhibitor protein; Provisional; Region: slmA; PRK09480 374931004383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 374931004384 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 374931004385 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 374931004386 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 374931004387 ligand binding site [chemical binding]; other site 374931004388 flexible hinge region; other site 374931004389 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 374931004390 putative switch regulator; other site 374931004391 non-specific DNA interactions [nucleotide binding]; other site 374931004392 DNA binding site [nucleotide binding] 374931004393 sequence specific DNA binding site [nucleotide binding]; other site 374931004394 putative cAMP binding site [chemical binding]; other site 374931004395 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 374931004396 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 374931004397 beta-hexosaminidase; Provisional; Region: PRK05337 374931004398 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 374931004399 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 374931004400 putative dimer interface [polypeptide binding]; other site 374931004401 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 374931004402 nucleotide binding site/active site [active] 374931004403 HIT family signature motif; other site 374931004404 catalytic residue [active] 374931004405 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 374931004406 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374931004407 active site 374931004408 HIGH motif; other site 374931004409 nucleotide binding site [chemical binding]; other site 374931004410 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 374931004411 active site 374931004412 KMSKS motif; other site 374931004413 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 374931004414 tRNA binding surface [nucleotide binding]; other site 374931004415 anticodon binding site; other site 374931004416 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 374931004417 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 374931004418 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 374931004419 active site 374931004420 Riboflavin kinase; Region: Flavokinase; smart00904 374931004421 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 374931004422 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 374931004423 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 374931004424 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 374931004425 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 374931004426 substrate binding site [chemical binding]; other site 374931004427 oxyanion hole (OAH) forming residues; other site 374931004428 trimer interface [polypeptide binding]; other site 374931004429 O-succinylbenzoate synthase [Coenzyme metabolism]; Region: MenC; COG1441 374931004430 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 374931004431 active site 374931004432 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 374931004433 Dehydroquinase class II; Region: DHquinase_II; pfam01220 374931004434 active site 374931004435 trimer interface [polypeptide binding]; other site 374931004436 dimer interface [polypeptide binding]; other site 374931004437 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 374931004438 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 374931004439 carboxyltransferase (CT) interaction site; other site 374931004440 biotinylation site [posttranslational modification]; other site 374931004441 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 374931004442 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 374931004443 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 374931004444 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 374931004445 Predicted membrane protein [Function unknown]; Region: COG3924 374931004446 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 374931004447 Na binding site [ion binding]; other site 374931004448 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 374931004449 Methyltransferase domain; Region: Methyltransf_18; pfam12847 374931004450 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 374931004451 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 374931004452 FMN binding site [chemical binding]; other site 374931004453 active site 374931004454 catalytic residues [active] 374931004455 substrate binding site [chemical binding]; other site 374931004456 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 374931004457 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 374931004458 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 374931004459 SmpB-tmRNA interface; other site 374931004460 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 374931004461 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 374931004462 dimerization interface [polypeptide binding]; other site 374931004463 allosteric effector site; other site 374931004464 active site 374931004465 ADP/pyrophosphate binding site [chemical binding]; other site 374931004466 fructose-1,6-bisphosphate binding site; other site 374931004467 hypothetical protein; Validated; Region: PRK02101 374931004468 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 374931004469 DNA protecting protein DprA; Region: dprA; TIGR00732 374931004470 potential frameshift: common BLAST hit: gi|68249571|ref|YP_248683.1| 2-isopropylmalate synthase [Haemophilus influenzae 86-028NP] 374931004471 potential frameshift: common BLAST hit: gi|68249572|ref|YP_248684.1| 3-isopropylmalate dehydrogenase [Haemophilus influenzae 86-028NP] 374931004472 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 374931004473 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 374931004474 substrate binding site [chemical binding]; other site 374931004475 ligand binding site [chemical binding]; other site 374931004476 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 374931004477 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 374931004478 substrate binding site [chemical binding]; other site 374931004479 potential frameshift: common BLAST hit: gi|16272928|ref|NP_439153.1| immunoglobin A1 protease [Haemophilus influenzae Rd KW20] 374931004480 potential frameshift: common BLAST hit: gi|68249576|ref|YP_248688.1| recombination protein F [Haemophilus influenzae 86-028NP] 374931004481 DNA polymerase III subunit beta; Validated; Region: PRK05643 374931004482 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 374931004483 putative DNA binding surface [nucleotide binding]; other site 374931004484 dimer interface [polypeptide binding]; other site 374931004485 beta-clamp/clamp loader binding surface; other site 374931004486 beta-clamp/translesion DNA polymerase binding surface; other site 374931004487 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 374931004488 DnaA N-terminal domain; Region: DnaA_N; pfam11638 374931004489 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 374931004490 Walker A motif; other site 374931004491 ATP binding site [chemical binding]; other site 374931004492 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 374931004493 Walker B motif; other site 374931004494 arginine finger; other site 374931004495 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 374931004496 DnaA box-binding interface [nucleotide binding]; other site 374931004497 potential frameshift: common BLAST hit: gi|16272932|ref|NP_439157.1| transferrin-binding protein 1 precursor [Haemophilus influenzae Rd] 374931004498 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 374931004499 Protein of unknown function (DUF560); Region: DUF560; pfam04575 374931004500 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 374931004501 ribonuclease P; Reviewed; Region: rnpA; PRK01732 374931004502 hypothetical protein; Validated; Region: PRK00041 374931004503 potential frameshift: common BLAST hit: gi|68249585|ref|YP_248697.1| putative inner membrane protein translocase component YidC 374931004504 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 374931004505 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 374931004506 trmE is a tRNA modification GTPase; Region: trmE; cd04164 374931004507 G1 box; other site 374931004508 GTP/Mg2+ binding site [chemical binding]; other site 374931004509 Switch I region; other site 374931004510 G2 box; other site 374931004511 Switch II region; other site 374931004512 G3 box; other site 374931004513 G4 box; other site 374931004514 G5 box; other site 374931004515 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 374931004516 periplasmic folding chaperone; Provisional; Region: PRK10788 374931004517 SurA N-terminal domain; Region: SurA_N_3; cl07813 374931004518 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 374931004519 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 374931004520 Sulfatase; Region: Sulfatase; pfam00884 374931004521 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 374931004522 lipoprotein signal peptidase; Provisional; Region: PRK14787 374931004523 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 374931004524 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 374931004525 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 374931004526 potential frameshift: common BLAST hit: gi|16272944|ref|NP_439170.1| glycerol-3-phosphate regulon repressor [Haemophilus influenzae Rd] 374931004527 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 374931004528 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 374931004529 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 374931004530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 374931004531 putative aldolase; Validated; Region: PRK08130 374931004532 intersubunit interface [polypeptide binding]; other site 374931004533 active site 374931004534 Zn2+ binding site [ion binding]; other site 374931004535 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 374931004536 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 374931004537 Metal-binding active site; metal-binding site 374931004538 fructuronate transporter; Provisional; Region: PRK10034; cl15264 374931004539 GntP family permease; Region: GntP_permease; pfam02447 374931004540 Predicted peptidase [General function prediction only]; Region: COG4099 374931004541 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 374931004542 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 374931004543 amphipathic channel; other site 374931004544 Asn-Pro-Ala signature motifs; other site 374931004545 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 374931004546 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 374931004547 thiamine ABC transporter, periplasmic binding protein; Region: thiB; TIGR01276 374931004548 potential frameshift: common BLAST hit: gi|16272954|ref|NP_439180.1| thiamin ABC transporter membrane component [Haemophilus influenzae] 374931004549 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 374931004550 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931004551 Walker A/P-loop; other site 374931004552 ATP binding site [chemical binding]; other site 374931004553 Q-loop/lid; other site 374931004554 ABC transporter signature motif; other site 374931004555 Walker B; other site 374931004556 D-loop; other site 374931004557 H-loop/switch region; other site 374931004558 biotin synthase; Region: bioB; TIGR00433 374931004559 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 374931004560 FeS/SAM binding site; other site 374931004561 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 374931004562 transketolase; Reviewed; Region: PRK12753 374931004563 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 374931004564 TPP-binding site [chemical binding]; other site 374931004565 dimer interface [polypeptide binding]; other site 374931004566 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 374931004567 PYR/PP interface [polypeptide binding]; other site 374931004568 dimer interface [polypeptide binding]; other site 374931004569 TPP binding site [chemical binding]; other site 374931004570 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 374931004571 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 374931004572 active site 374931004573 dimer interface [polypeptide binding]; other site 374931004574 magnesium binding site [ion binding]; other site 374931004575 potential frameshift: common BLAST hit: gi|16272959|ref|NP_439185.1| L-ribulose-5-phosphate 4-epimerase [Haemophilus influenzae Rd KW20] 374931004576 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 374931004577 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 374931004578 AP (apurinic/apyrimidinic) site pocket; other site 374931004579 DNA interaction; other site 374931004580 Metal-binding active site; metal-binding site 374931004581 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 374931004582 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 374931004583 putative N- and C-terminal domain interface [polypeptide binding]; other site 374931004584 putative active site [active] 374931004585 MgATP binding site [chemical binding]; other site 374931004586 catalytic site [active] 374931004587 metal binding site [ion binding]; metal-binding site 374931004588 putative xylulose binding site [chemical binding]; other site 374931004589 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 374931004590 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 374931004591 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 374931004592 DctM-like transporters; Region: DctM; pfam06808 374931004593 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 374931004594 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 374931004595 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 374931004596 Transcriptional regulator [Transcription]; Region: IclR; COG1414 374931004597 Bacterial transcriptional regulator; Region: IclR; pfam01614 374931004598 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 374931004599 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 374931004600 motif II; other site 374931004601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 374931004602 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 374931004603 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 374931004604 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 374931004605 Cl binding site [ion binding]; other site 374931004606 oligomer interface [polypeptide binding]; other site 374931004607 YGGT family; Region: YGGT; pfam02325 374931004608 YGGT family; Region: YGGT; pfam02325 374931004609 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 374931004610 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 374931004611 putative active site [active] 374931004612 putative dimer interface [polypeptide binding]; other site 374931004613 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 374931004614 AAA domain; Region: AAA_14; pfam13173 374931004615 potential frameshift: common BLAST hit: gi|52425064|ref|YP_088201.1| MetH protein [Mannheimia succiniciproducens MBEL55E] 374931004616 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 374931004617 ferredoxin-type protein NapF; Region: napF; TIGR00402 374931004618 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 374931004619 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 374931004620 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 374931004621 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 374931004622 4Fe-4S binding domain; Region: Fer4; cl02805 374931004623 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 374931004624 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 374931004625 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 374931004626 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 374931004627 putative [Fe4-S4] binding site [ion binding]; other site 374931004628 putative molybdopterin cofactor binding site [chemical binding]; other site 374931004629 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 374931004630 molybdopterin cofactor binding site; other site 374931004631 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 374931004632 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 374931004633 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 374931004634 metal-binding site [ion binding] 374931004635 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 374931004636 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 374931004637 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 374931004638 Walker A/P-loop; other site 374931004639 ATP binding site [chemical binding]; other site 374931004640 Q-loop/lid; other site 374931004641 ABC transporter signature motif; other site 374931004642 Walker B; other site 374931004643 D-loop; other site 374931004644 H-loop/switch region; other site 374931004645 Cupin; Region: Cupin_6; pfam12852 374931004646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 374931004647 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 374931004648 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 374931004649 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 374931004650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 374931004651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 374931004652 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 374931004653 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 374931004654 DNA methylase; Region: N6_N4_Mtase; pfam01555 374931004655 DNA methylase; Region: N6_N4_Mtase; pfam01555 374931004656 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 374931004657 RNA/DNA hybrid binding site [nucleotide binding]; other site 374931004658 active site 374931004659 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 374931004660 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 374931004661 potential frameshift: common BLAST hit: gi|68249620|ref|YP_248732.1| UDP-N-acetylglucosamine acyltransferase [Haemophilus influenzae] 374931004662 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 374931004663 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 374931004664 Sulfatase; Region: Sulfatase; pfam00884 374931004665 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 374931004666 putative nucleotide binding site [chemical binding]; other site 374931004667 uridine monophosphate binding site [chemical binding]; other site 374931004668 homohexameric interface [polypeptide binding]; other site 374931004669 potential frameshift: common BLAST hit: gi|68249624|ref|YP_248736.1| NrfD, formate-dependent nitrite reductase, membrane component 374931004670 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 374931004671 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 374931004672 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 374931004673 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 374931004674 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 374931004675 ATP binding site [chemical binding]; other site 374931004676 putative Mg++ binding site [ion binding]; other site 374931004677 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 374931004678 nucleotide binding region [chemical binding]; other site 374931004679 ATP-binding site [chemical binding]; other site 374931004680 Helicase associated domain (HA2); Region: HA2; pfam04408 374931004681 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 374931004682 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 374931004683 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 374931004684 Predicted membrane protein [Function unknown]; Region: COG2707 374931004685 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 374931004686 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 374931004687 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 374931004688 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 374931004689 CTP synthetase; Validated; Region: pyrG; PRK05380 374931004690 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 374931004691 Catalytic site [active] 374931004692 active site 374931004693 UTP binding site [chemical binding]; other site 374931004694 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 374931004695 active site 374931004696 putative oxyanion hole; other site 374931004697 catalytic triad [active] 374931004698 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 374931004699 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 374931004700 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 374931004701 Walker A/P-loop; other site 374931004702 ATP binding site [chemical binding]; other site 374931004703 Q-loop/lid; other site 374931004704 ABC transporter signature motif; other site 374931004705 Walker B; other site 374931004706 D-loop; other site 374931004707 H-loop/switch region; other site 374931004708 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 374931004709 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 374931004710 dimer interface [polypeptide binding]; other site 374931004711 conserved gate region; other site 374931004712 putative PBP binding loops; other site 374931004713 ABC-ATPase subunit interface; other site 374931004714 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 374931004715 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 374931004716 substrate binding pocket [chemical binding]; other site 374931004717 membrane-bound complex binding site; other site 374931004718 hinge residues; other site 374931004719 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 374931004720 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 374931004721 hinge; other site 374931004722 active site 374931004723 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 374931004724 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 374931004725 anti sigma factor interaction site; other site 374931004726 regulatory phosphorylation site [posttranslational modification]; other site 374931004727 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 374931004728 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 374931004729 mce related protein; Region: MCE; pfam02470 374931004730 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 374931004731 conserved hypothetical integral membrane protein; Region: TIGR00056 374931004732 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 374931004733 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 374931004734 Walker A/P-loop; other site 374931004735 ATP binding site [chemical binding]; other site 374931004736 Q-loop/lid; other site 374931004737 ABC transporter signature motif; other site 374931004738 Walker B; other site 374931004739 D-loop; other site 374931004740 H-loop/switch region; other site 374931004741 superoxide dismutase; Provisional; Region: PRK10925 374931004742 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 374931004743 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 374931004744 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 374931004745 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931004746 Walker A/P-loop; other site 374931004747 ATP binding site [chemical binding]; other site 374931004748 Q-loop/lid; other site 374931004749 ABC transporter signature motif; other site 374931004750 Walker B; other site 374931004751 D-loop; other site 374931004752 H-loop/switch region; other site 374931004753 heme exporter protein CcmB; Region: ccmB; TIGR01190 374931004754 heme exporter protein CcmC; Region: ccmC; TIGR01191 374931004755 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 374931004756 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 374931004757 potential frameshift: common BLAST hit: gi|68249651|ref|YP_248763.1| cytochrome c-type biogenesis protein CcmF [Haemophilus influenzae] 374931004758 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 374931004759 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 374931004760 catalytic residues [active] 374931004761 central insert; other site 374931004762 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 374931004763 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 374931004764 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 374931004765 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 374931004766 TPR motif; other site 374931004767 binding surface 374931004768 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 374931004769 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 374931004770 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 374931004771 nucleotide binding pocket [chemical binding]; other site 374931004772 K-X-D-G motif; other site 374931004773 catalytic site [active] 374931004774 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 374931004775 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 374931004776 Helix-hairpin-helix motif; Region: HHH; pfam00633 374931004777 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 374931004778 Dimer interface [polypeptide binding]; other site 374931004779 BRCT sequence motif; other site 374931004780 cell division protein ZipA; Provisional; Region: PRK01741 374931004781 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 374931004782 FtsZ protein binding site [polypeptide binding]; other site 374931004783 putative sulfate transport protein CysZ; Validated; Region: PRK04949 374931004784 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 374931004785 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 374931004786 dimer interface [polypeptide binding]; other site 374931004787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931004788 catalytic residue [active] 374931004789 benzoate transport; Region: 2A0115; TIGR00895 374931004790 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 374931004791 putative substrate translocation pore; other site 374931004792 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 374931004793 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 374931004794 putative active site [active] 374931004795 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 374931004796 putative dimerization interface [polypeptide binding]; other site 374931004797 Transcriptional regulators [Transcription]; Region: PurR; COG1609 374931004798 putative ligand binding site [chemical binding]; other site 374931004799 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 374931004800 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 374931004801 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 374931004802 potential frameshift: common BLAST hit: gi|16273033|ref|NP_439264.1| Na+/H+ antiporter [Haemophilus influenzae Rd KW20] 374931004803 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 374931004804 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 374931004805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931004806 homodimer interface [polypeptide binding]; other site 374931004807 catalytic residue [active] 374931004808 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 374931004809 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 374931004810 TM-ABC transporter signature motif; other site 374931004811 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 374931004812 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 374931004813 Walker A/P-loop; other site 374931004814 ATP binding site [chemical binding]; other site 374931004815 Q-loop/lid; other site 374931004816 ABC transporter signature motif; other site 374931004817 Walker B; other site 374931004818 D-loop; other site 374931004819 H-loop/switch region; other site 374931004820 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 374931004821 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 374931004822 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 374931004823 putative ligand binding site [chemical binding]; other site 374931004824 xylose isomerase; Provisional; Region: PRK05474 374931004825 xylose isomerase; Region: xylose_isom_A; TIGR02630 374931004826 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 374931004827 N- and C-terminal domain interface [polypeptide binding]; other site 374931004828 D-xylulose kinase; Region: XylB; TIGR01312 374931004829 active site 374931004830 MgATP binding site [chemical binding]; other site 374931004831 catalytic site [active] 374931004832 metal binding site [ion binding]; metal-binding site 374931004833 xylulose binding site [chemical binding]; other site 374931004834 putative homodimer interface [polypeptide binding]; other site 374931004835 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 374931004836 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 374931004837 NADP binding site [chemical binding]; other site 374931004838 homopentamer interface [polypeptide binding]; other site 374931004839 substrate binding site [chemical binding]; other site 374931004840 active site 374931004841 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 374931004842 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 374931004843 catalytic residues [active] 374931004844 potential frameshift: common BLAST hit: gi|68249667|ref|YP_248779.1| deoxyribose-phosphate aldolase [Haemophilus influenzae 86-028NP] 374931004845 Mg chelatase-related protein; Region: TIGR00368 374931004846 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 374931004847 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 374931004848 Walker A motif; other site 374931004849 ATP binding site [chemical binding]; other site 374931004850 Walker B motif; other site 374931004851 arginine finger; other site 374931004852 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 374931004853 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 374931004854 G1 box; other site 374931004855 GTP/Mg2+ binding site [chemical binding]; other site 374931004856 Switch I region; other site 374931004857 G2 box; other site 374931004858 G3 box; other site 374931004859 Switch II region; other site 374931004860 G4 box; other site 374931004861 G5 box; other site 374931004862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 374931004863 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 374931004864 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 374931004865 Walker A/P-loop; other site 374931004866 ATP binding site [chemical binding]; other site 374931004867 Q-loop/lid; other site 374931004868 ABC transporter signature motif; other site 374931004869 Walker B; other site 374931004870 D-loop; other site 374931004871 H-loop/switch region; other site 374931004872 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 374931004873 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 374931004874 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 374931004875 Walker A/P-loop; other site 374931004876 ATP binding site [chemical binding]; other site 374931004877 Q-loop/lid; other site 374931004878 ABC transporter signature motif; other site 374931004879 Walker B; other site 374931004880 D-loop; other site 374931004881 H-loop/switch region; other site 374931004882 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 374931004883 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 374931004884 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 374931004885 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 374931004886 dimer interface [polypeptide binding]; other site 374931004887 conserved gate region; other site 374931004888 ABC-ATPase subunit interface; other site 374931004889 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 374931004890 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 374931004891 dimer interface [polypeptide binding]; other site 374931004892 conserved gate region; other site 374931004893 putative PBP binding loops; other site 374931004894 ABC-ATPase subunit interface; other site 374931004895 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 374931004896 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 374931004897 peptide binding site [polypeptide binding]; other site 374931004898 transaldolase-like protein; Provisional; Region: PTZ00411 374931004899 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 374931004900 active site 374931004901 dimer interface [polypeptide binding]; other site 374931004902 catalytic residue [active] 374931004903 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 374931004904 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 374931004905 Carbon starvation protein CstA; Region: CstA; pfam02554 374931004906 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 374931004907 mraZ protein; Region: TIGR00242 374931004908 MraZ protein; Region: MraZ; pfam02381 374931004909 MraZ protein; Region: MraZ; pfam02381 374931004910 MraW methylase family; Region: Methyltransf_5; cl17771 374931004911 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 374931004912 MraW methylase family; Region: Methyltransf_5; cl17771 374931004913 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 374931004914 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 374931004915 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 374931004916 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 374931004917 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 374931004918 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374931004919 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374931004920 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374931004921 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 374931004922 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374931004923 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374931004924 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374931004925 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 374931004926 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 374931004927 Mg++ binding site [ion binding]; other site 374931004928 putative catalytic motif [active] 374931004929 putative substrate binding site [chemical binding]; other site 374931004930 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 374931004931 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374931004932 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374931004933 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 374931004934 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 374931004935 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 374931004936 active site 374931004937 homodimer interface [polypeptide binding]; other site 374931004938 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 374931004939 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374931004940 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374931004941 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374931004942 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 374931004943 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 374931004944 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 374931004945 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 374931004946 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 374931004947 Cell division protein FtsQ; Region: FtsQ; pfam03799 374931004948 cell division protein FtsA; Region: ftsA; TIGR01174 374931004949 Cell division protein FtsA; Region: FtsA; smart00842 374931004950 Cell division protein FtsA; Region: FtsA; pfam14450 374931004951 cell division protein FtsZ; Validated; Region: PRK09330 374931004952 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 374931004953 nucleotide binding site [chemical binding]; other site 374931004954 SulA interaction site; other site 374931004955 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 374931004956 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 374931004957 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 374931004958 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 374931004959 Prephenate dehydratase; Region: PDT; pfam00800 374931004960 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 374931004961 putative L-Phe binding site [chemical binding]; other site 374931004962 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 374931004963 active site 374931004964 phosphorylation site [posttranslational modification] 374931004965 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 374931004966 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 374931004967 Walker A/P-loop; other site 374931004968 ATP binding site [chemical binding]; other site 374931004969 Q-loop/lid; other site 374931004970 ABC transporter signature motif; other site 374931004971 Walker B; other site 374931004972 D-loop; other site 374931004973 H-loop/switch region; other site 374931004974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 374931004975 OstA-like protein; Region: OstA; cl00844 374931004976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 374931004977 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 374931004978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 374931004979 potential frameshift: common BLAST hit: gi|68249701|ref|YP_248813.1| PmbA [Haemophilus influenzae 86-028NP] 374931004980 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931004981 active site 374931004982 LysE type translocator; Region: LysE; cl00565 374931004983 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 374931004984 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 374931004985 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 374931004986 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 374931004987 FeS/SAM binding site; other site 374931004988 potential frameshift: common BLAST hit: gi|68249705|ref|YP_248817.1| transport ATP-binding protein CydC [Haemophilus influenzae] 374931004989 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 374931004990 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 374931004991 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 374931004992 Walker A/P-loop; other site 374931004993 ATP binding site [chemical binding]; other site 374931004994 Q-loop/lid; other site 374931004995 ABC transporter signature motif; other site 374931004996 Walker B; other site 374931004997 D-loop; other site 374931004998 H-loop/switch region; other site 374931004999 potential frameshift: common BLAST hit: gi|16273083|ref|NP_439316.1| thioredoxin reductase [Haemophilus influenzae Rd KW20] 374931005000 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 374931005001 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 374931005002 potential frameshift: common BLAST hit: gi|68249709|ref|YP_248821.1| ferrochelatase [Haemophilus influenzae 86-028NP] 374931005003 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 374931005004 CoenzymeA binding site [chemical binding]; other site 374931005005 subunit interaction site [polypeptide binding]; other site 374931005006 PHB binding site; other site 374931005007 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 374931005008 putative active site [active] 374931005009 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 374931005010 FAD binding domain; Region: FAD_binding_4; pfam01565 374931005011 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 374931005012 potential frameshift: common BLAST hit: gi|16273088|ref|NP_439322.1| outer membrane protein P5 [Haemophilus influenzae Rd KW20] 374931005013 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 374931005014 putative GSH binding site [chemical binding]; other site 374931005015 catalytic residues [active] 374931005016 potential frameshift: common BLAST hit: gi|68249714|ref|YP_248826.1| putative aminotransferase [Haemophilus influenzae 86-028NP] 374931005017 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 374931005018 homodimer interface [polypeptide binding]; other site 374931005019 substrate-cofactor binding pocket; other site 374931005020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931005021 catalytic residue [active] 374931005022 hypothetical protein; Provisional; Region: PRK05423 374931005023 hypothetical protein; Provisional; Region: PRK07101 374931005024 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 374931005025 substrate-cofactor binding pocket; other site 374931005026 para-aminobenzoate synthase component I; Validated; Region: PRK07093 374931005027 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 374931005028 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 374931005029 Glutamine amidotransferase class-I; Region: GATase; pfam00117 374931005030 glutamine binding [chemical binding]; other site 374931005031 catalytic triad [active] 374931005032 S-adenosylmethionine synthetase; Validated; Region: PRK05250 374931005033 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 374931005034 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 374931005035 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 374931005036 SprT homologues; Region: SprT; cl01182 374931005037 Opacity family porin protein; Region: Opacity; pfam02462 374931005038 YadA-like C-terminal region; Region: YadA; pfam03895 374931005039 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 374931005040 dimer interface [polypeptide binding]; other site 374931005041 conserved gate region; other site 374931005042 putative PBP binding loops; other site 374931005043 ABC-ATPase subunit interface; other site 374931005044 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 374931005045 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 374931005046 dimer interface [polypeptide binding]; other site 374931005047 conserved gate region; other site 374931005048 putative PBP binding loops; other site 374931005049 ABC-ATPase subunit interface; other site 374931005050 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 374931005051 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 374931005052 substrate binding pocket [chemical binding]; other site 374931005053 membrane-bound complex binding site; other site 374931005054 hinge residues; other site 374931005055 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 374931005056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931005057 Walker A/P-loop; other site 374931005058 ATP binding site [chemical binding]; other site 374931005059 Q-loop/lid; other site 374931005060 ABC transporter signature motif; other site 374931005061 Walker B; other site 374931005062 D-loop; other site 374931005063 H-loop/switch region; other site 374931005064 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 374931005065 dimer interface [polypeptide binding]; other site 374931005066 active site 374931005067 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 374931005068 active site 374931005069 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK07636 374931005070 DNA binding site [nucleotide binding] 374931005071 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 374931005072 DNA binding site [nucleotide binding] 374931005073 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 374931005074 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 374931005075 Walker A/P-loop; other site 374931005076 ATP binding site [chemical binding]; other site 374931005077 Q-loop/lid; other site 374931005078 ABC transporter signature motif; other site 374931005079 Walker B; other site 374931005080 D-loop; other site 374931005081 H-loop/switch region; other site 374931005082 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 374931005083 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 374931005084 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 374931005085 Walker A/P-loop; other site 374931005086 ATP binding site [chemical binding]; other site 374931005087 Q-loop/lid; other site 374931005088 ABC transporter signature motif; other site 374931005089 Walker B; other site 374931005090 D-loop; other site 374931005091 H-loop/switch region; other site 374931005092 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 374931005093 potential frameshift: common BLAST hit: gi|68249732|ref|YP_248844.1| dipeptide transport system permease protein [Haemophilus influenzae] 374931005094 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 374931005095 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 374931005096 dimer interface [polypeptide binding]; other site 374931005097 conserved gate region; other site 374931005098 putative PBP binding loops; other site 374931005099 ABC-ATPase subunit interface; other site 374931005100 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 374931005101 Part of AAA domain; Region: AAA_19; pfam13245 374931005102 Family description; Region: UvrD_C_2; pfam13538 374931005103 potential frameshift: common BLAST hit: gi|68249735|ref|YP_248847.1| predicted organic radical activating enzyme [Haemophilus influenzae] 374931005104 6-pyruvoyl tetrahydropterin synthase/QueD family protein; Region: 6PTHBS; TIGR00039 374931005105 active site 374931005106 potential frameshift: common BLAST hit: gi|68249737|ref|YP_248849.1| predicted PP-loop superfamily ATPase [Haemophilus influenzae] 374931005107 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 374931005108 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 374931005109 homodimer interface [polypeptide binding]; other site 374931005110 substrate-cofactor binding pocket; other site 374931005111 catalytic residue [active] 374931005112 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 374931005113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374931005114 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 374931005115 dimerization interface [polypeptide binding]; other site 374931005116 substrate binding pocket [chemical binding]; other site 374931005117 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 374931005118 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 374931005119 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 374931005120 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 374931005121 CoA-ligase; Region: Ligase_CoA; pfam00549 374931005122 potential frameshift: common BLAST hit: gi|68249743|ref|YP_248855.1| succinyl-CoA synthetase alpha chain [Haemophilus influenzae] 374931005123 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 374931005124 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 374931005125 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 374931005126 RNA binding surface [nucleotide binding]; other site 374931005127 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 374931005128 probable active site [active] 374931005129 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 374931005130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374931005131 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 374931005132 substrate binding site [chemical binding]; other site 374931005133 dimerization interface [polypeptide binding]; other site 374931005134 HemK family putative methylases; Region: hemK_fam; TIGR00536 374931005135 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 374931005136 S-adenosylmethionine binding site [chemical binding]; other site 374931005137 hypothetical protein; Provisional; Region: PRK04946 374931005138 Smr domain; Region: Smr; pfam01713 374931005139 phosphate acetyltransferase; Reviewed; Region: PRK05632 374931005140 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 374931005141 DRTGG domain; Region: DRTGG; pfam07085 374931005142 phosphate acetyltransferase; Region: pta; TIGR00651 374931005143 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 374931005144 propionate/acetate kinase; Provisional; Region: PRK12379 374931005145 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 374931005146 Colicin V production protein; Region: Colicin_V; cl00567 374931005147 amidophosphoribosyltransferase; Provisional; Region: PRK09246 374931005148 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 374931005149 active site 374931005150 tetramer interface [polypeptide binding]; other site 374931005151 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931005152 active site 374931005153 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 374931005154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 374931005155 NAD(P) binding site [chemical binding]; other site 374931005156 active site 374931005157 arginine repressor; Provisional; Region: PRK05066 374931005158 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 374931005159 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 374931005160 malate dehydrogenase; Provisional; Region: PRK05086 374931005161 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 374931005162 NAD binding site [chemical binding]; other site 374931005163 dimerization interface [polypeptide binding]; other site 374931005164 Substrate binding site [chemical binding]; other site 374931005165 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 374931005166 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 374931005167 dimer interface [polypeptide binding]; other site 374931005168 putative anticodon binding site; other site 374931005169 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 374931005170 motif 1; other site 374931005171 active site 374931005172 motif 2; other site 374931005173 motif 3; other site 374931005174 This domain is found in peptide chain release factors; Region: PCRF; smart00937 374931005175 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 374931005176 RF-1 domain; Region: RF-1; pfam00472 374931005177 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 374931005178 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 374931005179 dimerization domain [polypeptide binding]; other site 374931005180 dimer interface [polypeptide binding]; other site 374931005181 catalytic residues [active] 374931005182 potential frameshift: common BLAST hit: gi|16273133|ref|NP_439370.1| single-stranded-DNA-specific exonuclease [Haemophilus influenzae Rd] 374931005183 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 374931005184 catalytic residues [active] 374931005185 hinge region; other site 374931005186 alpha helical domain; other site 374931005187 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 374931005188 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 374931005189 potential frameshift: common BLAST hit: gi|68249763|ref|YP_248875.1| heme utilization protein [Haemophilus influenzae 86-028NP] 374931005190 potential frameshift: common BLAST hit: gi|68249763|ref|YP_248875.1| heme utilization protein [Haemophilus influenzae 86-028NP] 374931005191 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 374931005192 L-lactate transport; Region: lctP; TIGR00795 374931005193 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 374931005194 active site 374931005195 potential frameshift: common BLAST hit: gi|68249765|ref|YP_248877.1| fructose-1,6-bisphosphatase [Haemophilus influenzae 86-028NP] 374931005196 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 374931005197 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 374931005198 dimerization interface 3.5A [polypeptide binding]; other site 374931005199 active site 374931005200 conserved hypothetical integral membrane protein; Region: TIGR00698 374931005201 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 374931005202 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 374931005203 Walker A/P-loop; other site 374931005204 ATP binding site [chemical binding]; other site 374931005205 Q-loop/lid; other site 374931005206 ABC transporter signature motif; other site 374931005207 Walker B; other site 374931005208 D-loop; other site 374931005209 H-loop/switch region; other site 374931005210 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 374931005211 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 374931005212 Walker A/P-loop; other site 374931005213 ATP binding site [chemical binding]; other site 374931005214 Q-loop/lid; other site 374931005215 ABC transporter signature motif; other site 374931005216 Walker B; other site 374931005217 D-loop; other site 374931005218 H-loop/switch region; other site 374931005219 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 374931005220 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 374931005221 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 374931005222 dimer interface [polypeptide binding]; other site 374931005223 conserved gate region; other site 374931005224 putative PBP binding loops; other site 374931005225 ABC-ATPase subunit interface; other site 374931005226 potential frameshift: common BLAST hit: gi|16273528|ref|NP_439781.1| peptide ABC transporter permease protein [Haemophilus influenzae Rd] 374931005227 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 374931005228 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 374931005229 peptide binding site [polypeptide binding]; other site 374931005230 Predicted ATPase [General function prediction only]; Region: COG3106 374931005231 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 374931005232 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 374931005233 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 374931005234 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 374931005235 DNA binding site [nucleotide binding] 374931005236 domain linker motif; other site 374931005237 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 374931005238 dimerization interface [polypeptide binding]; other site 374931005239 ligand binding site [chemical binding]; other site 374931005240 similar to hypothetical protein; COG1609 Transcriptional regulators 374931005241 potential frameshift: common BLAST hit: gi|30995463|ref|NP_439776.2| 2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase 374931005242 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 374931005243 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 374931005244 GDP-binding site [chemical binding]; other site 374931005245 ACT binding site; other site 374931005246 IMP binding site; other site 374931005247 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 374931005248 substrate binding site [chemical binding]; other site 374931005249 nucleotide binding site [chemical binding]; other site 374931005250 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 374931005251 dimer interface [polypeptide binding]; other site 374931005252 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 374931005253 5S rRNA interface [nucleotide binding]; other site 374931005254 CTC domain interface [polypeptide binding]; other site 374931005255 L16 interface [polypeptide binding]; other site 374931005256 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 374931005257 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 374931005258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 374931005259 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 374931005260 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 374931005261 homotrimer interaction site [polypeptide binding]; other site 374931005262 putative active site [active] 374931005263 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 374931005264 Sel1-like repeats; Region: SEL1; smart00671 374931005265 Sel1-like repeats; Region: SEL1; smart00671 374931005266 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 374931005267 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 374931005268 DNA binding residues [nucleotide binding] 374931005269 dimer interface [polypeptide binding]; other site 374931005270 putative metal binding site [ion binding]; other site 374931005271 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 374931005272 cobalt transport protein CbiM; Validated; Region: PRK06265 374931005273 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 374931005274 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 374931005275 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 374931005276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374931005277 Walker A/P-loop; other site 374931005278 ATP binding site [chemical binding]; other site 374931005279 Q-loop/lid; other site 374931005280 ABC transporter signature motif; other site 374931005281 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 374931005282 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 374931005283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374931005284 homodimer interface [polypeptide binding]; other site 374931005285 catalytic residue [active] 374931005286 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 374931005287 ATP-grasp domain; Region: ATP-grasp; pfam02222 374931005288 AIR carboxylase; Region: AIRC; cl00310 374931005289 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 374931005290 HicB family; Region: HicB; pfam05534 374931005291 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 374931005292 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 374931005293 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 374931005294 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 374931005295 PapC N-terminal domain; Region: PapC_N; pfam13954 374931005296 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 374931005297 PapC C-terminal domain; Region: PapC_C; pfam13953 374931005298 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 374931005299 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 374931005300 aminopeptidase N; Provisional; Region: pepN; PRK14015 374931005301 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 374931005302 active site 374931005303 Zn binding site [ion binding]; other site 374931005304 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 374931005305 Lumazine binding domain; Region: Lum_binding; pfam00677 374931005306 Lumazine binding domain; Region: Lum_binding; pfam00677 374931005307 multidrug efflux protein; Reviewed; Region: PRK01766 374931005308 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 374931005309 cation binding site [ion binding]; other site 374931005310 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 374931005311 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 374931005312 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 374931005313 active site 374931005314 HIGH motif; other site 374931005315 dimer interface [polypeptide binding]; other site 374931005316 KMSKS motif; other site 374931005317 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 374931005318 RNA binding surface [nucleotide binding]; other site 374931005319 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 374931005320 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 374931005321 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374931005322 active site 374931005323 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 374931005324 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 374931005325 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 374931005326 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 374931005327 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 374931005328 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 374931005329 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 374931005330 active site 374931005331 NTP binding site [chemical binding]; other site 374931005332 metal binding triad [ion binding]; metal-binding site 374931005333 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 374931005334 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 374931005335 Zn2+ binding site [ion binding]; other site 374931005336 Mg2+ binding site [ion binding]; other site 374931005337 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 374931005338 Bacterial SH3 domain homologues; Region: SH3b; smart00287 374931005339 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 374931005340 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 374931005341 TIGR00153 family protein; Region: TIGR00153 374931005342 Predicted membrane protein [Function unknown]; Region: COG2259 374931005343 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 374931005344 Protein of unknown function (DUF692); Region: DUF692; pfam05114 374931005345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 374931005346 Uncharacterized conserved protein [Function unknown]; Region: COG3025 374931005347 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 374931005348 putative active site [active] 374931005349 putative metal binding residues [ion binding]; other site 374931005350 signature motif; other site 374931005351 putative triphosphate binding site [ion binding]; other site 374931005352 potential frameshift: common BLAST hit: gi|30995458|ref|NP_439739.2| DNA repair protein [Haemophilus influenzae Rd KW20] 374931005353 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 374931005354 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 374931005355 dimerization interface [polypeptide binding]; other site 374931005356 putative DNA binding site [nucleotide binding]; other site 374931005357 putative Zn2+ binding site [ion binding]; other site 374931005358 AsnC family; Region: AsnC_trans_reg; pfam01037 374931005359 potential frameshift: common BLAST hit: gi|68249821|ref|YP_248933.1| DNA translocase FtsK [Haemophilus influenzae 86-028NP] 374931005360 periplasmic chaperone LolA; Region: lolA; TIGR00547 374931005361 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 374931005362 recombination factor protein RarA; Reviewed; Region: PRK13342 374931005363 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 374931005364 Walker A motif; other site 374931005365 ATP binding site [chemical binding]; other site 374931005366 Walker B motif; other site 374931005367 arginine finger; other site 374931005368 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 374931005369 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 374931005370 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 374931005371 hinge; other site 374931005372 active site 374931005373 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 374931005374 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 374931005375 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 374931005376 putative active site [active] 374931005377 putative substrate binding site [chemical binding]; other site 374931005378 putative cosubstrate binding site; other site 374931005379 catalytic site [active] 374931005380 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 374931005381 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 374931005382 potential frameshift: common BLAST hit: gi|16273480|ref|NP_439731.1| isoleucyl-tRNA synthetas [Haemophilus influenzae Rd KW20] 374931005383 potential frameshift: common BLAST hit: gi|68249831|ref|YP_248943.1| acetolactate synthase III large subunit [Haemophilus influenzae] 374931005384 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 374931005385 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 374931005386 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 374931005387 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 374931005388 arginyl-tRNA synthetase; Region: argS; TIGR00456 374931005389 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 374931005390 active site 374931005391 HIGH motif; other site 374931005392 KMSK motif region; other site 374931005393 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 374931005394 tRNA binding surface [nucleotide binding]; other site 374931005395 anticodon binding site; other site