-- dump date 20140619_023245 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1208922000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1208922000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1208922000003 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 1208922000004 Walker A motif; other site 1208922000005 ATP binding site [chemical binding]; other site 1208922000006 Walker B motif; other site 1208922000007 arginine finger; other site 1208922000008 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 1208922000009 DnaA box-binding interface [nucleotide binding]; other site 1208922000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1208922000011 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 1208922000012 putative DNA binding surface [nucleotide binding]; other site 1208922000013 dimer interface [polypeptide binding]; other site 1208922000014 beta-clamp/clamp loader binding surface; other site 1208922000015 beta-clamp/translesion DNA polymerase binding surface; other site 1208922000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1208922000017 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 1208922000018 ATP binding site [chemical binding]; other site 1208922000019 Mg2+ binding site [ion binding]; other site 1208922000020 G-X-G motif; other site 1208922000021 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 1208922000022 anchoring element; other site 1208922000023 dimer interface [polypeptide binding]; other site 1208922000024 ATP binding site [chemical binding]; other site 1208922000025 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 1208922000026 active site 1208922000027 putative metal-binding site [ion binding]; other site 1208922000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1208922000029 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1208922000030 catalytic triad [active] 1208922000031 conserved cis-peptide bond; other site 1208922000032 DNA topoisomerase III; Validated; Region: PRK08173 1208922000033 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 1208922000034 active site 1208922000035 putative interdomain interaction site [polypeptide binding]; other site 1208922000036 putative metal-binding site [ion binding]; other site 1208922000037 putative nucleotide binding site [chemical binding]; other site 1208922000038 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 1208922000039 domain I; other site 1208922000040 DNA binding groove [nucleotide binding] 1208922000041 phosphate binding site [ion binding]; other site 1208922000042 domain II; other site 1208922000043 domain III; other site 1208922000044 nucleotide binding site [chemical binding]; other site 1208922000045 catalytic site [active] 1208922000046 domain IV; other site 1208922000047 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1208922000048 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1208922000049 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1208922000050 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 1208922000051 inhibitor-cofactor binding pocket; inhibition site 1208922000052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922000053 catalytic residue [active] 1208922000054 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 1208922000055 catalytic residues [active] 1208922000056 hinge region; other site 1208922000057 alpha helical domain; other site 1208922000058 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1208922000059 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1208922000060 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1208922000061 active site 1208922000062 HIGH motif; other site 1208922000063 KMSK motif region; other site 1208922000064 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1208922000065 tRNA binding surface [nucleotide binding]; other site 1208922000066 anticodon binding site; other site 1208922000067 2-isopropylmalate synthase; Validated; Region: PRK03739 1208922000068 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1208922000069 active site 1208922000070 catalytic residues [active] 1208922000071 metal binding site [ion binding]; metal-binding site 1208922000072 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1208922000073 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1208922000074 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1208922000075 G1 box; other site 1208922000076 putative GEF interaction site [polypeptide binding]; other site 1208922000077 GTP/Mg2+ binding site [chemical binding]; other site 1208922000078 Switch I region; other site 1208922000079 G2 box; other site 1208922000080 G3 box; other site 1208922000081 Switch II region; other site 1208922000082 G4 box; other site 1208922000083 G5 box; other site 1208922000084 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 1208922000085 Stringent starvation protein B; Region: SspB; cl01120 1208922000086 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1208922000087 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 1208922000088 C-terminal domain interface [polypeptide binding]; other site 1208922000089 putative GSH binding site (G-site) [chemical binding]; other site 1208922000090 dimer interface [polypeptide binding]; other site 1208922000091 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1208922000092 dimer interface [polypeptide binding]; other site 1208922000093 N-terminal domain interface [polypeptide binding]; other site 1208922000094 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1208922000095 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1208922000096 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 1208922000097 nucleotide binding site/active site [active] 1208922000098 HIT family signature motif; other site 1208922000099 catalytic residue [active] 1208922000100 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1208922000101 metal binding site [ion binding]; metal-binding site 1208922000102 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1208922000103 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1208922000104 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1208922000105 substrate binding site [chemical binding]; other site 1208922000106 glutamase interaction surface [polypeptide binding]; other site 1208922000107 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 1208922000108 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1208922000109 catalytic residues [active] 1208922000110 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1208922000111 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1208922000112 putative active site [active] 1208922000113 oxyanion strand; other site 1208922000114 catalytic triad [active] 1208922000115 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1208922000116 putative active site pocket [active] 1208922000117 4-fold oligomerization interface [polypeptide binding]; other site 1208922000118 metal binding residues [ion binding]; metal-binding site 1208922000119 3-fold/trimer interface [polypeptide binding]; other site 1208922000120 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 1208922000121 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 1208922000122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922000123 homodimer interface [polypeptide binding]; other site 1208922000124 catalytic residue [active] 1208922000125 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 1208922000126 histidinol dehydrogenase; Region: hisD; TIGR00069 1208922000127 NAD binding site [chemical binding]; other site 1208922000128 dimerization interface [polypeptide binding]; other site 1208922000129 product binding site; other site 1208922000130 substrate binding site [chemical binding]; other site 1208922000131 zinc binding site [ion binding]; other site 1208922000132 catalytic residues [active] 1208922000133 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1208922000134 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1208922000135 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1208922000136 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 1208922000137 hinge; other site 1208922000138 active site 1208922000139 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1208922000140 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1208922000141 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1208922000142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922000143 Walker A/P-loop; other site 1208922000144 ATP binding site [chemical binding]; other site 1208922000145 Q-loop/lid; other site 1208922000146 ABC transporter signature motif; other site 1208922000147 Walker B; other site 1208922000148 D-loop; other site 1208922000149 H-loop/switch region; other site 1208922000150 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1208922000151 VacJ like lipoprotein; Region: VacJ; cl01073 1208922000152 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1208922000153 mce related protein; Region: MCE; pfam02470 1208922000154 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1208922000155 Permease; Region: Permease; pfam02405 1208922000156 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1208922000157 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922000158 Walker A/P-loop; other site 1208922000159 ATP binding site [chemical binding]; other site 1208922000160 Q-loop/lid; other site 1208922000161 ABC transporter signature motif; other site 1208922000162 Walker B; other site 1208922000163 D-loop; other site 1208922000164 H-loop/switch region; other site 1208922000165 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1208922000166 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208922000167 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 1208922000168 DNA binding residues [nucleotide binding] 1208922000169 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1208922000170 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 1208922000171 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1208922000172 nudix motif; other site 1208922000173 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1208922000174 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1208922000175 Substrate binding site; other site 1208922000176 Mg++ binding site; other site 1208922000177 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 1208922000178 active site 1208922000179 substrate binding site [chemical binding]; other site 1208922000180 CoA binding site [chemical binding]; other site 1208922000181 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1208922000182 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1208922000183 glutaminase active site [active] 1208922000184 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1208922000185 dimer interface [polypeptide binding]; other site 1208922000186 active site 1208922000187 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1208922000188 dimer interface [polypeptide binding]; other site 1208922000189 active site 1208922000190 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 1208922000191 active site 1208922000192 ribulose/triose binding site [chemical binding]; other site 1208922000193 phosphate binding site [ion binding]; other site 1208922000194 substrate (anthranilate) binding pocket [chemical binding]; other site 1208922000195 product (indole) binding pocket [chemical binding]; other site 1208922000196 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1208922000197 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1208922000198 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1208922000199 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1208922000200 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1208922000201 glutamine binding [chemical binding]; other site 1208922000202 catalytic triad [active] 1208922000203 anthranilate synthase component I; Provisional; Region: PRK13565 1208922000204 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1208922000205 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1208922000206 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1208922000207 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 1208922000208 motif II; other site 1208922000209 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1208922000210 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 1208922000211 substrate binding site [chemical binding]; other site 1208922000212 hexamer interface [polypeptide binding]; other site 1208922000213 metal binding site [ion binding]; metal-binding site 1208922000214 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208922000215 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1208922000216 Dihydroneopterin aldolase; Region: FolB; pfam02152 1208922000217 active site 1208922000218 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1208922000219 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1208922000220 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1208922000221 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1208922000222 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1208922000223 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 1208922000224 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1208922000225 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1208922000226 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1208922000227 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 1208922000228 beta subunit interaction interface [polypeptide binding]; other site 1208922000229 Walker A motif; other site 1208922000230 ATP binding site [chemical binding]; other site 1208922000231 Walker B motif; other site 1208922000232 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1208922000233 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1208922000234 core domain interface [polypeptide binding]; other site 1208922000235 delta subunit interface [polypeptide binding]; other site 1208922000236 epsilon subunit interface [polypeptide binding]; other site 1208922000237 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1208922000238 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1208922000239 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 1208922000240 alpha subunit interaction interface [polypeptide binding]; other site 1208922000241 Walker A motif; other site 1208922000242 ATP binding site [chemical binding]; other site 1208922000243 Walker B motif; other site 1208922000244 inhibitor binding site; inhibition site 1208922000245 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1208922000246 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1208922000247 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1208922000248 gamma subunit interface [polypeptide binding]; other site 1208922000249 epsilon subunit interface [polypeptide binding]; other site 1208922000250 LBP interface [polypeptide binding]; other site 1208922000251 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1208922000252 substrate binding site [chemical binding]; other site 1208922000253 active site 1208922000254 primosome assembly protein PriA; Validated; Region: PRK05580 1208922000255 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 1208922000256 ATP binding site [chemical binding]; other site 1208922000257 putative Mg++ binding site [ion binding]; other site 1208922000258 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1208922000259 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1208922000260 putative substrate binding site [chemical binding]; other site 1208922000261 putative ATP binding site [chemical binding]; other site 1208922000262 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1208922000263 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1208922000264 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 1208922000265 S-adenosylmethionine binding site [chemical binding]; other site 1208922000266 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 1208922000267 ABC1 family; Region: ABC1; cl17513 1208922000268 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1208922000269 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 1208922000270 CoA-binding site [chemical binding]; other site 1208922000271 ATP-binding [chemical binding]; other site 1208922000272 hypothetical protein; Provisional; Region: PRK05287 1208922000273 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1208922000274 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 1208922000275 Walker A motif; other site 1208922000276 ATP binding site [chemical binding]; other site 1208922000277 Walker B motif; other site 1208922000278 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1208922000279 heterotetramer interface [polypeptide binding]; other site 1208922000280 active site pocket [active] 1208922000281 cleavage site 1208922000282 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1208922000283 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1208922000284 tRNA; other site 1208922000285 putative tRNA binding site [nucleotide binding]; other site 1208922000286 putative NADP binding site [chemical binding]; other site 1208922000287 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1208922000288 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1208922000289 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1208922000290 RF-1 domain; Region: RF-1; pfam00472 1208922000291 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1208922000292 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 1208922000293 S-adenosylmethionine binding site [chemical binding]; other site 1208922000294 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 1208922000295 putative GSH binding site [chemical binding]; other site 1208922000296 catalytic residues [active] 1208922000297 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1208922000298 Flavoprotein; Region: Flavoprotein; pfam02441 1208922000299 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_cladeB; cd00884 1208922000300 active site clefts [active] 1208922000301 zinc binding site [ion binding]; other site 1208922000302 dimer interface [polypeptide binding]; other site 1208922000303 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1208922000304 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1208922000305 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1208922000306 Ligand Binding Site [chemical binding]; other site 1208922000307 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1208922000308 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1208922000309 heat shock protein 90; Provisional; Region: PRK05218 1208922000310 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 1208922000311 ATP binding site [chemical binding]; other site 1208922000312 Mg2+ binding site [ion binding]; other site 1208922000313 G-X-G motif; other site 1208922000314 signal recognition particle protein; Provisional; Region: PRK10867 1208922000315 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1208922000316 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 1208922000317 P loop; other site 1208922000318 GTP binding site [chemical binding]; other site 1208922000319 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1208922000320 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1208922000321 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1208922000322 tetramer interface [polypeptide binding]; other site 1208922000323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922000324 catalytic residue [active] 1208922000325 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1208922000326 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208922000327 active site 1208922000328 nucleotide binding site [chemical binding]; other site 1208922000329 HIGH motif; other site 1208922000330 KMSKS motif; other site 1208922000331 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1208922000332 tRNA binding surface [nucleotide binding]; other site 1208922000333 anticodon binding site; other site 1208922000334 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 1208922000335 dimer interface [polypeptide binding]; other site 1208922000336 putative tRNA-binding site [nucleotide binding]; other site 1208922000337 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 1208922000338 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1208922000339 Surface antigen; Region: Bac_surface_Ag; pfam01103 1208922000340 Family of unknown function (DUF490); Region: DUF490; pfam04357 1208922000341 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1208922000342 trimer interface [polypeptide binding]; other site 1208922000343 active site 1208922000344 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1208922000345 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1208922000346 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 1208922000347 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208922000348 catalytic residue [active] 1208922000349 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1208922000350 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1208922000351 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 1208922000352 folate binding site [chemical binding]; other site 1208922000353 NADP+ binding site [chemical binding]; other site 1208922000354 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1208922000355 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 1208922000356 dimerization interface [polypeptide binding]; other site 1208922000357 active site 1208922000358 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1208922000359 diiron binding motif [ion binding]; other site 1208922000360 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208922000361 FAD binding domain; Region: FAD_binding_4; pfam01565 1208922000362 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1208922000363 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1208922000364 DNA binding site [nucleotide binding] 1208922000365 catalytic residue [active] 1208922000366 H2TH interface [polypeptide binding]; other site 1208922000367 putative catalytic residues [active] 1208922000368 turnover-facilitating residue; other site 1208922000369 intercalation triad [nucleotide binding]; other site 1208922000370 8OG recognition residue [nucleotide binding]; other site 1208922000371 putative reading head residues; other site 1208922000372 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1208922000373 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1208922000374 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1208922000375 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1208922000376 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1208922000377 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1208922000378 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1208922000379 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208922000380 active site 1208922000381 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1208922000382 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1208922000383 5S rRNA interface [nucleotide binding]; other site 1208922000384 CTC domain interface [polypeptide binding]; other site 1208922000385 L16 interface [polypeptide binding]; other site 1208922000386 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 1208922000387 putative active site [active] 1208922000388 catalytic residue [active] 1208922000389 GTP-binding protein YchF; Reviewed; Region: PRK09601 1208922000390 YchF GTPase; Region: YchF; cd01900 1208922000391 G1 box; other site 1208922000392 GTP/Mg2+ binding site [chemical binding]; other site 1208922000393 Switch I region; other site 1208922000394 G2 box; other site 1208922000395 Switch II region; other site 1208922000396 G3 box; other site 1208922000397 G4 box; other site 1208922000398 G5 box; other site 1208922000399 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 1208922000400 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1208922000401 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1208922000402 active site 1208922000403 (T/H)XGH motif; other site 1208922000404 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1208922000405 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 1208922000406 ring oligomerisation interface [polypeptide binding]; other site 1208922000407 ATP/Mg binding site [chemical binding]; other site 1208922000408 stacking interactions; other site 1208922000409 hinge regions; other site 1208922000410 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 1208922000411 oligomerisation interface [polypeptide binding]; other site 1208922000412 mobile loop; other site 1208922000413 roof hairpin; other site 1208922000414 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1208922000415 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1208922000416 SurA N-terminal domain; Region: SurA_N; pfam09312 1208922000417 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208922000418 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208922000419 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1208922000420 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1208922000421 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1208922000422 MgtE intracellular N domain; Region: MgtE_N; smart00924 1208922000423 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1208922000424 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1208922000425 Divalent cation transporter; Region: MgtE; cl00786 1208922000426 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1208922000427 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1208922000428 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 1208922000429 active site 1208922000430 dimerization interface [polypeptide binding]; other site 1208922000431 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208922000432 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 1208922000433 Transporter associated domain; Region: CorC_HlyC; smart01091 1208922000434 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 1208922000435 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1208922000436 PhoH-like protein; Region: PhoH; pfam02562 1208922000437 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1208922000438 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1208922000439 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 1208922000440 FeS/SAM binding site; other site 1208922000441 TRAM domain; Region: TRAM; pfam01938 1208922000442 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1208922000443 Protein export membrane protein; Region: SecD_SecF; pfam02355 1208922000444 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 1208922000445 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1208922000446 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1208922000447 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1208922000448 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1208922000449 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1208922000450 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1208922000451 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1208922000452 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1208922000453 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1208922000454 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1208922000455 RNA methyltransferase, RsmE family; Region: TIGR00046 1208922000456 transketolase; Reviewed; Region: PRK12753 1208922000457 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 1208922000458 TPP-binding site [chemical binding]; other site 1208922000459 dimer interface [polypeptide binding]; other site 1208922000460 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 1208922000461 PYR/PP interface [polypeptide binding]; other site 1208922000462 dimer interface [polypeptide binding]; other site 1208922000463 TPP binding site [chemical binding]; other site 1208922000464 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1208922000465 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1208922000466 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1208922000467 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1208922000468 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1208922000469 Phosphoglycerate kinase; Region: PGK; pfam00162 1208922000470 substrate binding site [chemical binding]; other site 1208922000471 hinge regions; other site 1208922000472 ADP binding site [chemical binding]; other site 1208922000473 catalytic site [active] 1208922000474 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1208922000475 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1208922000476 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1208922000477 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1208922000478 intersubunit interface [polypeptide binding]; other site 1208922000479 active site 1208922000480 zinc binding site [ion binding]; other site 1208922000481 Na+ binding site [ion binding]; other site 1208922000482 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1208922000483 ATP binding site [chemical binding]; other site 1208922000484 active site 1208922000485 substrate binding site [chemical binding]; other site 1208922000486 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1208922000487 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1208922000488 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208922000489 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1208922000490 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1208922000491 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1208922000492 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 1208922000493 active site 1208922000494 DNA binding site [nucleotide binding] 1208922000495 Int/Topo IB signature motif; other site 1208922000496 probable DNA repair protein; Region: TIGR03623 1208922000497 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1208922000498 Part of AAA domain; Region: AAA_19; pfam13245 1208922000499 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1208922000500 Family description; Region: UvrD_C_2; pfam13538 1208922000501 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 1208922000502 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 1208922000503 Walker A motif; other site 1208922000504 ATP binding site [chemical binding]; other site 1208922000505 Walker B motif; other site 1208922000506 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1208922000507 arginine finger; other site 1208922000508 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1208922000509 hypothetical protein; Validated; Region: PRK00153 1208922000510 recombination protein RecR; Reviewed; Region: recR; PRK00076 1208922000511 RecR protein; Region: RecR; pfam02132 1208922000512 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 1208922000513 putative active site [active] 1208922000514 putative metal-binding site [ion binding]; other site 1208922000515 tetramer interface [polypeptide binding]; other site 1208922000516 transaldolase-like protein; Provisional; Region: PTZ00411 1208922000517 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1208922000518 active site 1208922000519 dimer interface [polypeptide binding]; other site 1208922000520 catalytic residue [active] 1208922000521 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1208922000522 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1208922000523 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1208922000524 catalytic site [active] 1208922000525 subunit interface [polypeptide binding]; other site 1208922000526 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1208922000527 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208922000528 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1208922000529 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1208922000530 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208922000531 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208922000532 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1208922000533 IMP binding site; other site 1208922000534 dimer interface [polypeptide binding]; other site 1208922000535 interdomain contacts; other site 1208922000536 partial ornithine binding site; other site 1208922000537 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1208922000538 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1208922000539 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1208922000540 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1208922000541 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1208922000542 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 1208922000543 S-adenosylmethionine binding site [chemical binding]; other site 1208922000544 FtsH Extracellular; Region: FtsH_ext; pfam06480 1208922000545 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1208922000546 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 1208922000547 Walker A motif; other site 1208922000548 ATP binding site [chemical binding]; other site 1208922000549 Walker B motif; other site 1208922000550 arginine finger; other site 1208922000551 Peptidase family M41; Region: Peptidase_M41; pfam01434 1208922000552 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 1208922000553 dihydropteroate synthase; Region: DHPS; TIGR01496 1208922000554 substrate binding pocket [chemical binding]; other site 1208922000555 dimer interface [polypeptide binding]; other site 1208922000556 inhibitor binding site; inhibition site 1208922000557 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1208922000558 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1208922000559 active site 1208922000560 substrate binding site [chemical binding]; other site 1208922000561 metal binding site [ion binding]; metal-binding site 1208922000562 polyphosphate kinase; Provisional; Region: PRK05443 1208922000563 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1208922000564 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1208922000565 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1208922000566 putative active site [active] 1208922000567 catalytic site [active] 1208922000568 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1208922000569 putative active site [active] 1208922000570 catalytic site [active] 1208922000571 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1208922000572 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1208922000573 dimer interface [polypeptide binding]; other site 1208922000574 active site 1208922000575 catalytic residue [active] 1208922000576 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1208922000577 MutS domain I; Region: MutS_I; pfam01624 1208922000578 MutS domain II; Region: MutS_II; pfam05188 1208922000579 MutS domain III; Region: MutS_III; pfam05192 1208922000580 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1208922000581 Walker A/P-loop; other site 1208922000582 ATP binding site [chemical binding]; other site 1208922000583 Q-loop/lid; other site 1208922000584 ABC transporter signature motif; other site 1208922000585 Walker B; other site 1208922000586 D-loop; other site 1208922000587 H-loop/switch region; other site 1208922000588 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1208922000589 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1208922000590 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 1208922000591 active site 1208922000592 dimerization interface [polypeptide binding]; other site 1208922000593 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1208922000594 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1208922000595 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 1208922000596 Transporter associated domain; Region: CorC_HlyC; pfam03471 1208922000597 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1208922000598 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1208922000599 putative active site [active] 1208922000600 putative metal binding site [ion binding]; other site 1208922000601 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 1208922000602 active site 1208922000603 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 1208922000604 TPR motif; other site 1208922000605 binding surface 1208922000606 TPR repeat; Region: TPR_11; pfam13414 1208922000607 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1208922000608 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208922000609 active site 1208922000610 HIGH motif; other site 1208922000611 nucleotide binding site [chemical binding]; other site 1208922000612 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1208922000613 KMSKS motif; other site 1208922000614 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1208922000615 tRNA binding surface [nucleotide binding]; other site 1208922000616 anticodon binding site; other site 1208922000617 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208922000618 endonuclease III; Region: ENDO3c; smart00478 1208922000619 minor groove reading motif; other site 1208922000620 helix-hairpin-helix signature motif; other site 1208922000621 substrate binding pocket [chemical binding]; other site 1208922000622 active site 1208922000623 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1208922000624 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1208922000625 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 1208922000626 Ligand Binding Site [chemical binding]; other site 1208922000627 TilS substrate binding domain; Region: TilS; pfam09179 1208922000628 aspartate kinase; Reviewed; Region: PRK06635 1208922000629 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1208922000630 putative nucleotide binding site [chemical binding]; other site 1208922000631 putative catalytic residues [active] 1208922000632 putative Mg ion binding site [ion binding]; other site 1208922000633 putative aspartate binding site [chemical binding]; other site 1208922000634 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1208922000635 putative allosteric regulatory site; other site 1208922000636 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1208922000637 putative allosteric regulatory residue; other site 1208922000638 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 1208922000639 elongation factor P; Validated; Region: PRK00529 1208922000640 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1208922000641 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 1208922000642 RNA binding site [nucleotide binding]; other site 1208922000643 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 1208922000644 RNA binding site [nucleotide binding]; other site 1208922000645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1208922000646 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1208922000647 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1208922000648 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1208922000649 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1208922000650 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1208922000651 HIGH motif; other site 1208922000652 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1208922000653 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208922000654 active site 1208922000655 KMSKS motif; other site 1208922000656 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1208922000657 tRNA binding surface [nucleotide binding]; other site 1208922000658 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1208922000659 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1208922000660 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1208922000661 active site 1208922000662 hydrophilic channel; other site 1208922000663 dimerization interface [polypeptide binding]; other site 1208922000664 catalytic residues [active] 1208922000665 active site lid [active] 1208922000666 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1208922000667 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1208922000668 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1208922000669 GIY-YIG motif/motif A; other site 1208922000670 active site 1208922000671 catalytic site [active] 1208922000672 putative DNA binding site [nucleotide binding]; other site 1208922000673 metal binding site [ion binding]; metal-binding site 1208922000674 UvrB/uvrC motif; Region: UVR; pfam02151 1208922000675 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1208922000676 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1208922000677 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 1208922000678 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208922000679 putative substrate translocation pore; other site 1208922000680 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1208922000681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1208922000682 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1208922000683 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1208922000684 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 1208922000685 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208922000686 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1208922000687 Clp amino terminal domain; Region: Clp_N; pfam02861 1208922000688 Clp amino terminal domain; Region: Clp_N; pfam02861 1208922000689 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 1208922000690 Walker A motif; other site 1208922000691 ATP binding site [chemical binding]; other site 1208922000692 Walker B motif; other site 1208922000693 arginine finger; other site 1208922000694 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 1208922000695 Walker A motif; other site 1208922000696 ATP binding site [chemical binding]; other site 1208922000697 Walker B motif; other site 1208922000698 arginine finger; other site 1208922000699 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1208922000700 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1208922000701 substrate binding pocket [chemical binding]; other site 1208922000702 substrate-Mg2+ binding site; other site 1208922000703 aspartate-rich region 1; other site 1208922000704 aspartate-rich region 2; other site 1208922000705 DNA repair protein RadA; Provisional; Region: PRK11823 1208922000706 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 1208922000707 Walker A motif; other site 1208922000708 ATP binding site [chemical binding]; other site 1208922000709 Walker B motif; other site 1208922000710 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1208922000711 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208922000712 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208922000713 RmuC family; Region: RmuC; pfam02646 1208922000714 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 1208922000715 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1208922000716 active site 1208922000717 dimer interface [polypeptide binding]; other site 1208922000718 oxidative damage protection protein; Provisional; Region: PRK05408 1208922000719 N-acetylglutamate synthase; Validated; Region: PRK05279 1208922000720 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1208922000721 putative feedback inhibition sensing region; other site 1208922000722 putative nucleotide binding site [chemical binding]; other site 1208922000723 putative substrate binding site [chemical binding]; other site 1208922000724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208922000725 Coenzyme A binding pocket [chemical binding]; other site 1208922000726 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1208922000727 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1208922000728 putative active site [active] 1208922000729 putative PHP Thumb interface [polypeptide binding]; other site 1208922000730 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 1208922000731 generic binding surface II; other site 1208922000732 generic binding surface I; other site 1208922000733 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1208922000734 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208922000735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922000736 Walker A/P-loop; other site 1208922000737 ATP binding site [chemical binding]; other site 1208922000738 Q-loop/lid; other site 1208922000739 ABC transporter signature motif; other site 1208922000740 Walker B; other site 1208922000741 D-loop; other site 1208922000742 H-loop/switch region; other site 1208922000743 ribonuclease G; Provisional; Region: PRK11712 1208922000744 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 1208922000745 homodimer interface [polypeptide binding]; other site 1208922000746 oligonucleotide binding site [chemical binding]; other site 1208922000747 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1208922000748 Oligomerisation domain; Region: Oligomerisation; pfam02410 1208922000749 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1208922000750 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1208922000751 active site 1208922000752 (T/H)XGH motif; other site 1208922000753 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1208922000754 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1208922000755 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1208922000756 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1208922000757 hypothetical protein; Validated; Region: PRK00110 1208922000758 aspartate carbamoyltransferase; Provisional; Region: PRK11891 1208922000759 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1208922000760 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1208922000761 recombinase A; Provisional; Region: recA; PRK09354 1208922000762 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 1208922000763 hexamer interface [polypeptide binding]; other site 1208922000764 Walker A motif; other site 1208922000765 ATP binding site [chemical binding]; other site 1208922000766 Walker B motif; other site 1208922000767 RecX family; Region: RecX; cl00936 1208922000768 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1208922000769 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1208922000770 CoA-ligase; Region: Ligase_CoA; pfam00549 1208922000771 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1208922000772 CoA binding domain; Region: CoA_binding; smart00881 1208922000773 CoA-ligase; Region: Ligase_CoA; pfam00549 1208922000774 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1208922000775 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1208922000776 domain interfaces; other site 1208922000777 active site 1208922000778 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1208922000779 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1208922000780 active site 1208922000781 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1208922000782 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 1208922000783 dimer interface [polypeptide binding]; other site 1208922000784 substrate binding site [chemical binding]; other site 1208922000785 metal binding sites [ion binding]; metal-binding site 1208922000786 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1208922000787 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 1208922000788 FMN binding site [chemical binding]; other site 1208922000789 active site 1208922000790 catalytic residues [active] 1208922000791 substrate binding site [chemical binding]; other site 1208922000792 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1208922000793 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1208922000794 Tetramer interface [polypeptide binding]; other site 1208922000795 active site 1208922000796 FMN-binding site [chemical binding]; other site 1208922000797 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1208922000798 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1208922000799 substrate binding site [chemical binding]; other site 1208922000800 ligand binding site [chemical binding]; other site 1208922000801 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1208922000802 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 1208922000803 substrate binding site [chemical binding]; other site 1208922000804 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1208922000805 tartrate dehydrogenase; Region: TTC; TIGR02089 1208922000806 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1208922000807 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1208922000808 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1208922000809 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1208922000810 dimerization interface 3.5A [polypeptide binding]; other site 1208922000811 active site 1208922000812 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 1208922000813 active site 1208922000814 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1208922000815 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1208922000816 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 1208922000817 active site 1208922000818 dimer interface [polypeptide binding]; other site 1208922000819 motif 1; other site 1208922000820 motif 2; other site 1208922000821 motif 3; other site 1208922000822 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 1208922000823 anticodon binding site; other site 1208922000824 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1208922000825 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1208922000826 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1208922000827 glutathione synthetase; Provisional; Region: PRK05246 1208922000828 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1208922000829 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1208922000830 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 1208922000831 dimerization domain swap beta strand [polypeptide binding]; other site 1208922000832 regulatory protein interface [polypeptide binding]; other site 1208922000833 active site 1208922000834 regulatory phosphorylation site [posttranslational modification]; other site 1208922000835 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1208922000836 trimer interface [polypeptide binding]; other site 1208922000837 active site 1208922000838 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1208922000839 Flavoprotein; Region: Flavoprotein; pfam02441 1208922000840 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1208922000841 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1208922000842 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1208922000843 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208922000844 active site 1208922000845 HIGH motif; other site 1208922000846 nucleotide binding site [chemical binding]; other site 1208922000847 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1208922000848 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1208922000849 active site 1208922000850 KMSKS motif; other site 1208922000851 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1208922000852 tRNA binding surface [nucleotide binding]; other site 1208922000853 anticodon binding site; other site 1208922000854 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1208922000855 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1208922000856 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1208922000857 active site 1208922000858 Riboflavin kinase; Region: Flavokinase; smart00904 1208922000859 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1208922000860 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1208922000861 active site 1208922000862 substrate binding site [chemical binding]; other site 1208922000863 cosubstrate binding site; other site 1208922000864 catalytic site [active] 1208922000865 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1208922000866 Part of AAA domain; Region: AAA_19; pfam13245 1208922000867 Family description; Region: UvrD_C_2; pfam13538 1208922000868 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 1208922000869 S-adenosylmethionine binding site [chemical binding]; other site 1208922000870 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1208922000871 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1208922000872 metal binding site [ion binding]; metal-binding site 1208922000873 dimer interface [polypeptide binding]; other site 1208922000874 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1208922000875 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1208922000876 trimer interface [polypeptide binding]; other site 1208922000877 active site 1208922000878 substrate binding site [chemical binding]; other site 1208922000879 CoA binding site [chemical binding]; other site 1208922000880 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1208922000881 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 1208922000882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922000883 homodimer interface [polypeptide binding]; other site 1208922000884 catalytic residue [active] 1208922000885 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 1208922000886 DNA-binding site [nucleotide binding]; DNA binding site 1208922000887 RNA-binding motif; other site 1208922000888 trigger factor; Provisional; Region: tig; PRK01490 1208922000889 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1208922000890 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1208922000891 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1208922000892 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1208922000893 oligomer interface [polypeptide binding]; other site 1208922000894 active site residues [active] 1208922000895 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1208922000896 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1208922000897 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1208922000898 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 1208922000899 Walker A motif; other site 1208922000900 ATP binding site [chemical binding]; other site 1208922000901 Walker B motif; other site 1208922000902 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1208922000903 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1208922000904 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1208922000905 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 1208922000906 Walker A motif; other site 1208922000907 ATP binding site [chemical binding]; other site 1208922000908 Walker B motif; other site 1208922000909 arginine finger; other site 1208922000910 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1208922000911 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1208922000912 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 1208922000913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922000914 homodimer interface [polypeptide binding]; other site 1208922000915 catalytic residue [active] 1208922000916 excinuclease ABC subunit B; Provisional; Region: PRK05298 1208922000917 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 1208922000918 ATP binding site [chemical binding]; other site 1208922000919 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 1208922000920 nucleotide binding region [chemical binding]; other site 1208922000921 ATP-binding site [chemical binding]; other site 1208922000922 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1208922000923 UvrB/uvrC motif; Region: UVR; pfam02151 1208922000924 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1208922000925 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1208922000926 active site 1208922000927 Transcriptional regulator; Region: Rrf2; cl17282 1208922000928 Rrf2 family protein; Region: rrf2_super; TIGR00738 1208922000929 cysteine desulfurase; Provisional; Region: PRK14012 1208922000930 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1208922000931 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208922000932 catalytic residue [active] 1208922000933 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1208922000934 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1208922000935 trimerization site [polypeptide binding]; other site 1208922000936 active site 1208922000937 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1208922000938 co-chaperone HscB; Provisional; Region: hscB; PRK03578 1208922000939 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 1208922000940 HSP70 interaction site [polypeptide binding]; other site 1208922000941 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1208922000942 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1208922000943 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1208922000944 nucleotide binding site [chemical binding]; other site 1208922000945 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1208922000946 SBD interface [polypeptide binding]; other site 1208922000947 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208922000948 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 1208922000949 catalytic loop [active] 1208922000950 iron binding site [ion binding]; other site 1208922000951 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1208922000952 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 1208922000953 dimer interface [polypeptide binding]; other site 1208922000954 putative anticodon binding site; other site 1208922000955 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 1208922000956 motif 1; other site 1208922000957 active site 1208922000958 motif 2; other site 1208922000959 motif 3; other site 1208922000960 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1208922000961 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1208922000962 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1208922000963 active site 1208922000964 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 1208922000965 nucleoside/Zn binding site; other site 1208922000966 dimer interface [polypeptide binding]; other site 1208922000967 catalytic motif [active] 1208922000968 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1208922000969 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 1208922000970 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208922000971 catalytic residues [active] 1208922000972 UGMP family protein; Validated; Region: PRK09604 1208922000973 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1208922000974 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1208922000975 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1208922000976 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1208922000977 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208922000978 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208922000979 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1208922000980 active site 1208922000981 catalytic site [active] 1208922000982 substrate binding site [chemical binding]; other site 1208922000983 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1208922000984 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1208922000985 TRAM domain; Region: TRAM; pfam01938 1208922000986 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 1208922000987 S-adenosylmethionine binding site [chemical binding]; other site 1208922000988 SurA N-terminal domain; Region: SurA_N_3; cl07813 1208922000989 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1208922000990 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1208922000991 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 1208922000992 S-adenosylmethionine binding site [chemical binding]; other site 1208922000993 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1208922000994 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1208922000995 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 1208922000996 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1208922000997 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1208922000998 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; cl00522 1208922000999 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 1208922001000 homopentamer interface [polypeptide binding]; other site 1208922001001 active site 1208922001002 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1208922001003 putative RNA binding site [nucleotide binding]; other site 1208922001004 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1208922001005 tetramer interfaces [polypeptide binding]; other site 1208922001006 binuclear metal-binding site [ion binding]; other site 1208922001007 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 1208922001008 active site 1208922001009 dimer interface [polypeptide binding]; other site 1208922001010 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1208922001011 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208922001012 Zn2+ binding site [ion binding]; other site 1208922001013 Mg2+ binding site [ion binding]; other site 1208922001014 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1208922001015 synthetase active site [active] 1208922001016 metal binding site [ion binding]; metal-binding site 1208922001017 NTP binding site [chemical binding]; other site 1208922001018 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 1208922001019 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1208922001020 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1208922001021 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 1208922001022 catalytic site [active] 1208922001023 G-X2-G-X-G-K; other site 1208922001024 AMP nucleosidase; Provisional; Region: PRK08292 1208922001025 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1208922001026 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1208922001027 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 1208922001028 putative catalytic site [active] 1208922001029 putative phosphate binding site [ion binding]; other site 1208922001030 active site 1208922001031 metal binding site A [ion binding]; metal-binding site 1208922001032 DNA binding site [nucleotide binding] 1208922001033 putative AP binding site [nucleotide binding]; other site 1208922001034 putative metal binding site B [ion binding]; other site 1208922001035 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1208922001036 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1208922001037 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1208922001038 adenylate kinase; Reviewed; Region: adk; PRK00279 1208922001039 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 1208922001040 AMP-binding site [chemical binding]; other site 1208922001041 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1208922001042 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1208922001043 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1208922001044 Ligand binding site; other site 1208922001045 oligomer interface; other site 1208922001046 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1208922001047 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 1208922001048 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1208922001049 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1208922001050 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 1208922001051 generic binding surface II; other site 1208922001052 generic binding surface I; other site 1208922001053 superoxide dismutase; Provisional; Region: PRK10543 1208922001054 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1208922001055 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1208922001056 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 1208922001057 DNA-binding site [nucleotide binding]; DNA binding site 1208922001058 RNA-binding motif; other site 1208922001059 Membrane fusogenic activity; Region: BMFP; pfam04380 1208922001060 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1208922001061 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1208922001062 23S rRNA binding site [nucleotide binding]; other site 1208922001063 L21 binding site [polypeptide binding]; other site 1208922001064 L13 binding site [polypeptide binding]; other site 1208922001065 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1208922001066 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1208922001067 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 1208922001068 dimer interface [polypeptide binding]; other site 1208922001069 motif 1; other site 1208922001070 active site 1208922001071 motif 2; other site 1208922001072 motif 3; other site 1208922001073 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1208922001074 B3/4 domain; Region: B3_4; pfam03483 1208922001075 tRNA synthetase B5 domain; Region: B5; smart00874 1208922001076 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 1208922001077 dimer interface [polypeptide binding]; other site 1208922001078 motif 1; other site 1208922001079 motif 3; other site 1208922001080 motif 2; other site 1208922001081 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1208922001082 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 1208922001083 IHF dimer interface [polypeptide binding]; other site 1208922001084 IHF - DNA interface [nucleotide binding]; other site 1208922001085 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1208922001086 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1208922001087 DNA binding residues [nucleotide binding] 1208922001088 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1208922001089 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1208922001090 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1208922001091 homodimer interface [polypeptide binding]; other site 1208922001092 NADP binding site [chemical binding]; other site 1208922001093 substrate binding site [chemical binding]; other site 1208922001094 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1208922001095 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 1208922001096 dimer interface [polypeptide binding]; other site 1208922001097 TPP-binding site [chemical binding]; other site 1208922001098 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1208922001099 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1208922001100 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 1208922001101 E3 interaction surface; other site 1208922001102 lipoyl attachment site [posttranslational modification]; other site 1208922001103 e3 binding domain; Region: E3_binding; pfam02817 1208922001104 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1208922001105 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 1208922001106 E3 interaction surface; other site 1208922001107 lipoyl attachment site [posttranslational modification]; other site 1208922001108 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1208922001109 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208922001110 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208922001111 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1208922001112 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1208922001113 NAD synthetase; Provisional; Region: PRK13981 1208922001114 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1208922001115 multimer interface [polypeptide binding]; other site 1208922001116 active site 1208922001117 catalytic triad [active] 1208922001118 protein interface 1 [polypeptide binding]; other site 1208922001119 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1208922001120 homodimer interface [polypeptide binding]; other site 1208922001121 NAD binding pocket [chemical binding]; other site 1208922001122 ATP binding pocket [chemical binding]; other site 1208922001123 Mg binding site [ion binding]; other site 1208922001124 active-site loop [active] 1208922001125 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1208922001126 DHH family; Region: DHH; pfam01368 1208922001127 DHHA1 domain; Region: DHHA1; pfam02272 1208922001128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1208922001129 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1208922001130 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1208922001131 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1208922001132 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1208922001133 Walker A/P-loop; other site 1208922001134 ATP binding site [chemical binding]; other site 1208922001135 Q-loop/lid; other site 1208922001136 ABC transporter signature motif; other site 1208922001137 Walker B; other site 1208922001138 D-loop; other site 1208922001139 H-loop/switch region; other site 1208922001140 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1208922001141 active site 1208922001142 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1208922001143 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1208922001144 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 1208922001145 dimerization interface [polypeptide binding]; other site 1208922001146 ATP binding site [chemical binding]; other site 1208922001147 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 1208922001148 dimerization interface [polypeptide binding]; other site 1208922001149 ATP binding site [chemical binding]; other site 1208922001150 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1208922001151 putative active site [active] 1208922001152 catalytic triad [active] 1208922001153 ribonuclease PH; Reviewed; Region: rph; PRK00173 1208922001154 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1208922001155 hexamer interface [polypeptide binding]; other site 1208922001156 active site 1208922001157 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1208922001158 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208922001159 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208922001160 Colicin V production protein; Region: Colicin_V; pfam02674 1208922001161 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1208922001162 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 1208922001163 active site 1208922001164 tetramer interface [polypeptide binding]; other site 1208922001165 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208922001166 active site 1208922001167 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1208922001168 MarC family integral membrane protein; Region: MarC; cl00919 1208922001169 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 1208922001170 active site 1208922001171 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 1208922001172 rRNA interaction site [nucleotide binding]; other site 1208922001173 S8 interaction site; other site 1208922001174 putative laminin-1 binding site; other site 1208922001175 elongation factor Ts; Provisional; Region: tsf; PRK09377 1208922001176 UBA/TS-N domain; Region: UBA; pfam00627 1208922001177 Elongation factor TS; Region: EF_TS; pfam00889 1208922001178 Elongation factor TS; Region: EF_TS; pfam00889 1208922001179 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 1208922001180 putative nucleotide binding site [chemical binding]; other site 1208922001181 uridine monophosphate binding site [chemical binding]; other site 1208922001182 homohexameric interface [polypeptide binding]; other site 1208922001183 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1208922001184 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 1208922001185 hinge region; other site 1208922001186 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1208922001187 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1208922001188 catalytic residue [active] 1208922001189 putative FPP diphosphate binding site; other site 1208922001190 putative FPP binding hydrophobic cleft; other site 1208922001191 dimer interface [polypeptide binding]; other site 1208922001192 putative IPP diphosphate binding site; other site 1208922001193 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1208922001194 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1208922001195 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1208922001196 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1208922001197 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1208922001198 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1208922001199 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1208922001200 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208922001201 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208922001202 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208922001203 Surface antigen; Region: Bac_surface_Ag; pfam01103 1208922001204 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1208922001205 periplasmic chaperone; Provisional; Region: PRK10780 1208922001206 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 1208922001207 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1208922001208 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 1208922001209 trimer interface [polypeptide binding]; other site 1208922001210 active site 1208922001211 UDP-GlcNAc binding site [chemical binding]; other site 1208922001212 lipid binding site [chemical binding]; lipid-binding site 1208922001213 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 1208922001214 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1208922001215 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1208922001216 active site 1208922001217 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1208922001218 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1208922001219 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1208922001220 RNA/DNA hybrid binding site [nucleotide binding]; other site 1208922001221 active site 1208922001222 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1208922001223 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1208922001224 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1208922001225 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1208922001226 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1208922001227 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 1208922001228 SmpB-tmRNA interface; other site 1208922001229 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1208922001230 putative coenzyme Q binding site [chemical binding]; other site 1208922001231 hypothetical protein; Validated; Region: PRK01777 1208922001232 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1208922001233 YceG-like family; Region: YceG; pfam02618 1208922001234 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1208922001235 dimerization interface [polypeptide binding]; other site 1208922001236 thymidylate kinase; Validated; Region: tmk; PRK00698 1208922001237 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 1208922001238 TMP-binding site; other site 1208922001239 ATP-binding site [chemical binding]; other site 1208922001240 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1208922001241 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1208922001242 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1208922001243 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1208922001244 active site 1208922001245 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1208922001246 GMP synthase; Reviewed; Region: guaA; PRK00074 1208922001247 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1208922001248 AMP/PPi binding site [chemical binding]; other site 1208922001249 candidate oxyanion hole; other site 1208922001250 catalytic triad [active] 1208922001251 potential glutamine specificity residues [chemical binding]; other site 1208922001252 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 1208922001253 ATP Binding subdomain [chemical binding]; other site 1208922001254 Ligand Binding sites [chemical binding]; other site 1208922001255 Dimerization subdomain; other site 1208922001256 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1208922001257 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 1208922001258 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 1208922001259 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 1208922001260 active site 1208922001261 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1208922001262 carbon starvation protein A; Provisional; Region: PRK15015 1208922001263 Carbon starvation protein CstA; Region: CstA; pfam02554 1208922001264 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1208922001265 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1208922001266 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 1208922001267 ssDNA binding site; other site 1208922001268 generic binding surface II; other site 1208922001269 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 1208922001270 ATP binding site [chemical binding]; other site 1208922001271 putative Mg++ binding site [ion binding]; other site 1208922001272 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 1208922001273 nucleotide binding region [chemical binding]; other site 1208922001274 ATP-binding site [chemical binding]; other site 1208922001275 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 1208922001276 homotrimer interaction site [polypeptide binding]; other site 1208922001277 putative active site [active] 1208922001278 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1208922001279 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1208922001280 FAD binding pocket [chemical binding]; other site 1208922001281 FAD binding motif [chemical binding]; other site 1208922001282 phosphate binding motif [ion binding]; other site 1208922001283 beta-alpha-beta structure motif; other site 1208922001284 NAD binding pocket [chemical binding]; other site 1208922001285 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1208922001286 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 1208922001287 FeS/SAM binding site; other site 1208922001288 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 1208922001289 active site 1208922001290 dimerization interface [polypeptide binding]; other site 1208922001291 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1208922001292 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1208922001293 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1208922001294 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 1208922001295 IHF dimer interface [polypeptide binding]; other site 1208922001296 IHF - DNA interface [nucleotide binding]; other site 1208922001297 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1208922001298 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1208922001299 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1208922001300 ribonuclease R; Region: RNase_R; TIGR02063 1208922001301 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 1208922001302 RNB domain; Region: RNB; pfam00773 1208922001303 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 1208922001304 RNA binding site [nucleotide binding]; other site 1208922001305 adenylosuccinate lyase; Provisional; Region: PRK09285 1208922001306 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1208922001307 tetramer interface [polypeptide binding]; other site 1208922001308 active site 1208922001309 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1208922001310 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 1208922001311 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1208922001312 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1208922001313 protease TldD; Provisional; Region: tldD; PRK10735 1208922001314 aminopeptidase N; Provisional; Region: pepN; PRK14015 1208922001315 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1208922001316 Zn binding site [ion binding]; other site 1208922001317 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1208922001318 AMP binding site [chemical binding]; other site 1208922001319 metal binding site [ion binding]; metal-binding site 1208922001320 active site 1208922001321 homoserine dehydrogenase; Provisional; Region: PRK06349 1208922001322 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1208922001323 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1208922001324 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1208922001325 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 1208922001326 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1208922001327 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 1208922001328 catalytic triad [active] 1208922001329 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1208922001330 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1208922001331 replicative DNA helicase; Provisional; Region: PRK07004 1208922001332 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1208922001333 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 1208922001334 Walker A motif; other site 1208922001335 ATP binding site [chemical binding]; other site 1208922001336 Walker B motif; other site 1208922001337 DNA binding loops [nucleotide binding] 1208922001338 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1208922001339 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1208922001340 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1208922001341 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1208922001342 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1208922001343 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1208922001344 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1208922001345 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1208922001346 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 1208922001347 TPP-binding site; other site 1208922001348 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 1208922001349 PYR/PP interface [polypeptide binding]; other site 1208922001350 dimer interface [polypeptide binding]; other site 1208922001351 TPP binding site [chemical binding]; other site 1208922001352 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1208922001353 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1208922001354 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1208922001355 substrate binding pocket [chemical binding]; other site 1208922001356 chain length determination region; other site 1208922001357 substrate-Mg2+ binding site; other site 1208922001358 catalytic residues [active] 1208922001359 aspartate-rich region 1; other site 1208922001360 active site lid residues [active] 1208922001361 aspartate-rich region 2; other site 1208922001362 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1208922001363 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1208922001364 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1208922001365 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1208922001366 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1208922001367 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208922001368 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1208922001369 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 1208922001370 DNA binding residues [nucleotide binding] 1208922001371 DNA primase; Validated; Region: dnaG; PRK05667 1208922001372 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1208922001373 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1208922001374 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 1208922001375 active site 1208922001376 metal binding site [ion binding]; metal-binding site 1208922001377 interdomain interaction site; other site 1208922001378 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1208922001379 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1208922001380 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 1208922001381 GDP-binding site [chemical binding]; other site 1208922001382 ACT binding site; other site 1208922001383 IMP binding site; other site 1208922001384 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1208922001385 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 1208922001386 dimer interface [polypeptide binding]; other site 1208922001387 motif 1; other site 1208922001388 active site 1208922001389 motif 2; other site 1208922001390 HflC protein; Region: hflC; TIGR01932 1208922001391 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 1208922001392 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1208922001393 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 1208922001394 HflK protein; Region: hflK; TIGR01933 1208922001395 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1208922001396 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1208922001397 HflX GTPase family; Region: HflX; cd01878 1208922001398 G1 box; other site 1208922001399 GTP/Mg2+ binding site [chemical binding]; other site 1208922001400 Switch I region; other site 1208922001401 G2 box; other site 1208922001402 G3 box; other site 1208922001403 Switch II region; other site 1208922001404 G4 box; other site 1208922001405 G5 box; other site 1208922001406 bacterial Hfq-like; Region: Hfq; cd01716 1208922001407 hexamer interface [polypeptide binding]; other site 1208922001408 Sm1 motif; other site 1208922001409 RNA binding site [nucleotide binding]; other site 1208922001410 Sm2 motif; other site 1208922001411 GTP-binding protein Der; Reviewed; Region: PRK00093 1208922001412 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1208922001413 G1 box; other site 1208922001414 GTP/Mg2+ binding site [chemical binding]; other site 1208922001415 Switch I region; other site 1208922001416 G2 box; other site 1208922001417 Switch II region; other site 1208922001418 G3 box; other site 1208922001419 G4 box; other site 1208922001420 G5 box; other site 1208922001421 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1208922001422 G1 box; other site 1208922001423 GTP/Mg2+ binding site [chemical binding]; other site 1208922001424 Switch I region; other site 1208922001425 G2 box; other site 1208922001426 G3 box; other site 1208922001427 Switch II region; other site 1208922001428 G4 box; other site 1208922001429 G5 box; other site 1208922001430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1208922001431 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1208922001432 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 1208922001433 dimer interface [polypeptide binding]; other site 1208922001434 motif 1; other site 1208922001435 active site 1208922001436 motif 2; other site 1208922001437 motif 3; other site 1208922001438 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 1208922001439 anticodon binding site; other site 1208922001440 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1208922001441 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1208922001442 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1208922001443 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1208922001444 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 1208922001445 FeS/SAM binding site; other site 1208922001446 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 1208922001447 active site 1208922001448 multimer interface [polypeptide binding]; other site 1208922001449 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1208922001450 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208922001451 active site 1208922001452 HIGH motif; other site 1208922001453 nucleotide binding site [chemical binding]; other site 1208922001454 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1208922001455 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1208922001456 active site 1208922001457 KMSKS motif; other site 1208922001458 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1208922001459 tRNA binding surface [nucleotide binding]; other site 1208922001460 anticodon binding site; other site 1208922001461 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1208922001462 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1208922001463 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1208922001464 RimM N-terminal domain; Region: RimM; pfam01782 1208922001465 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1208922001466 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 1208922001467 CPxP motif; other site 1208922001468 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1208922001469 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 1208922001470 motif 1; other site 1208922001471 active site 1208922001472 motif 2; other site 1208922001473 motif 3; other site 1208922001474 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1208922001475 DHHA1 domain; Region: DHHA1; pfam02272 1208922001476 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1208922001477 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 1208922001478 catalytic loop [active] 1208922001479 iron binding site [ion binding]; other site 1208922001480 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1208922001481 FAD binding pocket [chemical binding]; other site 1208922001482 conserved FAD binding motif [chemical binding]; other site 1208922001483 phosphate binding motif [ion binding]; other site 1208922001484 beta-alpha-beta structure motif; other site 1208922001485 NAD binding pocket [chemical binding]; other site 1208922001486 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1208922001487 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1208922001488 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 1208922001489 RNA binding site [nucleotide binding]; other site 1208922001490 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 1208922001491 multimer interface [polypeptide binding]; other site 1208922001492 Walker A motif; other site 1208922001493 ATP binding site [chemical binding]; other site 1208922001494 Walker B motif; other site 1208922001495 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 1208922001496 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1208922001497 DNA polymerase I; Provisional; Region: PRK05755 1208922001498 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1208922001499 active site 1208922001500 metal binding site 1 [ion binding]; metal-binding site 1208922001501 putative 5' ssDNA interaction site; other site 1208922001502 metal binding site 3; metal-binding site 1208922001503 metal binding site 2 [ion binding]; metal-binding site 1208922001504 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1208922001505 putative DNA binding site [nucleotide binding]; other site 1208922001506 putative metal binding site [ion binding]; other site 1208922001507 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1208922001508 active site 1208922001509 catalytic site [active] 1208922001510 substrate binding site [chemical binding]; other site 1208922001511 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1208922001512 active site 1208922001513 DNA binding site [nucleotide binding] 1208922001514 catalytic site [active] 1208922001515 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1208922001516 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1208922001517 G1 box; other site 1208922001518 putative GEF interaction site [polypeptide binding]; other site 1208922001519 GTP/Mg2+ binding site [chemical binding]; other site 1208922001520 Switch I region; other site 1208922001521 G2 box; other site 1208922001522 G3 box; other site 1208922001523 Switch II region; other site 1208922001524 G4 box; other site 1208922001525 G5 box; other site 1208922001526 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 1208922001527 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 1208922001528 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 1208922001529 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1208922001530 RNA binding site [nucleotide binding]; other site 1208922001531 active site 1208922001532 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1208922001533 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1208922001534 translation initiation factor IF-2; Region: IF-2; TIGR00487 1208922001535 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1208922001536 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1208922001537 G1 box; other site 1208922001538 putative GEF interaction site [polypeptide binding]; other site 1208922001539 GTP/Mg2+ binding site [chemical binding]; other site 1208922001540 Switch I region; other site 1208922001541 G2 box; other site 1208922001542 G3 box; other site 1208922001543 Switch II region; other site 1208922001544 G4 box; other site 1208922001545 G5 box; other site 1208922001546 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 1208922001547 Translation-initiation factor 2; Region: IF-2; pfam11987 1208922001548 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 1208922001549 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1208922001550 NusA N-terminal domain; Region: NusA_N; pfam08529 1208922001551 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 1208922001552 RNA binding site [nucleotide binding]; other site 1208922001553 homodimer interface [polypeptide binding]; other site 1208922001554 NusA-like KH domain; Region: KH_5; pfam13184 1208922001555 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 1208922001556 G-X-X-G motif; other site 1208922001557 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1208922001558 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1208922001559 Sm and related proteins; Region: Sm_like; cl00259 1208922001560 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 1208922001561 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1208922001562 putative oligomer interface [polypeptide binding]; other site 1208922001563 putative RNA binding site [nucleotide binding]; other site 1208922001564 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1208922001565 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 1208922001566 RNA binding surface [nucleotide binding]; other site 1208922001567 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1208922001568 probable active site [active] 1208922001569 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1208922001570 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1208922001571 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1208922001572 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1208922001573 multidrug efflux protein; Reviewed; Region: PRK01766 1208922001574 cation binding site [ion binding]; other site 1208922001575 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1208922001576 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1208922001577 catalytic site [active] 1208922001578 putative active site [active] 1208922001579 putative substrate binding site [chemical binding]; other site 1208922001580 dimer interface [polypeptide binding]; other site 1208922001581 GTPase RsgA; Reviewed; Region: PRK00098 1208922001582 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 1208922001583 RNA binding site [nucleotide binding]; other site 1208922001584 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1208922001585 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1208922001586 GTP/Mg2+ binding site [chemical binding]; other site 1208922001587 G4 box; other site 1208922001588 G5 box; other site 1208922001589 G1 box; other site 1208922001590 Switch I region; other site 1208922001591 G2 box; other site 1208922001592 G3 box; other site 1208922001593 Switch II region; other site 1208922001594 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1208922001595 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1208922001596 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1208922001597 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1208922001598 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1208922001599 Ligand binding site [chemical binding]; other site 1208922001600 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1208922001601 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1208922001602 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1208922001603 putative active site [active] 1208922001604 Zn binding site [ion binding]; other site 1208922001605 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 1208922001606 IHF dimer interface [polypeptide binding]; other site 1208922001607 IHF - DNA interface [nucleotide binding]; other site 1208922001608 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1208922001609 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 1208922001610 RNA binding site [nucleotide binding]; other site 1208922001611 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 1208922001612 RNA binding site [nucleotide binding]; other site 1208922001613 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 1208922001614 RNA binding site [nucleotide binding]; other site 1208922001615 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 1208922001616 RNA binding site [nucleotide binding]; other site 1208922001617 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 1208922001618 RNA binding site [nucleotide binding]; other site 1208922001619 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1208922001620 RNA binding site [nucleotide binding]; other site 1208922001621 cytidylate kinase; Provisional; Region: cmk; PRK00023 1208922001622 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 1208922001623 CMP-binding site; other site 1208922001624 The sites determining sugar specificity; other site 1208922001625 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 1208922001626 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1208922001627 hinge; other site 1208922001628 active site 1208922001629 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1208922001630 prephenate dehydrogenase; Validated; Region: PRK08507 1208922001631 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1208922001632 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 1208922001633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922001634 homodimer interface [polypeptide binding]; other site 1208922001635 catalytic residue [active] 1208922001636 Chorismate mutase type II; Region: CM_2; pfam01817 1208922001637 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1208922001638 Prephenate dehydratase; Region: PDT; pfam00800 1208922001639 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 1208922001640 putative L-Phe binding site [chemical binding]; other site 1208922001641 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1208922001642 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208922001643 catalytic residue [active] 1208922001644 DNA gyrase subunit A; Validated; Region: PRK05560 1208922001645 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 1208922001646 CAP-like domain; other site 1208922001647 active site 1208922001648 primary dimer interface [polypeptide binding]; other site 1208922001649 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208922001650 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208922001651 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208922001652 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208922001653 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208922001654 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208922001655 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208922001656 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208922001657 ligand binding site [chemical binding]; other site 1208922001658 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1208922001659 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 1208922001660 S-adenosylmethionine binding site [chemical binding]; other site 1208922001661 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1208922001662 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 1208922001663 RNA binding surface [nucleotide binding]; other site 1208922001664 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1208922001665 active site 1208922001666 Outer membrane lipoprotein; Region: YfiO; pfam13525 1208922001667 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1208922001668 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1208922001669 active site 1208922001670 HIGH motif; other site 1208922001671 dimer interface [polypeptide binding]; other site 1208922001672 KMSKS motif; other site 1208922001673 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1208922001674 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208922001675 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208922001676 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1208922001677 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 1208922001678 E3 interaction surface; other site 1208922001679 lipoyl attachment site [posttranslational modification]; other site 1208922001680 e3 binding domain; Region: E3_binding; pfam02817 1208922001681 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1208922001682 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1208922001683 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 1208922001684 TPP-binding site [chemical binding]; other site 1208922001685 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1208922001686 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1208922001687 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1208922001688 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1208922001689 putative NAD(P) binding site [chemical binding]; other site 1208922001690 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1208922001691 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1208922001692 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1208922001693 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1208922001694 enolase; Provisional; Region: eno; PRK00077 1208922001695 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 1208922001696 dimer interface [polypeptide binding]; other site 1208922001697 metal binding site [ion binding]; metal-binding site 1208922001698 substrate binding pocket [chemical binding]; other site 1208922001699 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1208922001700 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1208922001701 CTP synthetase; Validated; Region: pyrG; PRK05380 1208922001702 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 1208922001703 Catalytic site [active] 1208922001704 active site 1208922001705 UTP binding site [chemical binding]; other site 1208922001706 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1208922001707 active site 1208922001708 putative oxyanion hole; other site 1208922001709 catalytic triad [active] 1208922001710 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1208922001711 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1208922001712 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1208922001713 acetyl-CoA synthetase; Provisional; Region: PRK00174 1208922001714 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1208922001715 active site 1208922001716 CoA binding site [chemical binding]; other site 1208922001717 acyl-activating enzyme (AAE) consensus motif; other site 1208922001718 AMP binding site [chemical binding]; other site 1208922001719 acetate binding site [chemical binding]; other site 1208922001720 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1208922001721 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1208922001722 NlpC/P60 family; Region: NLPC_P60; pfam00877 1208922001723 Predicted permeases [General function prediction only]; Region: COG0795 1208922001724 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1208922001725 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1208922001726 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 1208922001727 interface (dimer of trimers) [polypeptide binding]; other site 1208922001728 Substrate-binding/catalytic site; other site 1208922001729 Zn-binding sites [ion binding]; other site 1208922001730 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 1208922001731 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1208922001732 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 1208922001733 Recombination protein O N terminal; Region: RecO_N; pfam11967 1208922001734 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1208922001735 Recombination protein O C terminal; Region: RecO_C; pfam02565 1208922001736 GTPase Era; Reviewed; Region: era; PRK00089 1208922001737 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1208922001738 G1 box; other site 1208922001739 GTP/Mg2+ binding site [chemical binding]; other site 1208922001740 Switch I region; other site 1208922001741 G2 box; other site 1208922001742 Switch II region; other site 1208922001743 G3 box; other site 1208922001744 G4 box; other site 1208922001745 G5 box; other site 1208922001746 KH domain; Region: KH_2; pfam07650 1208922001747 ribonuclease III; Reviewed; Region: rnc; PRK00102 1208922001748 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 1208922001749 dimerization interface [polypeptide binding]; other site 1208922001750 active site 1208922001751 metal binding site [ion binding]; metal-binding site 1208922001752 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 1208922001753 dsRNA binding site [nucleotide binding]; other site 1208922001754 signal peptidase I; Provisional; Region: PRK10861 1208922001755 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1208922001756 Catalytic site [active] 1208922001757 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1208922001758 GTP-binding protein LepA; Provisional; Region: PRK05433 1208922001759 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1208922001760 G1 box; other site 1208922001761 putative GEF interaction site [polypeptide binding]; other site 1208922001762 GTP/Mg2+ binding site [chemical binding]; other site 1208922001763 Switch I region; other site 1208922001764 G2 box; other site 1208922001765 G3 box; other site 1208922001766 Switch II region; other site 1208922001767 G4 box; other site 1208922001768 G5 box; other site 1208922001769 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 1208922001770 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 1208922001771 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1208922001772 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1208922001773 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1208922001774 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 1208922001775 protein binding site [polypeptide binding]; other site 1208922001776 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 1208922001777 protein binding site [polypeptide binding]; other site 1208922001778 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1208922001779 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 1208922001780 dimer interface [polypeptide binding]; other site 1208922001781 active site 1208922001782 acyl carrier protein; Provisional; Region: acpP; PRK00982 1208922001783 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208922001784 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1208922001785 NAD(P) binding site [chemical binding]; other site 1208922001786 homotetramer interface [polypeptide binding]; other site 1208922001787 homodimer interface [polypeptide binding]; other site 1208922001788 active site 1208922001789 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1208922001790 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1208922001791 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1208922001792 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 1208922001793 dimer interface [polypeptide binding]; other site 1208922001794 active site 1208922001795 CoA binding pocket [chemical binding]; other site 1208922001796 putative phosphate acyltransferase; Provisional; Region: PRK05331 1208922001797 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1208922001798 Maf-like protein; Region: Maf; pfam02545 1208922001799 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1208922001800 active site 1208922001801 dimer interface [polypeptide binding]; other site 1208922001802 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1208922001803 putative SAM binding site [chemical binding]; other site 1208922001804 homodimer interface [polypeptide binding]; other site 1208922001805 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1208922001806 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 1208922001807 RNA binding surface [nucleotide binding]; other site 1208922001808 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1208922001809 active site 1208922001810 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1208922001811 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 1208922001812 homodimer interface [polypeptide binding]; other site 1208922001813 oligonucleotide binding site [chemical binding]; other site 1208922001814 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1208922001815 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1208922001816 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1208922001817 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 1208922001818 substrate binding site [chemical binding]; other site 1208922001819 active site 1208922001820 catalytic residues [active] 1208922001821 heterodimer interface [polypeptide binding]; other site 1208922001822 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1208922001823 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 1208922001824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922001825 catalytic residue [active] 1208922001826 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1208922001827 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1208922001828 synthetase active site [active] 1208922001829 NTP binding site [chemical binding]; other site 1208922001830 metal binding site [ion binding]; metal-binding site 1208922001831 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1208922001832 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1208922001833 active site 1208922001834 Ferredoxin [Energy production and conversion]; Region: COG1146 1208922001835 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1208922001836 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1208922001837 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1208922001838 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1208922001839 FAD binding pocket [chemical binding]; other site 1208922001840 FAD binding motif [chemical binding]; other site 1208922001841 phosphate binding motif [ion binding]; other site 1208922001842 beta-alpha-beta structure motif; other site 1208922001843 NAD binding pocket [chemical binding]; other site 1208922001844 ferredoxin; Provisional; Region: PRK08764 1208922001845 Putative Fe-S cluster; Region: FeS; cl17515 1208922001846 4Fe-4S binding domain; Region: Fer4; pfam00037 1208922001847 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1208922001848 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208922001849 minor groove reading motif; other site 1208922001850 helix-hairpin-helix signature motif; other site 1208922001851 substrate binding pocket [chemical binding]; other site 1208922001852 active site 1208922001853 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1208922001854 Intracellular septation protein A; Region: IspA; cl01098 1208922001855 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1208922001856 SurA N-terminal domain; Region: SurA_N_3; cl07813 1208922001857 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208922001858 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1208922001859 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 1208922001860 nucleotide binding pocket [chemical binding]; other site 1208922001861 K-X-D-G motif; other site 1208922001862 catalytic site [active] 1208922001863 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1208922001864 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1208922001865 Helix-hairpin-helix motif; Region: HHH; pfam00633 1208922001866 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 1208922001867 Dimer interface [polypeptide binding]; other site 1208922001868 BRCT sequence motif; other site 1208922001869 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; cl12038 1208922001870 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1208922001871 Fe-S cluster binding site [ion binding]; other site 1208922001872 active site 1208922001873 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1208922001874 Glycoprotease family; Region: Peptidase_M22; pfam00814 1208922001875 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1208922001876 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1208922001877 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1208922001878 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 1208922001879 dimer interface [polypeptide binding]; other site 1208922001880 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1208922001881 catalytic triad [active] 1208922001882 peroxidatic and resolving cysteines [active] 1208922001883 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 1208922001884 homotrimer interaction site [polypeptide binding]; other site 1208922001885 zinc binding site [ion binding]; other site 1208922001886 CDP-binding sites; other site 1208922001887 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1208922001888 substrate binding site; other site 1208922001889 dimer interface; other site 1208922001890 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1208922001891 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1208922001892 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 1208922001893 ATP binding site [chemical binding]; other site 1208922001894 putative Mg++ binding site [ion binding]; other site 1208922001895 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 1208922001896 nucleotide binding region [chemical binding]; other site 1208922001897 ATP-binding site [chemical binding]; other site 1208922001898 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1208922001899 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 1208922001900 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208922001901 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1208922001902 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208922001903 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1208922001904 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1208922001905 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208922001906 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1208922001907 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 1208922001908 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1208922001909 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1208922001910 4Fe-4S binding domain; Region: Fer4; pfam00037 1208922001911 4Fe-4S binding domain; Region: Fer4; pfam00037 1208922001912 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1208922001913 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1208922001914 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1208922001915 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 1208922001916 catalytic loop [active] 1208922001917 iron binding site [ion binding]; other site 1208922001918 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1208922001919 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 1208922001920 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; cd02775 1208922001921 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1208922001922 SLBB domain; Region: SLBB; pfam10531 1208922001923 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1208922001924 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1208922001925 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1208922001926 putative dimer interface [polypeptide binding]; other site 1208922001927 [2Fe-2S] cluster binding site [ion binding]; other site 1208922001928 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1208922001929 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1208922001930 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1208922001931 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1208922001932 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1208922001933 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1208922001934 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208922001935 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 1208922001936 trimer interface [polypeptide binding]; other site 1208922001937 eyelet of channel; other site 1208922001938 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1208922001939 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 1208922001940 triosephosphate isomerase; Provisional; Region: PRK14567 1208922001941 substrate binding site [chemical binding]; other site 1208922001942 dimer interface [polypeptide binding]; other site 1208922001943 catalytic triad [active] 1208922001944 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1208922001945 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1208922001946 NAD(P) binding site [chemical binding]; other site 1208922001947 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1208922001948 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1208922001949 RNase E interface [polypeptide binding]; other site 1208922001950 trimer interface [polypeptide binding]; other site 1208922001951 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1208922001952 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1208922001953 RNase E interface [polypeptide binding]; other site 1208922001954 trimer interface [polypeptide binding]; other site 1208922001955 active site 1208922001956 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 1208922001957 putative nucleic acid binding region [nucleotide binding]; other site 1208922001958 G-X-X-G motif; other site 1208922001959 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 1208922001960 RNA binding site [nucleotide binding]; other site 1208922001961 domain interface; other site 1208922001962 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 1208922001963 16S/18S rRNA binding site [nucleotide binding]; other site 1208922001964 S13e-L30e interaction site [polypeptide binding]; other site 1208922001965 25S rRNA binding site [nucleotide binding]; other site 1208922001966 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1208922001967 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1208922001968 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1208922001969 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1208922001970 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1208922001971 putative valine binding site [chemical binding]; other site 1208922001972 dimer interface [polypeptide binding]; other site 1208922001973 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1208922001974 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1208922001975 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208922001976 PYR/PP interface [polypeptide binding]; other site 1208922001977 dimer interface [polypeptide binding]; other site 1208922001978 TPP binding site [chemical binding]; other site 1208922001979 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208922001980 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1208922001981 TPP-binding site [chemical binding]; other site 1208922001982 dimer interface [polypeptide binding]; other site 1208922001983 Protein of unknown function (DUF328); Region: DUF328; pfam03883 1208922001984 seryl-tRNA synthetase; Provisional; Region: PRK05431 1208922001985 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1208922001986 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 1208922001987 dimer interface [polypeptide binding]; other site 1208922001988 active site 1208922001989 motif 1; other site 1208922001990 motif 2; other site 1208922001991 motif 3; other site 1208922001992 recombination factor protein RarA; Reviewed; Region: PRK13342 1208922001993 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 1208922001994 Walker A motif; other site 1208922001995 ATP binding site [chemical binding]; other site 1208922001996 Walker B motif; other site 1208922001997 arginine finger; other site 1208922001998 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1208922001999 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1208922002000 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1208922002001 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1208922002002 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1208922002003 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1208922002004 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1208922002005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208922002006 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208922002007 Smr domain; Region: Smr; pfam01713 1208922002008 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1208922002009 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1208922002010 chaperone protein DnaJ; Provisional; Region: PRK10767 1208922002011 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 1208922002012 HSP70 interaction site [polypeptide binding]; other site 1208922002013 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1208922002014 Zn binding sites [ion binding]; other site 1208922002015 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1208922002016 dimer interface [polypeptide binding]; other site 1208922002017 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1208922002018 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1208922002019 nucleotide binding site [chemical binding]; other site 1208922002020 GrpE; Region: GrpE; pfam01025 1208922002021 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 1208922002022 dimer interface [polypeptide binding]; other site 1208922002023 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1208922002024 ferrochelatase; Reviewed; Region: hemH; PRK00035 1208922002025 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1208922002026 active site 1208922002027 C-terminal domain interface [polypeptide binding]; other site 1208922002028 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1208922002029 active site 1208922002030 N-terminal domain interface [polypeptide binding]; other site 1208922002031 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1208922002032 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1208922002033 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1208922002034 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1208922002035 Walker A/P-loop; other site 1208922002036 ATP binding site [chemical binding]; other site 1208922002037 Q-loop/lid; other site 1208922002038 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1208922002039 ABC transporter signature motif; other site 1208922002040 Walker B; other site 1208922002041 D-loop; other site 1208922002042 H-loop/switch region; other site 1208922002043 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1208922002044 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1208922002045 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1208922002046 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1208922002047 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1208922002048 FAD binding domain; Region: FAD_binding_4; pfam01565 1208922002049 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1208922002050 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1208922002051 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 1208922002052 quinone interaction residues [chemical binding]; other site 1208922002053 active site 1208922002054 catalytic residues [active] 1208922002055 FMN binding site [chemical binding]; other site 1208922002056 substrate binding site [chemical binding]; other site 1208922002057 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 1208922002058 catalytic residues [active] 1208922002059 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1208922002060 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 1208922002061 ATP binding site [chemical binding]; other site 1208922002062 Mg++ binding site [ion binding]; other site 1208922002063 motif III; other site 1208922002064 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 1208922002065 nucleotide binding region [chemical binding]; other site 1208922002066 ATP-binding site [chemical binding]; other site 1208922002067 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208922002068 hypothetical protein; Provisional; Region: PRK06996 1208922002069 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1208922002070 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1208922002071 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 1208922002072 purine monophosphate binding site [chemical binding]; other site 1208922002073 dimer interface [polypeptide binding]; other site 1208922002074 putative catalytic residues [active] 1208922002075 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1208922002076 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1208922002077 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 1208922002078 active site 1208922002079 putative DNA-binding cleft [nucleotide binding]; other site 1208922002080 dimer interface [polypeptide binding]; other site 1208922002081 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1208922002082 RuvA N terminal domain; Region: RuvA_N; pfam01330 1208922002083 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1208922002084 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1208922002085 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 1208922002086 Walker A motif; other site 1208922002087 ATP binding site [chemical binding]; other site 1208922002088 Walker B motif; other site 1208922002089 arginine finger; other site 1208922002090 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1208922002091 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1208922002092 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208922002093 active site 1208922002094 HIGH motif; other site 1208922002095 nucleotide binding site [chemical binding]; other site 1208922002096 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208922002097 active site 1208922002098 KMSKS motif; other site 1208922002099 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1208922002100 septum site-determining protein MinC; Region: minC; TIGR01222 1208922002101 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1208922002102 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1208922002103 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1208922002104 Switch I; other site 1208922002105 Switch II; other site 1208922002106 Septum formation topological specificity factor MinE; Region: MinE; cl00538 1208922002107 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1208922002108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922002109 Walker A/P-loop; other site 1208922002110 ATP binding site [chemical binding]; other site 1208922002111 Q-loop/lid; other site 1208922002112 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208922002113 ABC transporter signature motif; other site 1208922002114 Walker B; other site 1208922002115 ABC transporter; Region: ABC_tran_2; pfam12848 1208922002116 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208922002117 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1208922002118 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 1208922002119 putative ATP binding site [chemical binding]; other site 1208922002120 putative substrate interface [chemical binding]; other site 1208922002121 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1208922002122 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1208922002123 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1208922002124 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1208922002125 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1208922002126 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1208922002127 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 1208922002128 ATP binding site [chemical binding]; other site 1208922002129 Mg2+ binding site [ion binding]; other site 1208922002130 G-X-G motif; other site 1208922002131 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 1208922002132 ATP binding site [chemical binding]; other site 1208922002133 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1208922002134 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1208922002135 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1208922002136 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1208922002137 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 1208922002138 dimerization interface [polypeptide binding]; other site 1208922002139 putative ATP binding site [chemical binding]; other site 1208922002140 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1208922002141 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 1208922002142 Walker A motif; other site 1208922002143 ATP binding site [chemical binding]; other site 1208922002144 Walker B motif; other site 1208922002145 arginine finger; other site 1208922002146 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1208922002147 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1208922002148 poly(A) polymerase; Region: pcnB; TIGR01942 1208922002149 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1208922002150 active site 1208922002151 NTP binding site [chemical binding]; other site 1208922002152 metal binding triad [ion binding]; metal-binding site 1208922002153 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1208922002154 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1208922002155 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 1208922002156 catalytic center binding site [active] 1208922002157 ATP binding site [chemical binding]; other site 1208922002158 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 1208922002159 dimer interface [polypeptide binding]; other site 1208922002160 motif 1; other site 1208922002161 active site 1208922002162 motif 2; other site 1208922002163 motif 3; other site 1208922002164 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1208922002165 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1208922002166 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1208922002167 putative acyl-acceptor binding pocket; other site 1208922002168 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1208922002169 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1208922002170 SEC-C motif; Region: SEC-C; pfam02810 1208922002171 Protein of unknown function (DUF721); Region: DUF721; cl02324 1208922002172 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1208922002173 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1208922002174 cell division protein FtsZ; Validated; Region: PRK09330 1208922002175 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 1208922002176 nucleotide binding site [chemical binding]; other site 1208922002177 SulA interaction site; other site 1208922002178 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1208922002179 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1208922002180 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208922002181 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1208922002182 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208922002183 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208922002184 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208922002185 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1208922002186 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 1208922002187 active site 1208922002188 homodimer interface [polypeptide binding]; other site 1208922002189 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1208922002190 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208922002191 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208922002192 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1208922002193 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 1208922002194 Mg++ binding site [ion binding]; other site 1208922002195 putative catalytic motif [active] 1208922002196 putative substrate binding site [chemical binding]; other site 1208922002197 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 1208922002198 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208922002199 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208922002200 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208922002201 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208922002202 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208922002203 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208922002204 MraW methylase family; Region: Methyltransf_5; cl17771 1208922002205 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1208922002206 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1208922002207 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208922002208 ABC transporter; Region: ABC_tran_2; pfam12848 1208922002209 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208922002210 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1208922002211 active site 1208922002212 substrate binding pocket [chemical binding]; other site 1208922002213 dimer interface [polypeptide binding]; other site 1208922002214 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1208922002215 Cell division protein ZapA; Region: ZapA; pfam05164 1208922002216 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1208922002217 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 1208922002218 putative active site [active] 1208922002219 Ap4A binding site [chemical binding]; other site 1208922002220 nudix motif; other site 1208922002221 putative metal binding site [ion binding]; other site 1208922002222 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1208922002223 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 1208922002224 dimer interface [polypeptide binding]; other site 1208922002225 motif 1; other site 1208922002226 active site 1208922002227 motif 2; other site 1208922002228 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 1208922002229 putative deacylase active site [active] 1208922002230 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 1208922002231 active site 1208922002232 motif 3; other site 1208922002233 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 1208922002234 anticodon binding site; other site 1208922002235 translocation protein TolB; Provisional; Region: tolB; PRK02889 1208922002236 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208922002237 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208922002238 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208922002239 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208922002240 ligand binding site [chemical binding]; other site 1208922002241 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1208922002242 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208922002243 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1208922002244 catalytic site [active] 1208922002245 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 1208922002246 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208922002247 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1208922002248 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 1208922002249 active site 1208922002250 catalytic site [active] 1208922002251 substrate binding site [chemical binding]; other site 1208922002252 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1208922002253 RNA/DNA hybrid binding site [nucleotide binding]; other site 1208922002254 active site 1208922002255 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1208922002256 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1208922002257 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 1208922002258 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208922002259 catalytic residue [active] 1208922002260 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208922002261 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 1208922002262 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1208922002263 NAD binding site [chemical binding]; other site 1208922002264 homotetramer interface [polypeptide binding]; other site 1208922002265 homodimer interface [polypeptide binding]; other site 1208922002266 substrate binding site [chemical binding]; other site 1208922002267 active site 1208922002268 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1208922002269 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208922002270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922002271 Walker A/P-loop; other site 1208922002272 ATP binding site [chemical binding]; other site 1208922002273 Q-loop/lid; other site 1208922002274 ABC transporter signature motif; other site 1208922002275 Walker B; other site 1208922002276 D-loop; other site 1208922002277 H-loop/switch region; other site 1208922002278 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1208922002279 Lumazine binding domain; Region: Lum_binding; pfam00677 1208922002280 Lumazine binding domain; Region: Lum_binding; pfam00677 1208922002281 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1208922002282 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 1208922002283 catalytic motif [active] 1208922002284 Zn binding site [ion binding]; other site 1208922002285 RibD C-terminal domain; Region: RibD_C; cl17279 1208922002286 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1208922002287 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 1208922002288 dimer interface [polypeptide binding]; other site 1208922002289 active site 1208922002290 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1208922002291 folate binding site [chemical binding]; other site 1208922002292 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1208922002293 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1208922002294 active site 1208922002295 HIGH motif; other site 1208922002296 dimer interface [polypeptide binding]; other site 1208922002297 KMSKS motif; other site 1208922002298 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 1208922002299 RNA binding surface [nucleotide binding]; other site 1208922002300 putative peptidase; Provisional; Region: PRK11649 1208922002301 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208922002302 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1208922002303 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1208922002304 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1208922002305 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1208922002306 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 1208922002307 23S rRNA interface [nucleotide binding]; other site 1208922002308 L3 interface [polypeptide binding]; other site 1208922002309 peptidase PmbA; Provisional; Region: PRK11040 1208922002310 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1208922002311 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208922002312 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208922002313 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208922002314 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208922002315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208922002316 Coenzyme A binding pocket [chemical binding]; other site 1208922002317 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1208922002318 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1208922002319 active site 1208922002320 HIGH motif; other site 1208922002321 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1208922002322 active site 1208922002323 KMSKS motif; other site 1208922002324 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1208922002325 ATP cone domain; Region: ATP-cone; pfam03477 1208922002326 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1208922002327 active site 1208922002328 dimer interface [polypeptide binding]; other site 1208922002329 catalytic residues [active] 1208922002330 effector binding site; other site 1208922002331 R2 peptide binding site; other site 1208922002332 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1208922002333 dimer interface [polypeptide binding]; other site 1208922002334 putative radical transfer pathway; other site 1208922002335 diiron center [ion binding]; other site 1208922002336 tyrosyl radical; other site 1208922002337 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1208922002338 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 1208922002339 S-adenosylmethionine binding site [chemical binding]; other site 1208922002340 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1208922002341 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208922002342 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208922002343 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208922002344 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1208922002345 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 1208922002346 carboxyltransferase (CT) interaction site; other site 1208922002347 biotinylation site [posttranslational modification]; other site 1208922002348 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1208922002349 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 1208922002350 trimer interface [polypeptide binding]; other site 1208922002351 active site 1208922002352 dimer interface [polypeptide binding]; other site 1208922002353 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1208922002354 RNB domain; Region: RNB; pfam00773 1208922002355 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1208922002356 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1208922002357 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1208922002358 shikimate binding site; other site 1208922002359 NAD(P) binding site [chemical binding]; other site 1208922002360 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1208922002361 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1208922002362 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1208922002363 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1208922002364 active site 1208922002365 metal binding site [ion binding]; metal-binding site 1208922002366 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1208922002367 hypothetical protein; Validated; Region: PRK00228 1208922002368 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1208922002369 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 1208922002370 inhibitor-cofactor binding pocket; inhibition site 1208922002371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922002372 catalytic residue [active] 1208922002373 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1208922002374 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 1208922002375 active site 1208922002376 nucleotide binding site [chemical binding]; other site 1208922002377 HIGH motif; other site 1208922002378 KMSKS motif; other site 1208922002379 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1208922002380 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1208922002381 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1208922002382 substrate binding pocket [chemical binding]; other site 1208922002383 chain length determination region; other site 1208922002384 substrate-Mg2+ binding site; other site 1208922002385 catalytic residues [active] 1208922002386 aspartate-rich region 1; other site 1208922002387 active site lid residues [active] 1208922002388 aspartate-rich region 2; other site 1208922002389 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1208922002390 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1208922002391 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1208922002392 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1208922002393 GTP1/OBG; Region: GTP1_OBG; pfam01018 1208922002394 Obg GTPase; Region: Obg; cd01898 1208922002395 G1 box; other site 1208922002396 GTP/Mg2+ binding site [chemical binding]; other site 1208922002397 Switch I region; other site 1208922002398 G2 box; other site 1208922002399 G3 box; other site 1208922002400 Switch II region; other site 1208922002401 G4 box; other site 1208922002402 G5 box; other site 1208922002403 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1208922002404 C-terminal peptidase (prc); Region: prc; TIGR00225 1208922002405 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 1208922002406 protein binding site [polypeptide binding]; other site 1208922002407 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1208922002408 Catalytic dyad [active] 1208922002409 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 1208922002410 catalytic core [active] 1208922002411 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1208922002412 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 1208922002413 active site residue [active] 1208922002414 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; cl00251 1208922002415 SecA binding site; other site 1208922002416 Preprotein binding site; other site 1208922002417 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1208922002418 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1208922002419 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1208922002420 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1208922002421 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1208922002422 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 1208922002423 S-adenosylmethionine binding site [chemical binding]; other site 1208922002424 Response regulator receiver domain; Region: Response_reg; pfam00072 1208922002425 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 1208922002426 active site 1208922002427 phosphorylation site [posttranslational modification] 1208922002428 intermolecular recognition site; other site 1208922002429 dimerization interface [polypeptide binding]; other site 1208922002430 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1208922002431 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 1208922002432 S-adenosylmethionine binding site [chemical binding]; other site 1208922002433 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1208922002434 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1208922002435 putative active site [active] 1208922002436 substrate binding site [chemical binding]; other site 1208922002437 putative cosubstrate binding site; other site 1208922002438 catalytic site [active] 1208922002439 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1208922002440 substrate binding site [chemical binding]; other site 1208922002441 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 1208922002442 active site 1208922002443 catalytic residues [active] 1208922002444 metal binding site [ion binding]; metal-binding site 1208922002445 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1208922002446 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208922002447 catalytic residue [active] 1208922002448 threonine dehydratase; Reviewed; Region: PRK09224 1208922002449 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1208922002450 tetramer interface [polypeptide binding]; other site 1208922002451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922002452 catalytic residue [active] 1208922002453 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1208922002454 putative Ile/Val binding site [chemical binding]; other site 1208922002455 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1208922002456 putative Ile/Val binding site [chemical binding]; other site 1208922002457 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1208922002458 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922002459 Walker A/P-loop; other site 1208922002460 ATP binding site [chemical binding]; other site 1208922002461 Q-loop/lid; other site 1208922002462 ABC transporter signature motif; other site 1208922002463 Walker B; other site 1208922002464 D-loop; other site 1208922002465 H-loop/switch region; other site 1208922002466 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 1208922002467 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208922002468 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922002469 Walker A/P-loop; other site 1208922002470 ATP binding site [chemical binding]; other site 1208922002471 Q-loop/lid; other site 1208922002472 ABC transporter signature motif; other site 1208922002473 Walker B; other site 1208922002474 D-loop; other site 1208922002475 H-loop/switch region; other site 1208922002476 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1208922002477 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1208922002478 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1208922002479 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1208922002480 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1208922002481 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 1208922002482 putative active site [active] 1208922002483 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 1208922002484 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1208922002485 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1208922002486 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1208922002487 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1208922002488 Walker A/P-loop; other site 1208922002489 ATP binding site [chemical binding]; other site 1208922002490 Q-loop/lid; other site 1208922002491 ABC transporter signature motif; other site 1208922002492 Walker B; other site 1208922002493 D-loop; other site 1208922002494 H-loop/switch region; other site 1208922002495 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 1208922002496 30S subunit binding site; other site 1208922002497 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1208922002498 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1208922002499 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1208922002500 Hpr binding site; other site 1208922002501 active site 1208922002502 homohexamer subunit interaction site [polypeptide binding]; other site 1208922002503 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1208922002504 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 1208922002505 DNA binding site [nucleotide binding] 1208922002506 active site 1208922002507 Predicted methyltransferases [General function prediction only]; Region: COG0313 1208922002508 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1208922002509 putative SAM binding site [chemical binding]; other site 1208922002510 putative homodimer interface [polypeptide binding]; other site 1208922002511 outer membrane lipoprotein; Provisional; Region: PRK11023 1208922002512 BON domain; Region: BON; pfam04972 1208922002513 BON domain; Region: BON; pfam04972 1208922002514 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1208922002515 feedback inhibition sensing region; other site 1208922002516 homohexameric interface [polypeptide binding]; other site 1208922002517 carbamate kinase; Reviewed; Region: PRK12686 1208922002518 nucleotide binding site [chemical binding]; other site 1208922002519 N-acetyl-L-glutamate binding site [chemical binding]; other site 1208922002520 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1208922002521 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1208922002522 transmembrane helices; other site 1208922002523 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208922002524 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1208922002525 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1208922002526 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1208922002527 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1208922002528 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1208922002529 rod shape-determining protein MreC; Provisional; Region: PRK13922 1208922002530 rod shape-determining protein MreC; Region: MreC; pfam04085 1208922002531 rod shape-determining protein MreB; Provisional; Region: PRK13927 1208922002532 MreB and similar proteins; Region: MreB_like; cd10225 1208922002533 nucleotide binding site [chemical binding]; other site 1208922002534 Mg binding site [ion binding]; other site 1208922002535 putative protofilament interaction site [polypeptide binding]; other site 1208922002536 RodZ interaction site [polypeptide binding]; other site 1208922002537 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1208922002538 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208922002539 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1208922002540 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1208922002541 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1208922002542 GatB domain; Region: GatB_Yqey; smart00845 1208922002543 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208922002544 active site 1208922002545 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1208922002546 putative active site [active] 1208922002547 putative catalytic site [active] 1208922002548 putative DNA binding site [nucleotide binding]; other site 1208922002549 putative phosphate binding site [ion binding]; other site 1208922002550 metal binding site A [ion binding]; metal-binding site 1208922002551 putative AP binding site [nucleotide binding]; other site 1208922002552 putative metal binding site B [ion binding]; other site 1208922002553 LysE type translocator; Region: LysE; cl00565 1208922002554 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1208922002555 ligand binding site [chemical binding]; other site 1208922002556 active site 1208922002557 UGI interface [polypeptide binding]; other site 1208922002558 catalytic site [active] 1208922002559 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1208922002560 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 1208922002561 ATP binding site [chemical binding]; other site 1208922002562 Mg++ binding site [ion binding]; other site 1208922002563 motif III; other site 1208922002564 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 1208922002565 nucleotide binding region [chemical binding]; other site 1208922002566 ATP-binding site [chemical binding]; other site 1208922002567 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1208922002568 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1208922002569 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1208922002570 active site 1208922002571 NTP binding site [chemical binding]; other site 1208922002572 metal binding triad [ion binding]; metal-binding site 1208922002573 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1208922002574 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1208922002575 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1208922002576 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1208922002577 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1208922002578 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1208922002579 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1208922002580 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1208922002581 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1208922002582 putative acyl-acceptor binding pocket; other site 1208922002583 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1208922002584 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1208922002585 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1208922002586 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1208922002587 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 1208922002588 active site 1208922002589 DNA binding site [nucleotide binding] 1208922002590 Int/Topo IB signature motif; other site 1208922002591 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1208922002592 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 1208922002593 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1208922002594 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1208922002595 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 1208922002596 active site 1208922002597 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1208922002598 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 1208922002599 Walker A motif; other site 1208922002600 ATP binding site [chemical binding]; other site 1208922002601 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1208922002602 Walker B motif; other site 1208922002603 arginine finger; other site 1208922002604 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1208922002605 Protein of unknown function (DUF493); Region: DUF493; cl01102 1208922002606 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1208922002607 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1208922002608 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1208922002609 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1208922002610 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1208922002611 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1208922002612 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1208922002613 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1208922002614 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 1208922002615 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1208922002616 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 1208922002617 dimer interface [polypeptide binding]; other site 1208922002618 anticodon binding site; other site 1208922002619 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 1208922002620 homodimer interface [polypeptide binding]; other site 1208922002621 motif 1; other site 1208922002622 active site 1208922002623 motif 2; other site 1208922002624 GAD domain; Region: GAD; pfam02938 1208922002625 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 1208922002626 active site 1208922002627 motif 3; other site 1208922002628 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1208922002629 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1208922002630 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 1208922002631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208922002632 homodimer interface [polypeptide binding]; other site 1208922002633 catalytic residue [active] 1208922002634 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1208922002635 UbiA prenyltransferase family; Region: UbiA; pfam01040 1208922002636 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1208922002637 oligomerization interface [polypeptide binding]; other site 1208922002638 active site 1208922002639 metal binding site [ion binding]; metal-binding site 1208922002640 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1208922002641 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 1208922002642 dimer interface [polypeptide binding]; other site 1208922002643 ssDNA binding site [nucleotide binding]; other site 1208922002644 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1208922002645 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1208922002646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922002647 Walker A/P-loop; other site 1208922002648 ATP binding site [chemical binding]; other site 1208922002649 Q-loop/lid; other site 1208922002650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922002651 ABC transporter signature motif; other site 1208922002652 Walker B; other site 1208922002653 D-loop; other site 1208922002654 H-loop/switch region; other site 1208922002655 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208922002656 Walker A/P-loop; other site 1208922002657 ATP binding site [chemical binding]; other site 1208922002658 Q-loop/lid; other site 1208922002659 ABC transporter signature motif; other site 1208922002660 Walker B; other site 1208922002661 D-loop; other site 1208922002662 H-loop/switch region; other site 1208922002663 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1208922002664 active site 1208922002665 dimer interface [polypeptide binding]; other site 1208922002666 metal binding site [ion binding]; metal-binding site 1208922002667 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 1208922002668 shikimate kinase; Reviewed; Region: aroK; PRK00131 1208922002669 ADP binding site [chemical binding]; other site 1208922002670 magnesium binding site [ion binding]; other site 1208922002671 putative shikimate binding site; other site 1208922002672 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1208922002673 Transglycosylase; Region: Transgly; pfam00912 1208922002674 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1208922002675 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1208922002676 putative iron binding site [ion binding]; other site 1208922002677 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1208922002678 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1208922002679 active site 1208922002680 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208922002681 substrate binding site [chemical binding]; other site 1208922002682 catalytic residues [active] 1208922002683 dimer interface [polypeptide binding]; other site 1208922002684 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1208922002685 G1 box; other site 1208922002686 GTP/Mg2+ binding site [chemical binding]; other site 1208922002687 Switch I region; other site 1208922002688 G2 box; other site 1208922002689 G3 box; other site 1208922002690 Switch II region; other site 1208922002691 G4 box; other site 1208922002692 G5 box; other site 1208922002693 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1208922002694 dimer interface [polypeptide binding]; other site 1208922002695 allosteric magnesium binding site [ion binding]; other site 1208922002696 active site 1208922002697 aspartate-rich active site metal binding site; other site 1208922002698 Schiff base residues; other site 1208922002699 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1208922002700 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1208922002701 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1208922002702 alphaNTD homodimer interface [polypeptide binding]; other site 1208922002703 alphaNTD - beta interaction site [polypeptide binding]; other site 1208922002704 alphaNTD - beta' interaction site [polypeptide binding]; other site 1208922002705 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1208922002706 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1208922002707 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1208922002708 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 1208922002709 RNA binding surface [nucleotide binding]; other site 1208922002710 30S ribosomal protein S11; Validated; Region: PRK05309 1208922002711 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1208922002712 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1208922002713 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 1208922002714 rRNA binding site [nucleotide binding]; other site 1208922002715 predicted 30S ribosome binding site; other site 1208922002716 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1208922002717 SecY translocase; Region: SecY; pfam00344 1208922002718 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1208922002719 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 1208922002720 23S rRNA binding site [nucleotide binding]; other site 1208922002721 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1208922002722 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1208922002723 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1208922002724 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 1208922002725 5S rRNA interface [nucleotide binding]; other site 1208922002726 L27 interface [polypeptide binding]; other site 1208922002727 23S rRNA interface [nucleotide binding]; other site 1208922002728 L5 interface [polypeptide binding]; other site 1208922002729 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1208922002730 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1208922002731 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1208922002732 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1208922002733 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1208922002734 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1208922002735 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1208922002736 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1208922002737 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1208922002738 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1208922002739 RNA binding site [nucleotide binding]; other site 1208922002740 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1208922002741 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1208922002742 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 1208922002743 23S rRNA interface [nucleotide binding]; other site 1208922002744 putative translocon interaction site; other site 1208922002745 signal recognition particle (SRP54) interaction site; other site 1208922002746 L23 interface [polypeptide binding]; other site 1208922002747 trigger factor interaction site; other site 1208922002748 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 1208922002749 23S rRNA interface [nucleotide binding]; other site 1208922002750 5S rRNA interface [nucleotide binding]; other site 1208922002751 putative antibiotic binding site [chemical binding]; other site 1208922002752 L25 interface [polypeptide binding]; other site 1208922002753 L27 interface [polypeptide binding]; other site 1208922002754 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1208922002755 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 1208922002756 G-X-X-G motif; other site 1208922002757 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1208922002758 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 1208922002759 putative translocon binding site; other site 1208922002760 protein-rRNA interface [nucleotide binding]; other site 1208922002761 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1208922002762 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1208922002763 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1208922002764 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1208922002765 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1208922002766 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1208922002767 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1208922002768 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1208922002769 elongation factor Tu; Reviewed; Region: PRK00049 1208922002770 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1208922002771 G1 box; other site 1208922002772 GEF interaction site [polypeptide binding]; other site 1208922002773 GTP/Mg2+ binding site [chemical binding]; other site 1208922002774 Switch I region; other site 1208922002775 G2 box; other site 1208922002776 G3 box; other site 1208922002777 Switch II region; other site 1208922002778 G4 box; other site 1208922002779 G5 box; other site 1208922002780 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 1208922002781 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 1208922002782 Antibiotic Binding Site [chemical binding]; other site 1208922002783 elongation factor G; Reviewed; Region: PRK00007 1208922002784 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1208922002785 G1 box; other site 1208922002786 putative GEF interaction site [polypeptide binding]; other site 1208922002787 GTP/Mg2+ binding site [chemical binding]; other site 1208922002788 Switch I region; other site 1208922002789 G2 box; other site 1208922002790 G3 box; other site 1208922002791 Switch II region; other site 1208922002792 G4 box; other site 1208922002793 G5 box; other site 1208922002794 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1208922002795 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1208922002796 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1208922002797 30S ribosomal protein S7; Validated; Region: PRK05302 1208922002798 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 1208922002799 S17 interaction site [polypeptide binding]; other site 1208922002800 S8 interaction site; other site 1208922002801 16S rRNA interaction site [nucleotide binding]; other site 1208922002802 streptomycin interaction site [chemical binding]; other site 1208922002803 23S rRNA interaction site [nucleotide binding]; other site 1208922002804 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1208922002805 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1208922002806 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1208922002807 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1208922002808 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1208922002809 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1208922002810 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1208922002811 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1208922002812 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1208922002813 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1208922002814 DNA binding site [nucleotide binding] 1208922002815 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1208922002816 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1208922002817 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 1208922002818 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 1208922002819 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1208922002820 RPB12 interaction site [polypeptide binding]; other site 1208922002821 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 1208922002822 RPB3 interaction site [polypeptide binding]; other site 1208922002823 RPB1 interaction site [polypeptide binding]; other site 1208922002824 RPB11 interaction site [polypeptide binding]; other site 1208922002825 RPB10 interaction site [polypeptide binding]; other site 1208922002826 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 1208922002827 core dimer interface [polypeptide binding]; other site 1208922002828 peripheral dimer interface [polypeptide binding]; other site 1208922002829 L10 interface [polypeptide binding]; other site 1208922002830 L11 interface [polypeptide binding]; other site 1208922002831 putative EF-Tu interaction site [polypeptide binding]; other site 1208922002832 putative EF-G interaction site [polypeptide binding]; other site 1208922002833 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 1208922002834 23S rRNA interface [nucleotide binding]; other site 1208922002835 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1208922002836 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 1208922002837 mRNA/rRNA interface [nucleotide binding]; other site 1208922002838 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1208922002839 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 1208922002840 23S rRNA interface [nucleotide binding]; other site 1208922002841 L7/L12 interface [polypeptide binding]; other site 1208922002842 putative thiostrepton binding site; other site 1208922002843 L25 interface [polypeptide binding]; other site 1208922002844 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1208922002845 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1208922002846 putative homodimer interface [polypeptide binding]; other site 1208922002847 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1208922002848 heterodimer interface [polypeptide binding]; other site 1208922002849 homodimer interface [polypeptide binding]; other site 1208922002850 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1208922002851 elongation factor Tu; Reviewed; Region: PRK00049 1208922002852 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1208922002853 G1 box; other site 1208922002854 GEF interaction site [polypeptide binding]; other site 1208922002855 GTP/Mg2+ binding site [chemical binding]; other site 1208922002856 Switch I region; other site 1208922002857 G2 box; other site 1208922002858 G3 box; other site 1208922002859 Switch II region; other site 1208922002860 G4 box; other site 1208922002861 G5 box; other site 1208922002862 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 1208922002863 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 1208922002864 Antibiotic Binding Site [chemical binding]; other site 1208922002865 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1208922002866 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1208922002867 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1208922002868 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1208922002869 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1208922002870 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1208922002871 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1208922002872 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1208922002873 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1208922002874 G1 box; other site 1208922002875 GTP/Mg2+ binding site [chemical binding]; other site 1208922002876 Switch I region; other site 1208922002877 G2 box; other site 1208922002878 Switch II region; other site 1208922002879 G3 box; other site 1208922002880 G4 box; other site 1208922002881 G5 box; other site 1208922002882 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1208922002883 membrane protein insertase; Provisional; Region: PRK01318 1208922002884 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1208922002885 Haemolytic domain; Region: Haemolytic; pfam01809 1208922002886 Ribonuclease P; Region: Ribonuclease_P; cl00457 1208922002887 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399