-- dump date 20140619_123148 -- class Genbank::misc_feature -- table misc_feature_note -- id note 353496000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 353496000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 353496000003 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 353496000004 Walker A motif; other site 353496000005 ATP binding site [chemical binding]; other site 353496000006 Walker B motif; other site 353496000007 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 353496000008 arginine finger; other site 353496000009 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 353496000010 DnaA box-binding interface [nucleotide binding]; other site 353496000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 353496000012 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 353496000013 putative DNA binding surface [nucleotide binding]; other site 353496000014 dimer interface [polypeptide binding]; other site 353496000015 beta-clamp/clamp loader binding surface; other site 353496000016 beta-clamp/translesion DNA polymerase binding surface; other site 353496000017 S4 domain; Region: S4_2; pfam13275 353496000018 recombination protein F; Reviewed; Region: recF; PRK00064 353496000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 353496000020 Walker A/P-loop; other site 353496000021 ATP binding site [chemical binding]; other site 353496000022 Q-loop/lid; other site 353496000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496000024 ABC transporter signature motif; other site 353496000025 Walker B; other site 353496000026 D-loop; other site 353496000027 H-loop/switch region; other site 353496000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 353496000029 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 353496000030 Mg2+ binding site [ion binding]; other site 353496000031 G-X-G motif; other site 353496000032 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 353496000033 anchoring element; other site 353496000034 dimer interface [polypeptide binding]; other site 353496000035 ATP binding site [chemical binding]; other site 353496000036 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 353496000037 active site 353496000038 putative metal-binding site [ion binding]; other site 353496000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 353496000040 DNA gyrase subunit A; Validated; Region: PRK05560 353496000041 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 353496000042 CAP-like domain; other site 353496000043 active site 353496000044 primary dimer interface [polypeptide binding]; other site 353496000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 353496000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 353496000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 353496000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 353496000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 353496000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 353496000051 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 353496000052 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 353496000053 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 353496000054 dimer interface [polypeptide binding]; other site 353496000055 ssDNA binding site [nucleotide binding]; other site 353496000056 tetramer (dimer of dimers) interface [polypeptide binding]; other site 353496000057 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 353496000058 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 353496000059 DHH family; Region: DHH; pfam01368 353496000060 DHHA1 domain; Region: DHHA1; pfam02272 353496000061 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 353496000062 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 353496000063 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 353496000064 replicative DNA helicase; Region: DnaB; TIGR00665 353496000065 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 353496000066 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 353496000067 Walker A motif; other site 353496000068 ATP binding site [chemical binding]; other site 353496000069 Walker B motif; other site 353496000070 DNA binding loops [nucleotide binding] 353496000071 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 353496000072 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 353496000073 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 353496000074 Walker A/P-loop; other site 353496000075 ATP binding site [chemical binding]; other site 353496000076 Q-loop/lid; other site 353496000077 ABC transporter signature motif; other site 353496000078 Walker B; other site 353496000079 D-loop; other site 353496000080 H-loop/switch region; other site 353496000081 FtsX-like permease family; Region: FtsX; pfam02687 353496000082 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 353496000083 MgtC family; Region: MgtC; pfam02308 353496000084 potential frameshift: common BLAST hit: gi|313124150|ref|YP_004034409.1| transposase, is30 family 353496000085 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496000086 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496000087 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496000088 Integrase core domain; Region: rve; pfam00665 353496000089 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496000090 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 353496000091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496000092 Walker A/P-loop; other site 353496000093 ATP binding site [chemical binding]; other site 353496000094 Q-loop/lid; other site 353496000095 ABC transporter signature motif; other site 353496000096 Walker B; other site 353496000097 D-loop; other site 353496000098 H-loop/switch region; other site 353496000099 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 353496000100 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496000101 Walker A/P-loop; other site 353496000102 ATP binding site [chemical binding]; other site 353496000103 Q-loop/lid; other site 353496000104 ABC transporter signature motif; other site 353496000105 Walker B; other site 353496000106 D-loop; other site 353496000107 H-loop/switch region; other site 353496000108 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 353496000109 Cpl-1 lysin (also known as Cpl-9 lysozyme / muramidase) is a bacterial cell wall endolysin encoded by the pneumococcal bacteriophage Cp-1, which cleaves the glycosidic N-acetylmuramoyl-(beta1,4)-N-acetylglucosamine bonds of the pneumococcal glycan chain; Region: GH25_Cpl1-like; cd06415 353496000110 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 353496000111 active site 353496000112 Bacterial surface layer protein; Region: SLAP; pfam03217 353496000113 Bacterial surface layer protein; Region: SLAP; pfam03217 353496000114 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 353496000115 substrate binding site [chemical binding]; other site 353496000116 ATP binding site [chemical binding]; other site 353496000117 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 353496000118 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 353496000119 PLD-like domain; Region: PLDc_2; pfam13091 353496000120 putative homodimer interface [polypeptide binding]; other site 353496000121 putative active site [active] 353496000122 catalytic site [active] 353496000123 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 353496000124 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 353496000125 ATP binding site [chemical binding]; other site 353496000126 putative Mg++ binding site [ion binding]; other site 353496000127 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 353496000128 nucleotide binding region [chemical binding]; other site 353496000129 ATP-binding site [chemical binding]; other site 353496000130 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 353496000131 Protein of unknown function (DUF975); Region: DUF975; cl10504 353496000132 YcxB-like protein; Region: YcxB; pfam14317 353496000133 Rrf2 family protein; Region: rrf2_super; TIGR00738 353496000134 Transcriptional regulator; Region: Rrf2; pfam02082 353496000135 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 353496000136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 353496000137 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 353496000138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 353496000139 active site 353496000140 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 353496000141 active site 1 [active] 353496000142 dimer interface [polypeptide binding]; other site 353496000143 hexamer interface [polypeptide binding]; other site 353496000144 active site 2 [active] 353496000145 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 353496000146 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 353496000147 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 353496000148 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 353496000149 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 353496000150 DNA binding residues [nucleotide binding] 353496000151 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 353496000152 amphipathic channel; other site 353496000153 Asn-Pro-Ala signature motifs; other site 353496000154 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 353496000155 active site 353496000156 catalytic site [active] 353496000157 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 353496000158 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 353496000159 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 353496000160 Ligand binding site; other site 353496000161 Putative Catalytic site; other site 353496000162 DXD motif; other site 353496000163 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 353496000164 EDD domain protein, DegV family; Region: DegV; TIGR00762 353496000165 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 353496000166 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 353496000167 Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is a diverse family of...; Region: Isoamyl_acetate_hydrolase_like; cd01838 353496000168 catalytic triad [active] 353496000169 oxyanion hole [active] 353496000170 active site 353496000171 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 353496000172 catalytic core [active] 353496000173 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 353496000174 BioY family; Region: BioY; pfam02632 353496000175 potential frameshift: common BLAST hit: gi|313123876|ref|YP_004034135.1| transposase, is30 family 353496000176 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496000177 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496000178 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496000179 Integrase core domain; Region: rve; pfam00665 353496000180 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 353496000181 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 353496000182 motif II; other site 353496000183 potential frameshift: common BLAST hit: gi|116334847|ref|YP_796374.1| phosphatase 353496000184 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 353496000185 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 353496000186 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 353496000187 motif II; other site 353496000188 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 353496000189 active site 353496000190 putative catalytic site [active] 353496000191 DNA binding site [nucleotide binding] 353496000192 putative phosphate binding site [ion binding]; other site 353496000193 metal binding site A [ion binding]; metal-binding site 353496000194 AP binding site [nucleotide binding]; other site 353496000195 metal binding site B [ion binding]; metal-binding site 353496000196 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 353496000197 tetramer (dimer of dimers) interface [polypeptide binding]; other site 353496000198 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 353496000199 NAD binding site [chemical binding]; other site 353496000200 dimer interface [polypeptide binding]; other site 353496000201 substrate binding site [chemical binding]; other site 353496000202 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 353496000203 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 353496000204 active site 353496000205 catalytic tetrad [active] 353496000206 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 353496000207 Class II ribonucleotide reductase, monomeric form; Region: RNR_II_monomer; cd01676 353496000208 putative active site [active] 353496000209 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 353496000210 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496000211 Integrase core domain; Region: rve; pfam00665 353496000212 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 353496000213 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 353496000214 homodimer interface [polypeptide binding]; other site 353496000215 ligand binding site [chemical binding]; other site 353496000216 NAD binding site [chemical binding]; other site 353496000217 catalytic site [active] 353496000218 potential frameshift: common BLAST hit: gi|104773325|ref|YP_618305.1| oxidoreductase 353496000219 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 353496000220 FAD binding domain; Region: FAD_binding_4; pfam01565 353496000221 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 353496000222 active site 353496000223 catalytic residues [active] 353496000224 metal binding site [ion binding]; metal-binding site 353496000225 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 353496000226 S-ribosylhomocysteinase; Provisional; Region: PRK02260 353496000227 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 353496000228 proposed active site lysine [active] 353496000229 conserved cys residue [active] 353496000230 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496000231 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496000232 Integrase core domain; Region: rve; pfam00665 353496000233 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 353496000234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496000235 Walker A/P-loop; other site 353496000236 ATP binding site [chemical binding]; other site 353496000237 ABC transporter; Region: ABC_tran; pfam00005 353496000238 Q-loop/lid; other site 353496000239 ABC transporter signature motif; other site 353496000240 Walker B; other site 353496000241 D-loop; other site 353496000242 H-loop/switch region; other site 353496000243 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496000244 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 353496000245 Walker A/P-loop; other site 353496000246 ATP binding site [chemical binding]; other site 353496000247 Q-loop/lid; other site 353496000248 ABC transporter signature motif; other site 353496000249 Walker B; other site 353496000250 D-loop; other site 353496000251 H-loop/switch region; other site 353496000252 MutS domain III; Region: MutS_III; pfam05192 353496000253 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 353496000254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496000255 Walker A/P-loop; other site 353496000256 ATP binding site [chemical binding]; other site 353496000257 Q-loop/lid; other site 353496000258 ABC transporter signature motif; other site 353496000259 Walker B; other site 353496000260 D-loop; other site 353496000261 H-loop/switch region; other site 353496000262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 353496000263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 353496000264 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 353496000265 dimerization interface [polypeptide binding]; other site 353496000266 potential frameshift: common BLAST hit: gi|104773333|ref|YP_618313.1| methionine synthase 353496000267 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 353496000268 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 353496000269 substrate binding site [chemical binding]; other site 353496000270 zinc-binding site [ion binding]; other site 353496000271 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 353496000272 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 353496000273 nucleotide binding site [chemical binding]; other site 353496000274 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 353496000275 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 353496000276 tetramer (dimer of dimers) interface [polypeptide binding]; other site 353496000277 NAD binding site [chemical binding]; other site 353496000278 dimer interface [polypeptide binding]; other site 353496000279 substrate binding site [chemical binding]; other site 353496000280 benzoate transport; Region: 2A0115; TIGR00895 353496000281 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 353496000282 putative substrate translocation pore; other site 353496000283 Predicted membrane protein [Function unknown]; Region: COG2364 353496000284 Transcriptional regulator [Transcription]; Region: LysR; COG0583 353496000285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 353496000286 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 353496000287 putative dimerization interface [polypeptide binding]; other site 353496000288 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 353496000289 L-aspartate oxidase; Provisional; Region: PRK06175 353496000290 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 353496000291 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 353496000292 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 353496000293 putative acyl-acceptor binding pocket; other site 353496000294 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 353496000295 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 353496000296 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 353496000297 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 353496000298 active site 353496000299 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 353496000300 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 353496000301 putative acyl-acceptor binding pocket; other site 353496000302 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 353496000303 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 353496000304 active site 353496000305 phosphorylation site [posttranslational modification] 353496000306 intermolecular recognition site; other site 353496000307 dimerization interface [polypeptide binding]; other site 353496000308 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 353496000309 DNA binding site [nucleotide binding] 353496000310 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 353496000311 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 353496000312 dimerization interface [polypeptide binding]; other site 353496000313 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 353496000314 putative active site [active] 353496000315 heme pocket [chemical binding]; other site 353496000316 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 353496000317 dimer interface [polypeptide binding]; other site 353496000318 phosphorylation site [posttranslational modification] 353496000319 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 353496000320 ATP binding site [chemical binding]; other site 353496000321 Mg2+ binding site [ion binding]; other site 353496000322 G-X-G motif; other site 353496000323 YycH protein; Region: YycH; pfam07435 353496000324 YycH protein; Region: YycI; pfam09648 353496000325 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 353496000326 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 353496000327 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 353496000328 protein binding site [polypeptide binding]; other site 353496000329 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 353496000330 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 353496000331 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496000332 Integrase core domain; Region: rve; pfam00665 353496000333 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 353496000334 Transposase; Region: DDE_Tnp_ISL3; pfam01610 353496000335 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 353496000336 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 353496000337 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496000338 Walker A/P-loop; other site 353496000339 ATP binding site [chemical binding]; other site 353496000340 Q-loop/lid; other site 353496000341 ABC transporter signature motif; other site 353496000342 Walker B; other site 353496000343 D-loop; other site 353496000344 H-loop/switch region; other site 353496000345 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496000346 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 353496000347 Walker A/P-loop; other site 353496000348 ATP binding site [chemical binding]; other site 353496000349 Q-loop/lid; other site 353496000350 ABC transporter signature motif; other site 353496000351 Walker B; other site 353496000352 D-loop; other site 353496000353 H-loop/switch region; other site 353496000354 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 353496000355 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 353496000356 putative substrate translocation pore; other site 353496000357 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 353496000358 Helix-turn-helix domain; Region: HTH_18; pfam12833 353496000359 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 353496000360 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 353496000361 Walker A/P-loop; other site 353496000362 ATP binding site [chemical binding]; other site 353496000363 Q-loop/lid; other site 353496000364 ABC transporter signature motif; other site 353496000365 Walker B; other site 353496000366 D-loop; other site 353496000367 H-loop/switch region; other site 353496000368 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 353496000369 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 353496000370 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 353496000371 YcaO-like family; Region: YcaO; pfam02624 353496000372 potential frameshift: common BLAST hit: gi|104773365|ref|YP_618345.1| transcriptional regulator 353496000373 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 353496000374 non-specific DNA binding site [nucleotide binding]; other site 353496000375 salt bridge; other site 353496000376 sequence-specific DNA binding site [nucleotide binding]; other site 353496000377 heat shock protein HtpX; Provisional; Region: PRK04897 353496000378 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 353496000379 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 353496000380 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 353496000381 transmembrane helices; other site 353496000382 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 353496000383 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 353496000384 active site 353496000385 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 353496000386 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 353496000387 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 353496000388 NlpC/P60 family; Region: NLPC_P60; pfam00877 353496000389 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 353496000390 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 353496000391 Walker A/P-loop; other site 353496000392 ATP binding site [chemical binding]; other site 353496000393 Q-loop/lid; other site 353496000394 ABC transporter signature motif; other site 353496000395 Walker B; other site 353496000396 D-loop; other site 353496000397 H-loop/switch region; other site 353496000398 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496000399 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 353496000400 substrate binding pocket [chemical binding]; other site 353496000401 membrane-bound complex binding site; other site 353496000402 hinge residues; other site 353496000403 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 353496000404 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000405 dimer interface [polypeptide binding]; other site 353496000406 conserved gate region; other site 353496000407 putative PBP binding loops; other site 353496000408 ABC-ATPase subunit interface; other site 353496000409 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 353496000410 active site 353496000411 DNA binding site [nucleotide binding] 353496000412 Protein of unknown function, DUF488; Region: DUF488; cl01246 353496000413 NAD-dependent deacetylase; Provisional; Region: PRK00481 353496000414 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 353496000415 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 353496000416 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 353496000417 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 353496000418 putative active site [active] 353496000419 catalytic site [active] 353496000420 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 353496000421 putative active site [active] 353496000422 catalytic site [active] 353496000423 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 353496000424 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 353496000425 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 353496000426 RNA/DNA hybrid binding site [nucleotide binding]; other site 353496000427 active site 353496000428 Predicted secreted protein [Function unknown]; Region: COG4086 353496000429 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 353496000430 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 353496000431 active site 353496000432 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 353496000433 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 353496000434 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 353496000435 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 353496000436 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496000437 active site 353496000438 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 353496000439 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 353496000440 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 353496000441 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 353496000442 ligand binding site [chemical binding]; other site 353496000443 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 353496000444 non-specific DNA interactions [nucleotide binding]; other site 353496000445 DNA binding site [nucleotide binding] 353496000446 sequence specific DNA binding site [nucleotide binding]; other site 353496000447 putative cAMP binding site [chemical binding]; other site 353496000448 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 353496000449 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 353496000450 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 353496000451 ATP-grasp domain; Region: ATP-grasp_4; cl17255 353496000452 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 353496000453 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 353496000454 DNA binding residues [nucleotide binding] 353496000455 YibE/F-like protein; Region: YibE_F; pfam07907 353496000456 YibE/F-like protein; Region: YibE_F; pfam07907 353496000457 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 353496000458 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 353496000459 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 353496000460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000461 conserved gate region; other site 353496000462 ABC-ATPase subunit interface; other site 353496000463 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000464 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 353496000465 dimer interface [polypeptide binding]; other site 353496000466 ABC-ATPase subunit interface; other site 353496000467 putative PBP binding loops; other site 353496000468 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 353496000469 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 353496000470 active site 353496000471 catalytic site [active] 353496000472 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 353496000473 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 353496000474 Interdomain contacts; other site 353496000475 Cytokine receptor motif; other site 353496000476 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 353496000477 potential frameshift: common BLAST hit: gi|104773396|ref|YP_618376.1| N-acetylglucosamine-6-phosphate deacetylase 353496000478 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 353496000479 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 353496000480 active site 353496000481 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 353496000482 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 353496000483 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 353496000484 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 353496000485 active site 353496000486 phosphorylation site [posttranslational modification] 353496000487 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 353496000488 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 353496000489 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 353496000490 Ligand Binding Site [chemical binding]; other site 353496000491 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 353496000492 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496000493 substrate binding pocket [chemical binding]; other site 353496000494 membrane-bound complex binding site; other site 353496000495 hinge residues; other site 353496000496 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 353496000497 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 353496000498 Walker A/P-loop; other site 353496000499 ATP binding site [chemical binding]; other site 353496000500 Q-loop/lid; other site 353496000501 ABC transporter signature motif; other site 353496000502 Walker B; other site 353496000503 D-loop; other site 353496000504 H-loop/switch region; other site 353496000505 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 353496000506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000507 dimer interface [polypeptide binding]; other site 353496000508 conserved gate region; other site 353496000509 ABC-ATPase subunit interface; other site 353496000510 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 353496000511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000512 dimer interface [polypeptide binding]; other site 353496000513 conserved gate region; other site 353496000514 putative PBP binding loops; other site 353496000515 ABC-ATPase subunit interface; other site 353496000516 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496000517 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496000518 peptide binding site [polypeptide binding]; other site 353496000519 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 353496000520 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 353496000521 active site 353496000522 metal binding site [ion binding]; metal-binding site 353496000523 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 353496000524 active site 353496000525 dimer interface [polypeptide binding]; other site 353496000526 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 353496000527 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 353496000528 Ligand Binding Site [chemical binding]; other site 353496000529 Molecular Tunnel; other site 353496000530 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 353496000531 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 353496000532 ATP-grasp domain; Region: ATP-grasp_4; cl17255 353496000533 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 353496000534 Class III ribonucleotide reductase; Region: RNR_III; cd01675 353496000535 effector binding site; other site 353496000536 active site 353496000537 Zn binding site [ion binding]; other site 353496000538 glycine loop; other site 353496000539 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 353496000540 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 353496000541 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 353496000542 potential frameshift: common BLAST hit: gi|313122976|ref|YP_004033235.1| hemerythrin hhe cation binding domain protein 353496000543 Uncharacterized conserved protein [Function unknown]; Region: COG2461 353496000544 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 353496000545 Major Facilitator Superfamily; Region: MFS_1; pfam07690 353496000546 putative substrate translocation pore; other site 353496000547 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 353496000548 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 353496000549 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 353496000550 active site 353496000551 Zn binding site [ion binding]; other site 353496000552 K+ potassium transporter; Region: K_trans; pfam02705 353496000553 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 353496000554 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 353496000555 Bacterial surface layer protein; Region: SLAP; pfam03217 353496000556 potential frameshift: common BLAST hit: gi|104773421|ref|YP_618401.1| amidase 353496000557 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 353496000558 Zn binding residues [ion binding]; other site 353496000559 substrate binding site [chemical binding]; other site 353496000560 Bacterial surface layer protein; Region: SLAP; pfam03217 353496000561 Bacterial surface layer protein; Region: SLAP; pfam03217 353496000562 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 353496000563 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 353496000564 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 353496000565 TrkA-N domain; Region: TrkA_N; pfam02254 353496000566 TrkA-C domain; Region: TrkA_C; pfam02080 353496000567 potential frameshift: common BLAST hit: gi|313122989|ref|YP_004033248.1| dehydrogenase related protein 353496000568 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 353496000569 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 353496000570 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 353496000571 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 353496000572 catalytic core [active] 353496000573 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 353496000574 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 353496000575 membrane protein; Provisional; Region: PRK14411 353496000576 Sulfatase; Region: Sulfatase; cl17466 353496000577 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 353496000578 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 353496000579 Dihydroneopterin aldolase; Region: FolB; pfam02152 353496000580 active site 353496000581 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 353496000582 catalytic center binding site [active] 353496000583 ATP binding site [chemical binding]; other site 353496000584 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 353496000585 GTP cyclohydrolase I; Provisional; Region: PLN03044 353496000586 active site 353496000587 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 353496000588 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 353496000589 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 353496000590 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 353496000591 dihydropteroate synthase; Region: DHPS; TIGR01496 353496000592 substrate binding pocket [chemical binding]; other site 353496000593 dimer interface [polypeptide binding]; other site 353496000594 inhibitor binding site; inhibition site 353496000595 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 353496000596 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000597 dimer interface [polypeptide binding]; other site 353496000598 conserved gate region; other site 353496000599 putative PBP binding loops; other site 353496000600 ABC-ATPase subunit interface; other site 353496000601 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000602 dimer interface [polypeptide binding]; other site 353496000603 conserved gate region; other site 353496000604 putative PBP binding loops; other site 353496000605 ABC-ATPase subunit interface; other site 353496000606 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 353496000607 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 353496000608 Walker A/P-loop; other site 353496000609 ATP binding site [chemical binding]; other site 353496000610 Q-loop/lid; other site 353496000611 ABC transporter signature motif; other site 353496000612 Walker B; other site 353496000613 D-loop; other site 353496000614 H-loop/switch region; other site 353496000615 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 353496000616 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496000617 substrate binding pocket [chemical binding]; other site 353496000618 membrane-bound complex binding site; other site 353496000619 hinge residues; other site 353496000620 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 353496000621 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 353496000622 active site 353496000623 HIGH motif; other site 353496000624 dimer interface [polypeptide binding]; other site 353496000625 KMSKS motif; other site 353496000626 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 353496000627 RNA binding surface [nucleotide binding]; other site 353496000628 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 353496000629 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 353496000630 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 353496000631 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 353496000632 metal binding site [ion binding]; metal-binding site 353496000633 dimer interface [polypeptide binding]; other site 353496000634 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 353496000635 S-methylmethionine transporter; Provisional; Region: PRK11387 353496000636 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 353496000637 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 353496000638 AAA ATPase domain; Region: AAA_16; pfam13191 353496000639 Uncharacterized conserved protein [Function unknown]; Region: COG3410 353496000640 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 353496000641 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 353496000642 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496000643 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 353496000644 peptide binding site [polypeptide binding]; other site 353496000645 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496000646 peptide binding site [polypeptide binding]; other site 353496000647 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 353496000648 potential frameshift: common BLAST hit: gi|313123005|ref|YP_004033264.1| peptide ABC transporter substrate-binding protein 353496000649 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496000650 potential frameshift: common BLAST hit: gi|313123005|ref|YP_004033264.1| peptide ABC transporter substrate-binding protein 353496000651 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496000652 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496000653 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496000654 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496000655 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496000656 peptide binding site [polypeptide binding]; other site 353496000657 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 353496000658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000659 dimer interface [polypeptide binding]; other site 353496000660 conserved gate region; other site 353496000661 putative PBP binding loops; other site 353496000662 ABC-ATPase subunit interface; other site 353496000663 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 353496000664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000665 dimer interface [polypeptide binding]; other site 353496000666 conserved gate region; other site 353496000667 putative PBP binding loops; other site 353496000668 ABC-ATPase subunit interface; other site 353496000669 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 353496000670 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 353496000671 Walker A/P-loop; other site 353496000672 ATP binding site [chemical binding]; other site 353496000673 Q-loop/lid; other site 353496000674 ABC transporter signature motif; other site 353496000675 Walker B; other site 353496000676 D-loop; other site 353496000677 H-loop/switch region; other site 353496000678 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 353496000679 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 353496000680 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 353496000681 Walker A/P-loop; other site 353496000682 ATP binding site [chemical binding]; other site 353496000683 Q-loop/lid; other site 353496000684 ABC transporter signature motif; other site 353496000685 Walker B; other site 353496000686 D-loop; other site 353496000687 H-loop/switch region; other site 353496000688 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 353496000689 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 353496000690 trimer interface [polypeptide binding]; other site 353496000691 active site 353496000692 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 353496000693 trimer interface [polypeptide binding]; other site 353496000694 active site 353496000695 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 353496000696 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 353496000697 putative dimer interface [polypeptide binding]; other site 353496000698 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 353496000699 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 353496000700 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 353496000701 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 353496000702 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 353496000703 GDP-binding site [chemical binding]; other site 353496000704 ACT binding site; other site 353496000705 IMP binding site; other site 353496000706 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 353496000707 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 353496000708 active site 353496000709 DNA polymerase IV; Reviewed; Region: PRK03103 353496000710 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 353496000711 active site 353496000712 DNA binding site [nucleotide binding] 353496000713 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 353496000714 xanthine permease; Region: pbuX; TIGR03173 353496000715 Sulfate transporter family; Region: Sulfate_transp; pfam00916 353496000716 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496000717 active site 353496000718 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 353496000719 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 353496000720 active site 353496000721 GMP synthase; Reviewed; Region: guaA; PRK00074 353496000722 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 353496000723 AMP/PPi binding site [chemical binding]; other site 353496000724 candidate oxyanion hole; other site 353496000725 catalytic triad [active] 353496000726 potential glutamine specificity residues [chemical binding]; other site 353496000727 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 353496000728 ATP Binding subdomain [chemical binding]; other site 353496000729 Ligand Binding sites [chemical binding]; other site 353496000730 Dimerization subdomain; other site 353496000731 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 353496000732 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 353496000733 Walker A/P-loop; other site 353496000734 ATP binding site [chemical binding]; other site 353496000735 Q-loop/lid; other site 353496000736 ABC transporter signature motif; other site 353496000737 Walker B; other site 353496000738 D-loop; other site 353496000739 H-loop/switch region; other site 353496000740 Cupin domain; Region: Cupin_2; pfam07883 353496000741 Helix-turn-helix domain; Region: HTH_18; pfam12833 353496000742 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 353496000743 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 353496000744 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496000745 substrate binding pocket [chemical binding]; other site 353496000746 membrane-bound complex binding site; other site 353496000747 hinge residues; other site 353496000748 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 353496000749 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496000750 Walker A/P-loop; other site 353496000751 ATP binding site [chemical binding]; other site 353496000752 Q-loop/lid; other site 353496000753 ABC transporter signature motif; other site 353496000754 Walker B; other site 353496000755 D-loop; other site 353496000756 H-loop/switch region; other site 353496000757 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 353496000758 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496000759 dimer interface [polypeptide binding]; other site 353496000760 conserved gate region; other site 353496000761 putative PBP binding loops; other site 353496000762 ABC-ATPase subunit interface; other site 353496000763 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 353496000764 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 353496000765 ATP-grasp domain; Region: ATP-grasp_4; cl17255 353496000766 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 353496000767 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 353496000768 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 353496000769 putative DNA binding site [nucleotide binding]; other site 353496000770 S-methylmethionine transporter; Provisional; Region: PRK11387 353496000771 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 353496000772 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 353496000773 putative deacylase active site [active] 353496000774 Chorismate mutase type II; Region: CM_2; pfam01817 353496000775 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 353496000776 MarR family; Region: MarR_2; pfam12802 353496000777 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 353496000778 active site 353496000779 homodimer interface [polypeptide binding]; other site 353496000780 potential frameshift: common BLAST hit: gi|313123044|ref|YP_004033303.1| phosphatase yida 353496000781 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 353496000782 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 353496000783 active site 353496000784 motif I; other site 353496000785 motif II; other site 353496000786 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 353496000787 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 353496000788 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 353496000789 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 353496000790 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 353496000791 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 353496000792 active site 353496000793 potential frameshift: common BLAST hit: gi|313123876|ref|YP_004034135.1| transposase, is30 family 353496000794 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496000795 Integrase core domain; Region: rve; pfam00665 353496000796 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496000797 Isochorismatase family; Region: Isochorismatase; pfam00857 353496000798 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 353496000799 catalytic triad [active] 353496000800 conserved cis-peptide bond; other site 353496000801 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 353496000802 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 353496000803 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 353496000804 Probable transposase; Region: OrfB_IS605; pfam01385 353496000805 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 353496000806 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 353496000807 Enterocin A Immunity; Region: EntA_Immun; pfam08951 353496000808 ABC-2 type transporter; Region: ABC2_membrane; cl17235 353496000809 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 353496000810 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496000811 Walker A/P-loop; other site 353496000812 ATP binding site [chemical binding]; other site 353496000813 Q-loop/lid; other site 353496000814 ABC transporter signature motif; other site 353496000815 Walker B; other site 353496000816 D-loop; other site 353496000817 H-loop/switch region; other site 353496000818 CAAX protease self-immunity; Region: Abi; pfam02517 353496000819 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 353496000820 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 353496000821 active site 353496000822 HIGH motif; other site 353496000823 dimer interface [polypeptide binding]; other site 353496000824 KMSKS motif; other site 353496000825 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 353496000826 catalytic motif [active] 353496000827 Zn binding site [ion binding]; other site 353496000828 magnesium-transporting ATPase; Provisional; Region: PRK15122 353496000829 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 353496000830 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 353496000831 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 353496000832 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 353496000833 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 353496000834 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 353496000835 active site 353496000836 HIGH motif; other site 353496000837 KMSKS motif; other site 353496000838 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 353496000839 tRNA binding surface [nucleotide binding]; other site 353496000840 anticodon binding site; other site 353496000841 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 353496000842 dimer interface [polypeptide binding]; other site 353496000843 putative tRNA-binding site [nucleotide binding]; other site 353496000844 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 353496000845 active site 353496000846 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 353496000847 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 353496000848 putative active site [active] 353496000849 putative metal binding site [ion binding]; other site 353496000850 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 353496000851 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 353496000852 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 353496000853 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 353496000854 pur operon repressor; Provisional; Region: PRK09213 353496000855 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 353496000856 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496000857 active site 353496000858 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 353496000859 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 353496000860 Substrate binding site; other site 353496000861 Mg++ binding site; other site 353496000862 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 353496000863 active site 353496000864 substrate binding site [chemical binding]; other site 353496000865 CoA binding site [chemical binding]; other site 353496000866 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 353496000867 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 353496000868 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496000869 active site 353496000870 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 353496000871 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 353496000872 Zn2+ binding site [ion binding]; other site 353496000873 Mg2+ binding site [ion binding]; other site 353496000874 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 353496000875 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 353496000876 CTP synthetase; Validated; Region: pyrG; PRK05380 353496000877 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 353496000878 Catalytic site [active] 353496000879 active site 353496000880 UTP binding site [chemical binding]; other site 353496000881 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 353496000882 active site 353496000883 putative oxyanion hole; other site 353496000884 catalytic triad [active] 353496000885 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 353496000886 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 353496000887 hinge; other site 353496000888 active site 353496000889 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 353496000890 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 353496000891 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 353496000892 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 353496000893 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 353496000894 DEAD-like helicases superfamily; Region: DEXDc; smart00487 353496000895 ATP binding site [chemical binding]; other site 353496000896 Mg++ binding site [ion binding]; other site 353496000897 motif III; other site 353496000898 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 353496000899 nucleotide binding region [chemical binding]; other site 353496000900 ATP-binding site [chemical binding]; other site 353496000901 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 353496000902 alanine racemase; Reviewed; Region: alr; PRK00053 353496000903 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 353496000904 active site 353496000905 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 353496000906 dimer interface [polypeptide binding]; other site 353496000907 substrate binding site [chemical binding]; other site 353496000908 catalytic residues [active] 353496000909 FOG: CBS domain [General function prediction only]; Region: COG0517 353496000910 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; cd02205 353496000911 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 353496000912 putative active site [active] 353496000913 catalytic residue [active] 353496000914 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 353496000915 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 353496000916 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 353496000917 ATP binding site [chemical binding]; other site 353496000918 putative Mg++ binding site [ion binding]; other site 353496000919 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 353496000920 nucleotide binding region [chemical binding]; other site 353496000921 ATP-binding site [chemical binding]; other site 353496000922 TRCF domain; Region: TRCF; pfam03461 353496000923 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 353496000924 RNA binding surface [nucleotide binding]; other site 353496000925 Septum formation initiator; Region: DivIC; pfam04977 353496000926 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 353496000927 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 353496000928 RNA binding site [nucleotide binding]; other site 353496000929 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 353496000930 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 353496000931 Ligand Binding Site [chemical binding]; other site 353496000932 TilS substrate C-terminal domain; Region: TilS_C; smart00977 353496000933 FtsH Extracellular; Region: FtsH_ext; pfam06480 353496000934 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 353496000935 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 353496000936 Walker A motif; other site 353496000937 ATP binding site [chemical binding]; other site 353496000938 Walker B motif; other site 353496000939 arginine finger; other site 353496000940 Peptidase family M41; Region: Peptidase_M41; pfam01434 353496000941 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 353496000942 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 353496000943 dimerization interface [polypeptide binding]; other site 353496000944 domain crossover interface; other site 353496000945 redox-dependent activation switch; other site 353496000946 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496000947 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496000948 peptide binding site [polypeptide binding]; other site 353496000949 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 353496000950 peptidase T; Region: peptidase-T; TIGR01882 353496000951 metal binding site [ion binding]; metal-binding site 353496000952 dimer interface [polypeptide binding]; other site 353496000953 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 353496000954 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 353496000955 FMN binding site [chemical binding]; other site 353496000956 active site 353496000957 catalytic residues [active] 353496000958 substrate binding site [chemical binding]; other site 353496000959 potential frameshift: common BLAST hit: gi|116513524|ref|YP_812430.1| Signal transduction diguanylate cyclase 353496000960 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 353496000961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 353496000962 metal binding site [ion binding]; metal-binding site 353496000963 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 353496000964 metal binding site [ion binding]; metal-binding site 353496000965 potential frameshift: common BLAST hit: gi|313123094|ref|YP_004033353.1| o-acetylhomoserine aminocarboxypropyltransferase/cysteine 353496000966 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 353496000967 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 353496000968 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 353496000969 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 353496000970 catalytic residue [active] 353496000971 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 353496000972 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 353496000973 Clp amino terminal domain; Region: Clp_N; pfam02861 353496000974 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 353496000975 Walker A motif; other site 353496000976 ATP binding site [chemical binding]; other site 353496000977 Walker B motif; other site 353496000978 arginine finger; other site 353496000979 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 353496000980 Walker A motif; other site 353496000981 ATP binding site [chemical binding]; other site 353496000982 Walker B motif; other site 353496000983 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 353496000984 DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; Region: RpoB; COG0085 353496000985 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 353496000986 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 353496000987 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 353496000988 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 353496000989 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 353496000990 RPB10 interaction site [polypeptide binding]; other site 353496000991 RPB1 interaction site [polypeptide binding]; other site 353496000992 RPB11 interaction site [polypeptide binding]; other site 353496000993 RPB3 interaction site [polypeptide binding]; other site 353496000994 RPB12 interaction site [polypeptide binding]; other site 353496000995 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 353496000996 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 353496000997 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 353496000998 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 353496000999 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 353496001000 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 353496001001 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 353496001002 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 353496001003 G-loop; other site 353496001004 DNA binding site [nucleotide binding] 353496001005 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 353496001006 S17 interaction site [polypeptide binding]; other site 353496001007 S8 interaction site; other site 353496001008 16S rRNA interaction site [nucleotide binding]; other site 353496001009 streptomycin interaction site [chemical binding]; other site 353496001010 23S rRNA interaction site [nucleotide binding]; other site 353496001011 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 353496001012 30S ribosomal protein S7; Validated; Region: PRK05302 353496001013 elongation factor G; Reviewed; Region: PRK12739 353496001014 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 353496001015 G1 box; other site 353496001016 putative GEF interaction site [polypeptide binding]; other site 353496001017 GTP/Mg2+ binding site [chemical binding]; other site 353496001018 Switch I region; other site 353496001019 G2 box; other site 353496001020 G3 box; other site 353496001021 Switch II region; other site 353496001022 G4 box; other site 353496001023 G5 box; other site 353496001024 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 353496001025 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 353496001026 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 353496001027 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 353496001028 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 353496001029 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 353496001030 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 353496001031 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 353496001032 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 353496001033 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 353496001034 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 353496001035 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 353496001036 putative translocon binding site; other site 353496001037 protein-rRNA interface [nucleotide binding]; other site 353496001038 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 353496001039 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 353496001040 G-X-X-G motif; other site 353496001041 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 353496001042 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 353496001043 23S rRNA interface [nucleotide binding]; other site 353496001044 5S rRNA interface [nucleotide binding]; other site 353496001045 putative antibiotic binding site [chemical binding]; other site 353496001046 L25 interface [polypeptide binding]; other site 353496001047 L27 interface [polypeptide binding]; other site 353496001048 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 353496001049 23S rRNA interface [nucleotide binding]; other site 353496001050 putative translocon interaction site; other site 353496001051 signal recognition particle (SRP54) interaction site; other site 353496001052 L23 interface [polypeptide binding]; other site 353496001053 trigger factor interaction site; other site 353496001054 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 353496001055 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 353496001056 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 353496001057 RNA binding site [nucleotide binding]; other site 353496001058 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 353496001059 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 353496001060 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 353496001061 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 353496001062 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 353496001063 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 353496001064 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 353496001065 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 353496001066 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 353496001067 5S rRNA interface [nucleotide binding]; other site 353496001068 L27 interface [polypeptide binding]; other site 353496001069 23S rRNA interface [nucleotide binding]; other site 353496001070 L5 interface [polypeptide binding]; other site 353496001071 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 353496001072 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 353496001073 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 353496001074 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 353496001075 23S rRNA binding site [nucleotide binding]; other site 353496001076 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 353496001077 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 353496001078 SecY translocase; Region: SecY; pfam00344 353496001079 adenylate kinase; Reviewed; Region: adk; PRK00279 353496001080 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 353496001081 AMP-binding site [chemical binding]; other site 353496001082 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 353496001083 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 353496001084 rRNA binding site [nucleotide binding]; other site 353496001085 predicted 30S ribosome binding site; other site 353496001086 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 353496001087 30S ribosomal protein S13; Region: bact_S13; TIGR03631 353496001088 30S ribosomal protein S11; Validated; Region: PRK05309 353496001089 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 353496001090 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 353496001091 alphaNTD homodimer interface [polypeptide binding]; other site 353496001092 alphaNTD - beta interaction site [polypeptide binding]; other site 353496001093 alphaNTD - beta' interaction site [polypeptide binding]; other site 353496001094 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 353496001095 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 353496001096 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13640 353496001097 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496001098 Walker A/P-loop; other site 353496001099 ATP binding site [chemical binding]; other site 353496001100 Q-loop/lid; other site 353496001101 ABC transporter signature motif; other site 353496001102 Walker B; other site 353496001103 D-loop; other site 353496001104 H-loop/switch region; other site 353496001105 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13641 353496001106 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496001107 Walker A/P-loop; other site 353496001108 ATP binding site [chemical binding]; other site 353496001109 Q-loop/lid; other site 353496001110 ABC transporter signature motif; other site 353496001111 Walker B; other site 353496001112 D-loop; other site 353496001113 H-loop/switch region; other site 353496001114 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 353496001115 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 353496001116 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 353496001117 dimerization interface 3.5A [polypeptide binding]; other site 353496001118 active site 353496001119 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 353496001120 23S rRNA interface [nucleotide binding]; other site 353496001121 L3 interface [polypeptide binding]; other site 353496001122 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 353496001123 potential frameshift: common BLAST hit: gi|313123151|ref|YP_004033410.1| peptide ABC transporter substrate-binding protein 353496001124 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496001125 potential frameshift: common BLAST hit: gi|313123151|ref|YP_004033410.1| peptide ABC transporter substrate-binding protein 353496001126 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496001127 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496001128 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496001129 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 353496001130 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 353496001131 nudix motif; other site 353496001132 potential frameshift: common BLAST hit: gi|295693726|ref|YP_003602336.1| transposase 353496001133 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 353496001134 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 353496001135 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 353496001136 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 353496001137 putative substrate translocation pore; other site 353496001138 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 353496001139 substrate binding site [chemical binding]; other site 353496001140 aromatic amino acid aminotransferase; Validated; Region: PRK07309 353496001141 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 353496001142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 353496001143 homodimer interface [polypeptide binding]; other site 353496001144 catalytic residue [active] 353496001145 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 353496001146 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 353496001147 potential frameshift: common BLAST hit: gi|313123158|ref|YP_004033417.1| oligopeptide ABC superfamily ATP binding cassette transporter 353496001148 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496001149 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496001150 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 353496001151 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 353496001152 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 353496001153 DNA-binding site [nucleotide binding]; DNA binding site 353496001154 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 353496001155 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 353496001156 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 353496001157 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 353496001158 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 353496001159 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 353496001160 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 353496001161 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 353496001162 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 353496001163 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 353496001164 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 353496001165 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 353496001166 homodimer interface [polypeptide binding]; other site 353496001167 NAD binding pocket [chemical binding]; other site 353496001168 ATP binding pocket [chemical binding]; other site 353496001169 Mg binding site [ion binding]; other site 353496001170 active-site loop [active] 353496001171 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 353496001172 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 353496001173 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 353496001174 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 353496001175 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 353496001176 motif II; other site 353496001177 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 353496001178 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 353496001179 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 353496001180 Walker A/P-loop; other site 353496001181 ATP binding site [chemical binding]; other site 353496001182 Q-loop/lid; other site 353496001183 ABC transporter signature motif; other site 353496001184 Walker B; other site 353496001185 D-loop; other site 353496001186 H-loop/switch region; other site 353496001187 SprT homologues; Region: SprT; cl01182 353496001188 hypothetical protein; Provisional; Region: PRK04351 353496001189 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 353496001190 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 353496001191 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 353496001192 Part of AAA domain; Region: AAA_19; pfam13245 353496001193 Family description; Region: UvrD_C_2; pfam13538 353496001194 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 353496001195 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 353496001196 nucleotide binding pocket [chemical binding]; other site 353496001197 K-X-D-G motif; other site 353496001198 catalytic site [active] 353496001199 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 353496001200 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 353496001201 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 353496001202 Dimer interface [polypeptide binding]; other site 353496001203 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 353496001204 putative dimer interface [polypeptide binding]; other site 353496001205 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 353496001206 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 353496001207 putative dimer interface [polypeptide binding]; other site 353496001208 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 353496001209 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 353496001210 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 353496001211 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 353496001212 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 353496001213 GatB domain; Region: GatB_Yqey; smart00845 353496001214 putative lipid kinase; Reviewed; Region: PRK13337 353496001215 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 353496001216 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 353496001217 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 353496001218 TRAM domain; Region: TRAM; pfam01938 353496001219 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 353496001220 S-adenosylmethionine binding site [chemical binding]; other site 353496001221 Mrr N-terminal domain; Region: Mrr_N; pfam14338 353496001222 Restriction endonuclease; Region: Mrr_cat; pfam04471 353496001223 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 353496001224 active site 353496001225 zinc binding site [ion binding]; other site 353496001226 potential frameshift: common BLAST hit: gi|184155637|ref|YP_001843977.1| carbamoyl-phosphate synthase large subunit 353496001227 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 353496001228 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 353496001229 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 353496001230 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 353496001231 Soluble P-type ATPase [General function prediction only]; Region: COG4087 353496001232 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 353496001233 metal-binding site [ion binding] 353496001234 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 353496001235 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 353496001236 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 353496001237 ligand binding site [chemical binding]; other site 353496001238 flexible hinge region; other site 353496001239 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 353496001240 putative switch regulator; other site 353496001241 non-specific DNA interactions [nucleotide binding]; other site 353496001242 DNA binding site [nucleotide binding] 353496001243 sequence specific DNA binding site [nucleotide binding]; other site 353496001244 putative cAMP binding site [chemical binding]; other site 353496001245 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 353496001246 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 353496001247 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 353496001248 active site 353496001249 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 353496001250 putative NADH binding site [chemical binding]; other site 353496001251 putative active site [active] 353496001252 nudix motif; other site 353496001253 putative metal binding site [ion binding]; other site 353496001254 potential frameshift: common BLAST hit: gi|313123201|ref|YP_004033460.1| signal transduction diguanylate cyclase 353496001255 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 353496001256 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 353496001257 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 353496001258 putative DNA binding site [nucleotide binding]; other site 353496001259 putative Zn2+ binding site [ion binding]; other site 353496001260 AsnC family; Region: AsnC_trans_reg; pfam01037 353496001261 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 353496001262 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 353496001263 glutaminase active site [active] 353496001264 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 353496001265 dimer interface [polypeptide binding]; other site 353496001266 active site 353496001267 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 353496001268 dimer interface [polypeptide binding]; other site 353496001269 active site 353496001270 HTH domain; Region: HTH_11; pfam08279 353496001271 potential frameshift: common BLAST hit: gi|313123210|ref|YP_004033469.1| mannitol-1-phosphate 5-dehydrogenase 353496001272 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 353496001273 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 353496001274 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 353496001275 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 353496001276 Predicted permeases [General function prediction only]; Region: COG0679 353496001277 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 353496001278 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496001279 Walker A/P-loop; other site 353496001280 ATP binding site [chemical binding]; other site 353496001281 Q-loop/lid; other site 353496001282 ABC transporter signature motif; other site 353496001283 Walker B; other site 353496001284 D-loop; other site 353496001285 H-loop/switch region; other site 353496001286 ABC transporter; Region: ABC_tran_2; pfam12848 353496001287 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 353496001288 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 353496001289 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 353496001290 drug efflux system protein MdtG; Provisional; Region: PRK09874 353496001291 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 353496001292 putative substrate translocation pore; other site 353496001293 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 353496001294 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 353496001295 glutamate racemase; Provisional; Region: PRK00865 353496001296 Peptidase family C69; Region: Peptidase_C69; pfam03577 353496001297 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 353496001298 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 353496001299 oligomer interface [polypeptide binding]; other site 353496001300 active site 353496001301 metal binding site [ion binding]; metal-binding site 353496001302 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 353496001303 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 353496001304 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 353496001305 ATP-binding site [chemical binding]; other site 353496001306 Sugar specificity; other site 353496001307 Pyrimidine base specificity; other site 353496001308 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 353496001309 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 353496001310 Sugar specificity; other site 353496001311 Pyrimidine base specificity; other site 353496001312 ATP-binding site [chemical binding]; other site 353496001313 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 353496001314 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 353496001315 Walker A/P-loop; other site 353496001316 ATP binding site [chemical binding]; other site 353496001317 Q-loop/lid; other site 353496001318 ABC transporter signature motif; other site 353496001319 Walker B; other site 353496001320 D-loop; other site 353496001321 H-loop/switch region; other site 353496001322 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 353496001323 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496001324 substrate binding pocket [chemical binding]; other site 353496001325 membrane-bound complex binding site; other site 353496001326 hinge residues; other site 353496001327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496001328 dimer interface [polypeptide binding]; other site 353496001329 conserved gate region; other site 353496001330 putative PBP binding loops; other site 353496001331 ABC-ATPase subunit interface; other site 353496001332 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496001333 dimer interface [polypeptide binding]; other site 353496001334 conserved gate region; other site 353496001335 putative PBP binding loops; other site 353496001336 ABC-ATPase subunit interface; other site 353496001337 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 353496001338 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496001339 substrate binding pocket [chemical binding]; other site 353496001340 membrane-bound complex binding site; other site 353496001341 hinge residues; other site 353496001342 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 353496001343 polyphosphate kinase; Provisional; Region: PRK05443 353496001344 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 353496001345 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 353496001346 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 353496001347 putative domain interface [polypeptide binding]; other site 353496001348 putative active site [active] 353496001349 catalytic site [active] 353496001350 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 353496001351 putative domain interface [polypeptide binding]; other site 353496001352 putative active site [active] 353496001353 catalytic site [active] 353496001354 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 353496001355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 353496001356 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 353496001357 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 353496001358 substrate binding site [chemical binding]; other site 353496001359 dimer interface [polypeptide binding]; other site 353496001360 ATP binding site [chemical binding]; other site 353496001361 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 353496001362 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 353496001363 substrate binding site [chemical binding]; other site 353496001364 hexamer interface [polypeptide binding]; other site 353496001365 metal binding site [ion binding]; metal-binding site 353496001366 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 353496001367 tetramer (dimer of dimers) interface [polypeptide binding]; other site 353496001368 active site 353496001369 dimer interface [polypeptide binding]; other site 353496001370 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 353496001371 active site 353496001372 tetramer interface [polypeptide binding]; other site 353496001373 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 353496001374 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 353496001375 DNA-binding site [nucleotide binding]; DNA binding site 353496001376 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 353496001377 putative phosphoketolase; Provisional; Region: PRK05261 353496001378 XFP N-terminal domain; Region: XFP_N; pfam09364 353496001379 XFP C-terminal domain; Region: XFP_C; pfam09363 353496001380 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 353496001381 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 353496001382 Domain of unknown function DUF21; Region: DUF21; pfam01595 353496001383 FOG: CBS domain [General function prediction only]; Region: COG0517 353496001384 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 353496001385 Transporter associated domain; Region: CorC_HlyC; smart01091 353496001386 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496001387 active site 353496001388 amino acid transporter; Region: 2A0306; TIGR00909 353496001389 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 353496001390 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 353496001391 active site 353496001392 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 353496001393 DEAD-like helicases superfamily; Region: DEXDc; smart00487 353496001394 ATP binding site [chemical binding]; other site 353496001395 putative Mg++ binding site [ion binding]; other site 353496001396 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 353496001397 nucleotide binding region [chemical binding]; other site 353496001398 ATP-binding site [chemical binding]; other site 353496001399 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 353496001400 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 353496001401 potential frameshift: common BLAST hit: gi|116513658|ref|YP_812564.1| membrane protein, putative toxin regulator 353496001402 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 353496001403 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 353496001404 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 353496001405 uracil transporter; Provisional; Region: PRK10720 353496001406 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 353496001407 Aluminium resistance protein; Region: Alum_res; pfam06838 353496001408 putative ornithine decarboxylase; Region: lacto_ODC_hypo; TIGR04318 353496001409 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 353496001410 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 353496001411 catalytic residue [active] 353496001412 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 353496001413 Amino acid permease; Region: AA_permease_2; pfam13520 353496001414 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 353496001415 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 353496001416 active site 353496001417 homodimer interface [polypeptide binding]; other site 353496001418 Predicted membrane protein [Function unknown]; Region: COG2246 353496001419 GtrA-like protein; Region: GtrA; pfam04138 353496001420 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 353496001421 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 353496001422 methionine aminopeptidase; Provisional; Region: PRK08671 353496001423 active site 353496001424 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 353496001425 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 353496001426 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 353496001427 active site 353496001428 tetramer interface; other site 353496001429 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 353496001430 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 353496001431 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 353496001432 TRAM domain; Region: TRAM; pfam01938 353496001433 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 353496001434 S-adenosylmethionine binding site [chemical binding]; other site 353496001435 recombination regulator RecX; Provisional; Region: recX; PRK14135 353496001436 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 353496001437 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 353496001438 Transporter associated domain; Region: CorC_HlyC; smart01091 353496001439 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 353496001440 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 353496001441 G1 box; other site 353496001442 putative GEF interaction site [polypeptide binding]; other site 353496001443 GTP/Mg2+ binding site [chemical binding]; other site 353496001444 Switch I region; other site 353496001445 G2 box; other site 353496001446 G3 box; other site 353496001447 Switch II region; other site 353496001448 G4 box; other site 353496001449 G5 box; other site 353496001450 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 353496001451 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 353496001452 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 353496001453 Multicopper oxidase; Region: Cu-oxidase; pfam00394 353496001454 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 353496001455 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 353496001456 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 353496001457 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 353496001458 Walker A motif; other site 353496001459 ATP binding site [chemical binding]; other site 353496001460 Walker B motif; other site 353496001461 arginine finger; other site 353496001462 UvrB/uvrC motif; Region: UVR; pfam02151 353496001463 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 353496001464 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 353496001465 Walker A motif; other site 353496001466 ATP binding site [chemical binding]; other site 353496001467 Walker B motif; other site 353496001468 arginine finger; other site 353496001469 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 353496001470 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 353496001471 dimerization domain swap beta strand [polypeptide binding]; other site 353496001472 regulatory protein interface [polypeptide binding]; other site 353496001473 active site 353496001474 regulatory phosphorylation site [posttranslational modification]; other site 353496001475 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 353496001476 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 353496001477 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 353496001478 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 353496001479 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 353496001480 ArsC family; Region: ArsC; pfam03960 353496001481 putative catalytic residues [active] 353496001482 thiol/disulfide switch; other site 353496001483 adaptor protein; Provisional; Region: PRK02315 353496001484 Competence protein CoiA-like family; Region: CoiA; cl11541 353496001485 Thioredoxin; Region: Thioredoxin_5; pfam13743 353496001486 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 353496001487 putative active site [active] 353496001488 putative metal binding residues [ion binding]; other site 353496001489 signature motif; other site 353496001490 putative triphosphate binding site [ion binding]; other site 353496001491 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 353496001492 synthetase active site [active] 353496001493 NTP binding site [chemical binding]; other site 353496001494 metal binding site [ion binding]; metal-binding site 353496001495 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 353496001496 ATP-NAD kinase; Region: NAD_kinase; pfam01513 353496001497 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 353496001498 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 353496001499 active site 353496001500 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 353496001501 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 353496001502 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 353496001503 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 353496001504 Domain of unknown function DUF20; Region: UPF0118; pfam01594 353496001505 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 353496001506 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 353496001507 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 353496001508 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 353496001509 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 353496001510 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 353496001511 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 353496001512 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 353496001513 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 353496001514 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 353496001515 classical (c) SDRs; Region: SDR_c; cd05233 353496001516 NAD(P) binding site [chemical binding]; other site 353496001517 active site 353496001518 potential frameshift: common BLAST hit: gi|116513704|ref|YP_812610.1| XRE-like DNA-binding protein 353496001519 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 353496001520 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 353496001521 non-specific DNA binding site [nucleotide binding]; other site 353496001522 salt bridge; other site 353496001523 sequence-specific DNA binding site [nucleotide binding]; other site 353496001524 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 353496001525 recombinase A; Provisional; Region: recA; PRK09354 353496001526 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 353496001527 hexamer interface [polypeptide binding]; other site 353496001528 Walker A motif; other site 353496001529 ATP binding site [chemical binding]; other site 353496001530 Walker B motif; other site 353496001531 phosphodiesterase; Provisional; Region: PRK12704 353496001532 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 353496001533 Zn2+ binding site [ion binding]; other site 353496001534 Mg2+ binding site [ion binding]; other site 353496001535 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 353496001536 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 353496001537 Mg++ binding site [ion binding]; other site 353496001538 putative catalytic motif [active] 353496001539 substrate binding site [chemical binding]; other site 353496001540 Uncharacterized conserved protein [Function unknown]; Region: COG1739 353496001541 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 353496001542 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 353496001543 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 353496001544 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 353496001545 ATP binding site [chemical binding]; other site 353496001546 putative Mg++ binding site [ion binding]; other site 353496001547 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 353496001548 nucleotide binding region [chemical binding]; other site 353496001549 ATP-binding site [chemical binding]; other site 353496001550 comF family protein; Region: comF; TIGR00201 353496001551 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496001552 active site 353496001553 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 353496001554 30S subunit binding site; other site 353496001555 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 353496001556 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 353496001557 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 353496001558 nucleotide binding region [chemical binding]; other site 353496001559 ATP-binding site [chemical binding]; other site 353496001560 peptide chain release factor 2; Provisional; Region: PRK05589 353496001561 This domain is found in peptide chain release factors; Region: PCRF; smart00937 353496001562 RF-1 domain; Region: RF-1; pfam00472 353496001563 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 353496001564 HPr kinase/phosphorylase; Provisional; Region: PRK05428 353496001565 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 353496001566 Hpr binding site; other site 353496001567 active site 353496001568 homohexamer subunit interaction site [polypeptide binding]; other site 353496001569 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 353496001570 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 353496001571 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 353496001572 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 353496001573 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 353496001574 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 353496001575 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 353496001576 excinuclease ABC subunit B; Provisional; Region: PRK05298 353496001577 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 353496001578 ATP binding site [chemical binding]; other site 353496001579 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 353496001580 nucleotide binding region [chemical binding]; other site 353496001581 ATP-binding site [chemical binding]; other site 353496001582 Ultra-violet resistance protein B; Region: UvrB; pfam12344 353496001583 UvrB/uvrC motif; Region: UVR; pfam02151 353496001584 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 353496001585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496001586 Q-loop/lid; other site 353496001587 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 353496001588 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 353496001589 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 353496001590 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA; cl01007 353496001591 active site 353496001592 metal binding site [ion binding]; metal-binding site 353496001593 homopentamer interface [polypeptide binding]; other site 353496001594 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 353496001595 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 353496001596 AAA domain; Region: AAA_18; pfam13238 353496001597 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 353496001598 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 353496001599 phosphate binding site [ion binding]; other site 353496001600 putative substrate binding pocket [chemical binding]; other site 353496001601 dimer interface [polypeptide binding]; other site 353496001602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 353496001603 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 353496001604 Clp protease; Region: CLP_protease; pfam00574 353496001605 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 353496001606 oligomer interface [polypeptide binding]; other site 353496001607 active site residues [active] 353496001608 SH3-like domain; Region: SH3_8; pfam13457 353496001609 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 353496001610 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 353496001611 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 353496001612 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496001613 Walker A/P-loop; other site 353496001614 ATP binding site [chemical binding]; other site 353496001615 Q-loop/lid; other site 353496001616 ABC transporter signature motif; other site 353496001617 Walker B; other site 353496001618 D-loop; other site 353496001619 H-loop/switch region; other site 353496001620 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 353496001621 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 353496001622 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 353496001623 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 353496001624 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 353496001625 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 353496001626 Phosphoglycerate kinase; Region: PGK; pfam00162 353496001627 substrate binding site [chemical binding]; other site 353496001628 hinge regions; other site 353496001629 ADP binding site [chemical binding]; other site 353496001630 catalytic site [active] 353496001631 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 353496001632 triosephosphate isomerase; Provisional; Region: PRK14567 353496001633 substrate binding site [chemical binding]; other site 353496001634 dimer interface [polypeptide binding]; other site 353496001635 catalytic triad [active] 353496001636 potential frameshift: common BLAST hit: gi|313123340|ref|YP_004033599.1| acetyltransferase, gnat family 353496001637 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496001638 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 353496001639 Coenzyme A binding pocket [chemical binding]; other site 353496001640 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 353496001641 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 353496001642 active site 353496001643 motif I; other site 353496001644 motif II; other site 353496001645 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 353496001646 motif II; other site 353496001647 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 353496001648 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 353496001649 ligand binding site [chemical binding]; other site 353496001650 active site 353496001651 UGI interface [polypeptide binding]; other site 353496001652 catalytic site [active] 353496001653 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 353496001654 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 353496001655 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 353496001656 active site 353496001657 catalytic site [active] 353496001658 substrate binding site [chemical binding]; other site 353496001659 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 353496001660 FAD binding domain; Region: FAD_binding_4; pfam01565 353496001661 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 353496001662 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 353496001663 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 353496001664 Walker A/P-loop; other site 353496001665 ATP binding site [chemical binding]; other site 353496001666 Q-loop/lid; other site 353496001667 ABC transporter signature motif; other site 353496001668 Walker B; other site 353496001669 D-loop; other site 353496001670 H-loop/switch region; other site 353496001671 TOBE domain; Region: TOBE_2; pfam08402 353496001672 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 353496001673 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496001674 dimer interface [polypeptide binding]; other site 353496001675 conserved gate region; other site 353496001676 putative PBP binding loops; other site 353496001677 ABC-ATPase subunit interface; other site 353496001678 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 353496001679 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496001680 dimer interface [polypeptide binding]; other site 353496001681 conserved gate region; other site 353496001682 ABC-ATPase subunit interface; other site 353496001683 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 353496001684 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 353496001685 Uncharacterized conserved protein [Function unknown]; Region: COG1624 353496001686 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 353496001687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 353496001688 YbbR-like protein; Region: YbbR; pfam07949 353496001689 YbbR-like protein; Region: YbbR; pfam07949 353496001690 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 353496001691 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 353496001692 active site 353496001693 substrate binding site [chemical binding]; other site 353496001694 metal binding site [ion binding]; metal-binding site 353496001695 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 353496001696 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 353496001697 active site 353496001698 motif I; other site 353496001699 motif II; other site 353496001700 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 353496001701 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 353496001702 Beta-lactamase; Region: Beta-lactamase; pfam00144 353496001703 Beta-lactamase; Region: Beta-lactamase; cl17358 353496001704 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 353496001705 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 353496001706 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 353496001707 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 353496001708 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 353496001709 motif II; other site 353496001710 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 353496001711 camphor resistance protein CrcB; Provisional; Region: PRK14220 353496001712 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 353496001713 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 353496001714 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 353496001715 metal binding site [ion binding]; metal-binding site 353496001716 active site 353496001717 I-site; other site 353496001718 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 353496001719 potential frameshift: common BLAST hit: gi|116513761|ref|YP_812667.1| Signal transduction diguanylate cyclase 353496001720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 353496001721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 353496001722 metal binding site [ion binding]; metal-binding site 353496001723 active site 353496001724 I-site; other site 353496001725 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 353496001726 Low molecular weight phosphatase family; Region: LMWPc; cd00115 353496001727 active site 353496001728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 353496001729 NADH(P)-binding; Region: NAD_binding_10; pfam13460 353496001730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 353496001731 Amino acid permease; Region: AA_permease_2; pfam13520 353496001732 methionine sulfoxide reductase A; Provisional; Region: PRK14054 353496001733 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 353496001734 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 353496001735 active site 353496001736 nucleophile elbow; other site 353496001737 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 353496001738 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 353496001739 intersubunit interface [polypeptide binding]; other site 353496001740 potential frameshift: common BLAST hit: gi|116513770|ref|YP_812676.1| integral membrane protein 353496001741 hypothetical protein; Validated; Region: PRK00110 353496001742 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 353496001743 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 353496001744 Walker A motif; other site 353496001745 ATP binding site [chemical binding]; other site 353496001746 Walker B motif; other site 353496001747 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 353496001748 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 353496001749 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 353496001750 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 353496001751 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 353496001752 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 353496001753 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 353496001754 S-adenosylmethionine binding site [chemical binding]; other site 353496001755 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 353496001756 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 353496001757 propionate/acetate kinase; Provisional; Region: PRK12379 353496001758 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 353496001759 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 353496001760 active site 353496001761 phosphorylation site [posttranslational modification] 353496001762 intermolecular recognition site; other site 353496001763 dimerization interface [polypeptide binding]; other site 353496001764 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 353496001765 DNA binding site [nucleotide binding] 353496001766 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 353496001767 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 353496001768 dimerization interface [polypeptide binding]; other site 353496001769 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 353496001770 dimer interface [polypeptide binding]; other site 353496001771 phosphorylation site [posttranslational modification] 353496001772 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 353496001773 ATP binding site [chemical binding]; other site 353496001774 Mg2+ binding site [ion binding]; other site 353496001775 G-X-G motif; other site 353496001776 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 353496001777 Sulfatase; Region: Sulfatase; pfam00884 353496001778 VanZ like family; Region: VanZ; pfam04892 353496001779 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 353496001780 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 353496001781 active site 353496001782 dimer interface [polypeptide binding]; other site 353496001783 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 353496001784 dimer interface [polypeptide binding]; other site 353496001785 active site 353496001786 potential frameshift: common BLAST hit: gi|313123151|ref|YP_004033410.1| peptide ABC transporter substrate-binding protein 353496001787 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496001788 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496001789 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496001790 peptide binding site [polypeptide binding]; other site 353496001791 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 353496001792 Beta-lactamase; Region: Beta-lactamase; pfam00144 353496001793 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 353496001794 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 353496001795 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 353496001796 thymidine kinase; Provisional; Region: PRK04296 353496001797 peptide chain release factor 1; Validated; Region: prfA; PRK00591 353496001798 This domain is found in peptide chain release factors; Region: PCRF; smart00937 353496001799 RF-1 domain; Region: RF-1; pfam00472 353496001800 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 353496001801 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 353496001802 S-adenosylmethionine binding site [chemical binding]; other site 353496001803 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 353496001804 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 353496001805 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496001806 active site 353496001807 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 353496001808 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 353496001809 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 353496001810 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 353496001811 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 353496001812 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 353496001813 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 353496001814 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 353496001815 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 353496001816 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 353496001817 beta subunit interaction interface [polypeptide binding]; other site 353496001818 Walker A motif; other site 353496001819 ATP binding site [chemical binding]; other site 353496001820 Walker B motif; other site 353496001821 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 353496001822 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 353496001823 core domain interface [polypeptide binding]; other site 353496001824 delta subunit interface [polypeptide binding]; other site 353496001825 epsilon subunit interface [polypeptide binding]; other site 353496001826 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 353496001827 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 353496001828 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 353496001829 alpha subunit interaction interface [polypeptide binding]; other site 353496001830 Walker A motif; other site 353496001831 ATP binding site [chemical binding]; other site 353496001832 Walker B motif; other site 353496001833 inhibitor binding site; inhibition site 353496001834 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 353496001835 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 353496001836 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 353496001837 gamma subunit interface [polypeptide binding]; other site 353496001838 epsilon subunit interface [polypeptide binding]; other site 353496001839 LBP interface [polypeptide binding]; other site 353496001840 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 353496001841 rod shape-determining protein MreB; Provisional; Region: PRK13930 353496001842 MreB and similar proteins; Region: MreB_like; cd10225 353496001843 nucleotide binding site [chemical binding]; other site 353496001844 Mg binding site [ion binding]; other site 353496001845 putative protofilament interaction site [polypeptide binding]; other site 353496001846 RodZ interaction site [polypeptide binding]; other site 353496001847 hypothetical protein; Provisional; Region: PRK14379 353496001848 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 353496001849 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 353496001850 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 353496001851 Ligand Binding Site [chemical binding]; other site 353496001852 recombination factor protein RarA; Reviewed; Region: PRK13342 353496001853 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 353496001854 Walker A motif; other site 353496001855 ATP binding site [chemical binding]; other site 353496001856 Walker B motif; other site 353496001857 arginine finger; other site 353496001858 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 353496001859 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 353496001860 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 353496001861 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 353496001862 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 353496001863 RNA binding surface [nucleotide binding]; other site 353496001864 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 353496001865 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 353496001866 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 353496001867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 353496001868 catalytic residue [active] 353496001869 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 353496001870 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 353496001871 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 353496001872 Ligand Binding Site [chemical binding]; other site 353496001873 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 353496001874 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 353496001875 RNA binding surface [nucleotide binding]; other site 353496001876 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 353496001877 active site 353496001878 uracil binding [chemical binding]; other site 353496001879 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 353496001880 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 353496001881 active site 353496001882 HIGH motif; other site 353496001883 nucleotide binding site [chemical binding]; other site 353496001884 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 353496001885 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 353496001886 active site 353496001887 KMSKS motif; other site 353496001888 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 353496001889 tRNA binding surface [nucleotide binding]; other site 353496001890 anticodon binding site; other site 353496001891 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 353496001892 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 353496001893 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 353496001894 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 353496001895 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 353496001896 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 353496001897 motif II; other site 353496001898 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 353496001899 MPN+ (JAMM) motif; other site 353496001900 Zinc-binding site [ion binding]; other site 353496001901 rod shape-determining protein MreB; Provisional; Region: PRK13927 353496001902 MreB and similar proteins; Region: MreB_like; cd10225 353496001903 nucleotide binding site [chemical binding]; other site 353496001904 Mg binding site [ion binding]; other site 353496001905 putative protofilament interaction site [polypeptide binding]; other site 353496001906 RodZ interaction site [polypeptide binding]; other site 353496001907 rod shape-determining protein MreC; Provisional; Region: PRK13922 353496001908 rod shape-determining protein MreC; Region: MreC; pfam04085 353496001909 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 353496001910 cell division protein MraZ; Reviewed; Region: PRK00326 353496001911 MraZ protein; Region: MraZ; pfam02381 353496001912 MraZ protein; Region: MraZ; pfam02381 353496001913 MraW methylase family; Region: Methyltransf_5; pfam01795 353496001914 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 353496001915 cell division protein FtsL; Region: ftsL_broad; TIGR02209 353496001916 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 353496001917 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 353496001918 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 353496001919 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 353496001920 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 353496001921 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 353496001922 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 353496001923 Mg++ binding site [ion binding]; other site 353496001924 putative catalytic motif [active] 353496001925 putative substrate binding site [chemical binding]; other site 353496001926 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 353496001927 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 353496001928 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 353496001929 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 353496001930 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 353496001931 active site 353496001932 homodimer interface [polypeptide binding]; other site 353496001933 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 353496001934 Cell division protein FtsQ; Region: FtsQ; pfam03799 353496001935 cell division protein FtsA; Region: ftsA; TIGR01174 353496001936 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 353496001937 nucleotide binding site [chemical binding]; other site 353496001938 Cell division protein FtsA; Region: FtsA; cl17206 353496001939 Cell division protein FtsA; Region: FtsA; pfam14450 353496001940 cell division protein FtsZ; Validated; Region: PRK09330 353496001941 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 353496001942 nucleotide binding site [chemical binding]; other site 353496001943 SulA interaction site; other site 353496001944 Protein of unknown function (DUF552); Region: DUF552; cl00775 353496001945 YGGT family; Region: YGGT; pfam02325 353496001946 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 353496001947 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 353496001948 RNA binding surface [nucleotide binding]; other site 353496001949 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 353496001950 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 353496001951 active site 353496001952 HIGH motif; other site 353496001953 nucleotide binding site [chemical binding]; other site 353496001954 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 353496001955 active site 353496001956 KMSKS motif; other site 353496001957 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 353496001958 tRNA binding surface [nucleotide binding]; other site 353496001959 anticodon binding site; other site 353496001960 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 353496001961 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 353496001962 DNA-binding site [nucleotide binding]; DNA binding site 353496001963 RNA-binding motif; other site 353496001964 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 353496001965 dimer interface [polypeptide binding]; other site 353496001966 ADP-ribose binding site [chemical binding]; other site 353496001967 active site 353496001968 nudix motif; other site 353496001969 metal binding site [ion binding]; metal-binding site 353496001970 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 353496001971 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 353496001972 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 353496001973 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 353496001974 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 353496001975 catalytic residue [active] 353496001976 Putative amino acid metabolism; Region: DUF1831; pfam08866 353496001977 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 353496001978 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 353496001979 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 353496001980 catalytic core [active] 353496001981 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 353496001982 binding surface 353496001983 TPR motif; other site 353496001984 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 353496001985 binding surface 353496001986 TPR motif; other site 353496001987 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 353496001988 AAA domain; Region: AAA_30; pfam13604 353496001989 Family description; Region: UvrD_C_2; pfam13538 353496001990 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 353496001991 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 353496001992 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 353496001993 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 353496001994 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 353496001995 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 353496001996 hypothetical protein; Provisional; Region: PRK13667 353496001997 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 353496001998 active site 353496001999 catalytic residues [active] 353496002000 metal binding site [ion binding]; metal-binding site 353496002001 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 353496002002 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 353496002003 putative GEF interaction site [polypeptide binding]; other site 353496002004 G1 box; other site 353496002005 GTP/Mg2+ binding site [chemical binding]; other site 353496002006 Switch I region; other site 353496002007 G2 box; other site 353496002008 G3 box; other site 353496002009 Switch II region; other site 353496002010 G4 box; other site 353496002011 G5 box; other site 353496002012 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 353496002013 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 353496002014 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 353496002015 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 353496002016 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 353496002017 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 353496002018 S-adenosylmethionine binding site [chemical binding]; other site 353496002019 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 353496002020 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 353496002021 active site 353496002022 (T/H)XGH motif; other site 353496002023 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 353496002024 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 353496002025 SLBB domain; Region: SLBB; pfam10531 353496002026 Helix-hairpin-helix motif; Region: HHH; pfam00633 353496002027 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 353496002028 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 353496002029 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 353496002030 Competence protein; Region: Competence; pfam03772 353496002031 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 353496002032 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 353496002033 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 353496002034 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 353496002035 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 353496002036 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 353496002037 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 353496002038 16S/18S rRNA binding site [nucleotide binding]; other site 353496002039 S13e-L30e interaction site [polypeptide binding]; other site 353496002040 25S rRNA binding site [nucleotide binding]; other site 353496002041 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 353496002042 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 353496002043 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 353496002044 GIY-YIG motif/motif A; other site 353496002045 active site 353496002046 catalytic site [active] 353496002047 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 353496002048 elongation factor Tu; Reviewed; Region: PRK00049 353496002049 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 353496002050 G1 box; other site 353496002051 GEF interaction site [polypeptide binding]; other site 353496002052 GTP/Mg2+ binding site [chemical binding]; other site 353496002053 Switch I region; other site 353496002054 G2 box; other site 353496002055 G3 box; other site 353496002056 Switch II region; other site 353496002057 G4 box; other site 353496002058 G5 box; other site 353496002059 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 353496002060 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 353496002061 Antibiotic Binding Site [chemical binding]; other site 353496002062 trigger factor; Provisional; Region: tig; PRK01490 353496002063 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 353496002064 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 353496002065 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 353496002066 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 353496002067 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 353496002068 Walker A motif; other site 353496002069 ATP binding site [chemical binding]; other site 353496002070 Walker B motif; other site 353496002071 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 353496002072 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 353496002073 G1 box; other site 353496002074 GTP/Mg2+ binding site [chemical binding]; other site 353496002075 Switch I region; other site 353496002076 G2 box; other site 353496002077 G3 box; other site 353496002078 Switch II region; other site 353496002079 G4 box; other site 353496002080 G5 box; other site 353496002081 potential frameshift: common BLAST hit: gi|313123481|ref|YP_004033740.1| triacylglycerol lipase 353496002082 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 353496002083 nucleophilic elbow; other site 353496002084 catalytic triad; other site 353496002085 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 353496002086 FMN binding site [chemical binding]; other site 353496002087 dimer interface [polypeptide binding]; other site 353496002088 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496002089 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496002090 peptide binding site [polypeptide binding]; other site 353496002091 ABC transporter C family member; Provisional; Region: PLN03232 353496002092 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 353496002093 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 353496002094 NAD binding site [chemical binding]; other site 353496002095 thymidylate synthase; Region: thym_sym; TIGR03284 353496002096 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 353496002097 dimerization interface [polypeptide binding]; other site 353496002098 active site 353496002099 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 353496002100 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 353496002101 folate binding site [chemical binding]; other site 353496002102 NADP+ binding site [chemical binding]; other site 353496002103 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 353496002104 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 353496002105 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 353496002106 motif II; other site 353496002107 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 353496002108 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 353496002109 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 353496002110 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 353496002111 Walker A/P-loop; other site 353496002112 ATP binding site [chemical binding]; other site 353496002113 Q-loop/lid; other site 353496002114 ABC transporter signature motif; other site 353496002115 Walker B; other site 353496002116 D-loop; other site 353496002117 H-loop/switch region; other site 353496002118 NIL domain; Region: NIL; pfam09383 353496002119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496002120 dimer interface [polypeptide binding]; other site 353496002121 conserved gate region; other site 353496002122 ABC-ATPase subunit interface; other site 353496002123 L-aspartate oxidase; Provisional; Region: PRK06175 353496002124 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 353496002125 L-aspartate oxidase; Provisional; Region: PRK06175 353496002126 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 353496002127 active site 353496002128 metal-binding site [ion binding] 353496002129 nucleotide-binding site [chemical binding]; other site 353496002130 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 353496002131 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 353496002132 Transposase; Region: DEDD_Tnp_IS110; pfam01548 353496002133 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 353496002134 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 353496002135 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 353496002136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 353496002137 homodimer interface [polypeptide binding]; other site 353496002138 catalytic residue [active] 353496002139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 353496002140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 353496002141 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 353496002142 dimerization interface [polypeptide binding]; other site 353496002143 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 353496002144 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 353496002145 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 353496002146 active site 353496002147 HIGH motif; other site 353496002148 KMSK motif region; other site 353496002149 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 353496002150 tRNA binding surface [nucleotide binding]; other site 353496002151 anticodon binding site; other site 353496002152 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 353496002153 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 353496002154 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 353496002155 Flavoprotein; Region: Flavoprotein; pfam02441 353496002156 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 353496002157 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 353496002158 Amidohydrolase; Region: Amidohydro_2; pfam04909 353496002159 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 353496002160 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 353496002161 putative ligand binding site [chemical binding]; other site 353496002162 putative NAD binding site [chemical binding]; other site 353496002163 catalytic site [active] 353496002164 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 353496002165 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 353496002166 ATP binding site [chemical binding]; other site 353496002167 putative Mg++ binding site [ion binding]; other site 353496002168 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 353496002169 nucleotide binding region [chemical binding]; other site 353496002170 ATP-binding site [chemical binding]; other site 353496002171 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 353496002172 HRDC domain; Region: HRDC; pfam00570 353496002173 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 353496002174 active site 353496002175 dimerization interface [polypeptide binding]; other site 353496002176 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 353496002177 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 353496002178 GIY-YIG motif/motif A; other site 353496002179 active site 353496002180 catalytic site [active] 353496002181 putative DNA binding site [nucleotide binding]; other site 353496002182 metal binding site [ion binding]; metal-binding site 353496002183 UvrB/uvrC motif; Region: UVR; pfam02151 353496002184 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 353496002185 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 353496002186 DNA binding site [nucleotide binding] 353496002187 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 353496002188 GTP1/OBG; Region: GTP1_OBG; pfam01018 353496002189 Obg GTPase; Region: Obg; cd01898 353496002190 G1 box; other site 353496002191 GTP/Mg2+ binding site [chemical binding]; other site 353496002192 Switch I region; other site 353496002193 G2 box; other site 353496002194 G3 box; other site 353496002195 Switch II region; other site 353496002196 G4 box; other site 353496002197 G5 box; other site 353496002198 Acyltransferase family; Region: Acyl_transf_3; pfam01757 353496002199 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 353496002200 catalytic triad [active] 353496002201 catalytic triad [active] 353496002202 oxyanion hole [active] 353496002203 ribonuclease Z; Region: RNase_Z; TIGR02651 353496002204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 353496002205 NAD(P) binding site [chemical binding]; other site 353496002206 active site 353496002207 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 353496002208 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 353496002209 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 353496002210 active site 353496002211 metal binding site [ion binding]; metal-binding site 353496002212 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 353496002213 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 353496002214 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 353496002215 nucleotide binding region [chemical binding]; other site 353496002216 ATP-binding site [chemical binding]; other site 353496002217 hypothetical protein; Provisional; Region: PRK13690 353496002218 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 353496002219 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 353496002220 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 353496002221 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 353496002222 homotetrameric interface [polypeptide binding]; other site 353496002223 putative allosteric binding site; other site 353496002224 nucleotide binding site [chemical binding]; other site 353496002225 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 353496002226 Transposase; Region: DEDD_Tnp_IS110; pfam01548 353496002227 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 353496002228 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 353496002229 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 353496002230 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 353496002231 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 353496002232 active site 353496002233 PHP Thumb interface [polypeptide binding]; other site 353496002234 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 353496002235 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 353496002236 active site 353496002237 ADP/pyrophosphate binding site [chemical binding]; other site 353496002238 dimerization interface [polypeptide binding]; other site 353496002239 allosteric effector site; other site 353496002240 fructose-1,6-bisphosphate binding site; other site 353496002241 pyruvate kinase; Provisional; Region: PRK06354 353496002242 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 353496002243 domain interfaces; other site 353496002244 active site 353496002245 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 353496002246 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496002247 Walker B; other site 353496002248 D-loop; other site 353496002249 H-loop/switch region; other site 353496002250 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 353496002251 S1 domain; Region: S1_2; pfam13509 353496002252 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 353496002253 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 353496002254 active site 353496002255 Int/Topo IB signature motif; other site 353496002256 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 353496002257 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 353496002258 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 353496002259 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 353496002260 RNA binding surface [nucleotide binding]; other site 353496002261 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 353496002262 active site 353496002263 Predicted membrane protein [Function unknown]; Region: COG3601 353496002264 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 353496002265 cytidylate kinase; Provisional; Region: cmk; PRK00023 353496002266 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 353496002267 CMP-binding site; other site 353496002268 The sites determining sugar specificity; other site 353496002269 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 353496002270 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 353496002271 RNA binding site [nucleotide binding]; other site 353496002272 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 353496002273 RNA binding site [nucleotide binding]; other site 353496002274 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 353496002275 RNA binding site [nucleotide binding]; other site 353496002276 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 353496002277 RNA binding site [nucleotide binding]; other site 353496002278 GTP-binding protein Der; Reviewed; Region: PRK00093 353496002279 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 353496002280 G1 box; other site 353496002281 GTP/Mg2+ binding site [chemical binding]; other site 353496002282 Switch I region; other site 353496002283 G2 box; other site 353496002284 Switch II region; other site 353496002285 G3 box; other site 353496002286 G4 box; other site 353496002287 G5 box; other site 353496002288 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 353496002289 G1 box; other site 353496002290 GTP/Mg2+ binding site [chemical binding]; other site 353496002291 Switch I region; other site 353496002292 G2 box; other site 353496002293 G3 box; other site 353496002294 Switch II region; other site 353496002295 G4 box; other site 353496002296 G5 box; other site 353496002297 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 353496002298 IHF dimer interface [polypeptide binding]; other site 353496002299 IHF - DNA interface [nucleotide binding]; other site 353496002300 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 353496002301 binding surface 353496002302 TPR motif; other site 353496002303 TPR repeat; Region: TPR_11; pfam13414 353496002304 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 353496002305 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 353496002306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 353496002307 Transcriptional regulator [Transcription]; Region: LysR; COG0583 353496002308 LysR substrate binding domain; Region: LysR_substrate; pfam03466 353496002309 dimerization interface [polypeptide binding]; other site 353496002310 Transcriptional regulator [Transcription]; Region: LysR; COG0583 353496002311 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 353496002312 dimerization interface [polypeptide binding]; other site 353496002313 potential frameshift: common BLAST hit: gi|313123552|ref|YP_004033811.1| argininosuccinate lyase 353496002314 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 353496002315 argininosuccinate lyase; Provisional; Region: PRK00855 353496002316 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 353496002317 tetramer interface [polypeptide binding]; other site 353496002318 active sites [active] 353496002319 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 353496002320 synthetase active site [active] 353496002321 NTP binding site [chemical binding]; other site 353496002322 metal binding site [ion binding]; metal-binding site 353496002323 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 353496002324 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 353496002325 active site 353496002326 phosphorylation site [posttranslational modification] 353496002327 intermolecular recognition site; other site 353496002328 dimerization interface [polypeptide binding]; other site 353496002329 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 353496002330 DNA binding site [nucleotide binding] 353496002331 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 353496002332 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 353496002333 dimer interface [polypeptide binding]; other site 353496002334 phosphorylation site [posttranslational modification] 353496002335 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 353496002336 ATP binding site [chemical binding]; other site 353496002337 Mg2+ binding site [ion binding]; other site 353496002338 G-X-G motif; other site 353496002339 potential frameshift: common BLAST hit: gi|331702228|ref|YP_004399187.1| CRISPR-associated protein, Csn1 family 353496002340 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 353496002341 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 353496002342 potential frameshift: common BLAST hit: gi|331702228|ref|YP_004399187.1| CRISPR-associated protein, Csn1 family 353496002343 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 353496002344 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 353496002345 putative acyltransferase; Provisional; Region: PRK05790 353496002346 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 353496002347 dimer interface [polypeptide binding]; other site 353496002348 active site 353496002349 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 353496002350 homodimer interface [polypeptide binding]; other site 353496002351 catalytic residues [active] 353496002352 NAD binding site [chemical binding]; other site 353496002353 substrate binding pocket [chemical binding]; other site 353496002354 flexible flap; other site 353496002355 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 353496002356 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 353496002357 dimer interface [polypeptide binding]; other site 353496002358 active site 353496002359 Uncharacterized conserved protein [Function unknown]; Region: COG2966 353496002360 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 353496002361 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 353496002362 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 353496002363 putative deacylase active site [active] 353496002364 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 353496002365 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 353496002366 S-adenosylmethionine binding site [chemical binding]; other site 353496002367 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 353496002368 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 353496002369 Zn2+ binding site [ion binding]; other site 353496002370 Mg2+ binding site [ion binding]; other site 353496002371 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 353496002372 synthetase active site [active] 353496002373 NTP binding site [chemical binding]; other site 353496002374 metal binding site [ion binding]; metal-binding site 353496002375 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 353496002376 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 353496002377 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 353496002378 putative active site [active] 353496002379 dimerization interface [polypeptide binding]; other site 353496002380 putative tRNAtyr binding site [nucleotide binding]; other site 353496002381 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 353496002382 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 353496002383 dimer interface [polypeptide binding]; other site 353496002384 motif 1; other site 353496002385 active site 353496002386 motif 2; other site 353496002387 motif 3; other site 353496002388 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 353496002389 anticodon binding site; other site 353496002390 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 353496002391 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 353496002392 dimer interface [polypeptide binding]; other site 353496002393 anticodon binding site; other site 353496002394 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 353496002395 homodimer interface [polypeptide binding]; other site 353496002396 motif 1; other site 353496002397 active site 353496002398 motif 2; other site 353496002399 GAD domain; Region: GAD; pfam02938 353496002400 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 353496002401 active site 353496002402 motif 3; other site 353496002403 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 353496002404 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 353496002405 Domain of unknown function DUF20; Region: UPF0118; pfam01594 353496002406 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 353496002407 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 353496002408 dimer interface [polypeptide binding]; other site 353496002409 active site 353496002410 CoA binding pocket [chemical binding]; other site 353496002411 acyl carrier protein; Provisional; Region: acpP; PRK00982 353496002412 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 353496002413 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 353496002414 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 353496002415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 353496002416 NAD(P) binding site [chemical binding]; other site 353496002417 active site 353496002418 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 353496002419 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 353496002420 dimer interface [polypeptide binding]; other site 353496002421 active site 353496002422 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 353496002423 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 353496002424 carboxyltransferase (CT) interaction site; other site 353496002425 biotinylation site [posttranslational modification]; other site 353496002426 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 353496002427 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 353496002428 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 353496002429 ATP-grasp domain; Region: ATP-grasp_4; cl17255 353496002430 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 353496002431 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 353496002432 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 353496002433 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 353496002434 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 353496002435 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 353496002436 NAD binding site [chemical binding]; other site 353496002437 homotetramer interface [polypeptide binding]; other site 353496002438 homodimer interface [polypeptide binding]; other site 353496002439 substrate binding site [chemical binding]; other site 353496002440 active site 353496002441 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 353496002442 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 353496002443 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 353496002444 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 353496002445 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 353496002446 NAD(P) binding site [chemical binding]; other site 353496002447 catalytic residues [active] 353496002448 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 353496002449 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 353496002450 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 353496002451 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 353496002452 active site 353496002453 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 353496002454 potential frameshift: common BLAST hit: gi|116493356|ref|YP_805091.1| amino acid transporter 353496002455 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 353496002456 potential frameshift: common BLAST hit: gi|116493356|ref|YP_805091.1| amino acid transporter 353496002457 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 353496002458 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 353496002459 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 353496002460 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 353496002461 putative ADP-binding pocket [chemical binding]; other site 353496002462 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 353496002463 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; pfam13579 353496002464 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 353496002465 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 353496002466 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 353496002467 Sulfatase; Region: Sulfatase; pfam00884 353496002468 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 353496002469 ribonuclease R; Region: RNase_R; TIGR02063 353496002470 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 353496002471 RNB domain; Region: RNB; pfam00773 353496002472 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 353496002473 RNA binding site [nucleotide binding]; other site 353496002474 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 353496002475 SmpB-tmRNA interface; other site 353496002476 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 353496002477 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 353496002478 Walker A/P-loop; other site 353496002479 ATP binding site [chemical binding]; other site 353496002480 Q-loop/lid; other site 353496002481 ABC transporter signature motif; other site 353496002482 Walker B; other site 353496002483 D-loop; other site 353496002484 H-loop/switch region; other site 353496002485 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 353496002486 HPr interaction site; other site 353496002487 glycerol kinase (GK) interaction site [polypeptide binding]; other site 353496002488 active site 353496002489 phosphorylation site [posttranslational modification] 353496002490 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496002491 Coenzyme A binding pocket [chemical binding]; other site 353496002492 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 353496002493 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 353496002494 Walker A/P-loop; other site 353496002495 ATP binding site [chemical binding]; other site 353496002496 Q-loop/lid; other site 353496002497 ABC transporter signature motif; other site 353496002498 Walker B; other site 353496002499 D-loop; other site 353496002500 H-loop/switch region; other site 353496002501 FeS assembly protein SufD; Region: sufD; TIGR01981 353496002502 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 353496002503 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 353496002504 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 353496002505 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 353496002506 catalytic residue [active] 353496002507 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 353496002508 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 353496002509 trimerization site [polypeptide binding]; other site 353496002510 active site 353496002511 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 353496002512 FeS assembly protein SufB; Region: sufB; TIGR01980 353496002513 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 353496002514 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 353496002515 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 353496002516 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 353496002517 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 353496002518 Ligand Binding Site [chemical binding]; other site 353496002519 Molecular Tunnel; other site 353496002520 potential frameshift: common BLAST hit: gi|313123603|ref|YP_004033862.1| lipoprotein, peptide binding protein oppa-like protein 353496002521 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496002522 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496002523 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496002524 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 353496002525 PBP superfamily domain; Region: PBP_like_2; cl17296 353496002526 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 353496002527 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496002528 dimer interface [polypeptide binding]; other site 353496002529 conserved gate region; other site 353496002530 putative PBP binding loops; other site 353496002531 ABC-ATPase subunit interface; other site 353496002532 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 353496002533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496002534 dimer interface [polypeptide binding]; other site 353496002535 conserved gate region; other site 353496002536 putative PBP binding loops; other site 353496002537 ABC-ATPase subunit interface; other site 353496002538 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 353496002539 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 353496002540 Walker A/P-loop; other site 353496002541 ATP binding site [chemical binding]; other site 353496002542 Q-loop/lid; other site 353496002543 ABC transporter signature motif; other site 353496002544 Walker B; other site 353496002545 D-loop; other site 353496002546 H-loop/switch region; other site 353496002547 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 353496002548 PhoU domain; Region: PhoU; pfam01895 353496002549 PhoU domain; Region: PhoU; pfam01895 353496002550 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 353496002551 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 353496002552 active site 353496002553 phosphorylation site [posttranslational modification] 353496002554 intermolecular recognition site; other site 353496002555 dimerization interface [polypeptide binding]; other site 353496002556 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 353496002557 DNA binding site [nucleotide binding] 353496002558 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 353496002559 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 353496002560 dimer interface [polypeptide binding]; other site 353496002561 phosphorylation site [posttranslational modification] 353496002562 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 353496002563 ATP binding site [chemical binding]; other site 353496002564 Mg2+ binding site [ion binding]; other site 353496002565 G-X-G motif; other site 353496002566 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 353496002567 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 353496002568 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 353496002569 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 353496002570 dimer interface [polypeptide binding]; other site 353496002571 ADP-ribose binding site [chemical binding]; other site 353496002572 active site 353496002573 nudix motif; other site 353496002574 metal binding site [ion binding]; metal-binding site 353496002575 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 353496002576 active site 353496002577 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 353496002578 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_33; cd04692 353496002579 nudix motif; other site 353496002580 Predicted membrane protein [Function unknown]; Region: COG1288 353496002581 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 353496002582 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496002583 Walker A/P-loop; other site 353496002584 ATP binding site [chemical binding]; other site 353496002585 Q-loop/lid; other site 353496002586 ABC transporter signature motif; other site 353496002587 Walker B; other site 353496002588 D-loop; other site 353496002589 H-loop/switch region; other site 353496002590 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 353496002591 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496002592 Walker A/P-loop; other site 353496002593 ATP binding site [chemical binding]; other site 353496002594 Q-loop/lid; other site 353496002595 ABC transporter signature motif; other site 353496002596 Walker B; other site 353496002597 D-loop; other site 353496002598 H-loop/switch region; other site 353496002599 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 353496002600 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 353496002601 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 353496002602 metal binding site [ion binding]; metal-binding site 353496002603 active site 353496002604 I-site; other site 353496002605 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 353496002606 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 353496002607 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 353496002608 metal binding site [ion binding]; metal-binding site 353496002609 active site 353496002610 I-site; other site 353496002611 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 353496002612 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 353496002613 potential frameshift: common BLAST hit: gi|116514007|ref|YP_812913.1| transcriptional regulator 353496002614 Transcriptional regulators [Transcription]; Region: MarR; COG1846 353496002615 MarR family; Region: MarR_2; cl17246 353496002616 potential frameshift: common BLAST hit: gi|116333905|ref|YP_795432.1| ABC-type multidrug transport system, ATPase and permease component 353496002617 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496002618 potential frameshift: common BLAST hit: gi|184154895|ref|YP_001843235.1| multidrug ABC transporter ATP-binding and permease components 353496002619 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496002620 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496002621 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496002622 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 353496002623 Walker A/P-loop; other site 353496002624 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496002625 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496002626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496002627 Walker A/P-loop; other site 353496002628 ATP binding site [chemical binding]; other site 353496002629 Q-loop/lid; other site 353496002630 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 353496002631 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 353496002632 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 353496002633 Mg2+ binding site [ion binding]; other site 353496002634 G-X-G motif; other site 353496002635 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 353496002636 anchoring element; other site 353496002637 dimer interface [polypeptide binding]; other site 353496002638 ATP binding site [chemical binding]; other site 353496002639 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 353496002640 active site 353496002641 putative metal-binding site [ion binding]; other site 353496002642 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 353496002643 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 353496002644 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 353496002645 CAP-like domain; other site 353496002646 active site 353496002647 primary dimer interface [polypeptide binding]; other site 353496002648 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 353496002649 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 353496002650 DHH family; Region: DHH; pfam01368 353496002651 DHHA2 domain; Region: DHHA2; pfam02833 353496002652 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 353496002653 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 353496002654 homotetramer interface [polypeptide binding]; other site 353496002655 FMN binding site [chemical binding]; other site 353496002656 homodimer contacts [polypeptide binding]; other site 353496002657 putative active site [active] 353496002658 putative substrate binding site [chemical binding]; other site 353496002659 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 353496002660 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 353496002661 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 353496002662 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 353496002663 diphosphomevalonate decarboxylase; Region: PLN02407 353496002664 mevalonate kinase; Region: mevalon_kin; TIGR00549 353496002665 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 353496002666 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 353496002667 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 353496002668 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 353496002669 DEAD/DEAH box helicase; Region: DEAD; pfam00270 353496002670 Family description; Region: UvrD_C_2; pfam13538 353496002671 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 353496002672 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 353496002673 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 353496002674 active site 353496002675 catalytic site [active] 353496002676 substrate binding site [chemical binding]; other site 353496002677 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 353496002678 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 353496002679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 353496002680 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 353496002681 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 353496002682 putative dimer interface [polypeptide binding]; other site 353496002683 putative anticodon binding site; other site 353496002684 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 353496002685 homodimer interface [polypeptide binding]; other site 353496002686 motif 1; other site 353496002687 motif 2; other site 353496002688 active site 353496002689 motif 3; other site 353496002690 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 353496002691 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 353496002692 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 353496002693 endonuclease III; Region: ENDO3c; smart00478 353496002694 minor groove reading motif; other site 353496002695 helix-hairpin-helix signature motif; other site 353496002696 substrate binding pocket [chemical binding]; other site 353496002697 active site 353496002698 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 353496002699 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 353496002700 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 353496002701 potential frameshift: common BLAST hit: gi|313123664|ref|YP_004033923.1| esterase 353496002702 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 353496002703 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 353496002704 D-lactate dehydrogenase; Validated; Region: PRK08605 353496002705 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 353496002706 homodimer interface [polypeptide binding]; other site 353496002707 ligand binding site [chemical binding]; other site 353496002708 NAD binding site [chemical binding]; other site 353496002709 catalytic site [active] 353496002710 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 353496002711 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 353496002712 Transglycosylase; Region: Transgly; pfam00912 353496002713 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 353496002714 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 353496002715 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 353496002716 hypothetical protein; Provisional; Region: PRK13660 353496002717 DivIVA protein; Region: DivIVA; pfam05103 353496002718 DivIVA domain; Region: DivI1A_domain; TIGR03544 353496002719 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 353496002720 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 353496002721 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 353496002722 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 353496002723 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 353496002724 active site 353496002725 metal binding site [ion binding]; metal-binding site 353496002726 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 353496002727 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 353496002728 Potassium binding sites [ion binding]; other site 353496002729 Cesium cation binding sites [ion binding]; other site 353496002730 lipoprotein signal peptidase; Provisional; Region: PRK14797 353496002731 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 353496002732 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 353496002733 RNA binding surface [nucleotide binding]; other site 353496002734 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 353496002735 active site 353496002736 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 353496002737 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 353496002738 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 353496002739 catalytic site [active] 353496002740 subunit interface [polypeptide binding]; other site 353496002741 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 353496002742 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 353496002743 ATP-grasp domain; Region: ATP-grasp_4; cl17255 353496002744 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 353496002745 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 353496002746 ATP-grasp domain; Region: ATP-grasp_4; cl17255 353496002747 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 353496002748 IMP binding site; other site 353496002749 dimer interface [polypeptide binding]; other site 353496002750 interdomain contacts; other site 353496002751 partial ornithine binding site; other site 353496002752 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 353496002753 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 353496002754 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 353496002755 Domain of unknown function (DUF814); Region: DUF814; pfam05670 353496002756 EDD domain protein, DegV family; Region: DegV; TIGR00762 353496002757 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 353496002758 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 353496002759 EamA-like transporter family; Region: EamA; pfam00892 353496002760 EamA-like transporter family; Region: EamA; pfam00892 353496002761 potential frameshift: common BLAST hit: gi|313123688|ref|YP_004033947.1| d-isomer specific 2-hydroxyacid dehydrogenase 353496002762 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 353496002763 NAD binding site [chemical binding]; other site 353496002764 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 353496002765 L-serine binding site [chemical binding]; other site 353496002766 ACT domain interface; other site 353496002767 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 353496002768 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 353496002769 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 353496002770 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 353496002771 catalytic residue [active] 353496002772 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 353496002773 catalytic core [active] 353496002774 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 353496002775 FMN binding site [chemical binding]; other site 353496002776 dimer interface [polypeptide binding]; other site 353496002777 potential frameshift: common BLAST hit: gi|313123693|ref|YP_004033952.1| aspartate carbamoyltransferase 353496002778 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 353496002779 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 353496002780 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 353496002781 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 353496002782 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 353496002783 active site 353496002784 DNA binding site [nucleotide binding] 353496002785 Int/Topo IB signature motif; other site 353496002786 glycerate kinase; Region: TIGR00045 353496002787 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 353496002788 TPR repeat; Region: TPR_11; pfam13414 353496002789 Sel1-like repeats; Region: SEL1; smart00671 353496002790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 353496002791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 353496002792 NADH(P)-binding; Region: NAD_binding_10; pfam13460 353496002793 NAD(P) binding site [chemical binding]; other site 353496002794 active site 353496002795 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 353496002796 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 353496002797 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 353496002798 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 353496002799 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 353496002800 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 353496002801 metal binding site [ion binding]; metal-binding site 353496002802 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 353496002803 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 353496002804 active site 353496002805 purine riboside binding site [chemical binding]; other site 353496002806 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 353496002807 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 353496002808 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 353496002809 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 353496002810 active site 353496002811 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 353496002812 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 353496002813 catalytic core [active] 353496002814 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 353496002815 potential frameshift: common BLAST hit: gi|104774039|ref|YP_619019.1| peptide binding protein 353496002816 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496002817 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496002818 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496002819 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 353496002820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496002821 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496002822 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496002823 H-loop/switch region; other site 353496002824 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 353496002825 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 353496002826 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 353496002827 ATP-grasp domain; Region: ATP-grasp_4; cl17255 353496002828 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 353496002829 IMP binding site; other site 353496002830 dimer interface [polypeptide binding]; other site 353496002831 interdomain contacts; other site 353496002832 partial ornithine binding site; other site 353496002833 potential frameshift: common BLAST hit: gi|104774076|ref|YP_619056.1| carbamoyl phosphate synthase small subunit 353496002834 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 353496002835 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 353496002836 Glutamine amidotransferase class-I; Region: GATase; pfam00117 353496002837 catalytic site [active] 353496002838 subunit interface [polypeptide binding]; other site 353496002839 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 353496002840 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 353496002841 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 353496002842 metal binding site [ion binding]; metal-binding site 353496002843 active site 353496002844 I-site; other site 353496002845 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 353496002846 putative efflux protein, MATE family; Region: matE; TIGR00797 353496002847 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 353496002848 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 353496002849 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 353496002850 DNA binding residues [nucleotide binding] 353496002851 dimer interface [polypeptide binding]; other site 353496002852 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 353496002853 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 353496002854 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 353496002855 active site 353496002856 DNA binding site [nucleotide binding] 353496002857 Int/Topo IB signature motif; other site 353496002858 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 353496002859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496002860 Coenzyme A binding pocket [chemical binding]; other site 353496002861 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 353496002862 Low molecular weight phosphatase family; Region: LMWPc; cd00115 353496002863 active site 353496002864 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 353496002865 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 353496002866 Walker A/P-loop; other site 353496002867 ATP binding site [chemical binding]; other site 353496002868 Q-loop/lid; other site 353496002869 ABC transporter signature motif; other site 353496002870 Walker B; other site 353496002871 D-loop; other site 353496002872 H-loop/switch region; other site 353496002873 potential frameshift: common BLAST hit: gi|104774062|ref|YP_619042.1| fumarate reductase (flavoprotein) 353496002874 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 353496002875 hypothetical protein; Validated; Region: PRK07121 353496002876 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 353496002877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 353496002878 Bacterial surface layer protein; Region: SLAP; pfam03217 353496002879 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; cd00317 353496002880 active site 353496002881 aromatic amino acid aminotransferase; Validated; Region: PRK07309 353496002882 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 353496002883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 353496002884 homodimer interface [polypeptide binding]; other site 353496002885 catalytic residue [active] 353496002886 dihydrodipicolinate reductase; Provisional; Region: PRK00048 353496002887 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 353496002888 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 353496002889 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 353496002890 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 353496002891 dimer interface [polypeptide binding]; other site 353496002892 active site 353496002893 catalytic residue [active] 353496002894 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 353496002895 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 353496002896 metal binding site [ion binding]; metal-binding site 353496002897 putative dimer interface [polypeptide binding]; other site 353496002898 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 353496002899 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 353496002900 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 353496002901 active site 353496002902 trimer interface [polypeptide binding]; other site 353496002903 substrate binding site [chemical binding]; other site 353496002904 CoA binding site [chemical binding]; other site 353496002905 aspartate kinase; Reviewed; Region: PRK09034 353496002906 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 353496002907 putative catalytic residues [active] 353496002908 putative nucleotide binding site [chemical binding]; other site 353496002909 putative aspartate binding site [chemical binding]; other site 353496002910 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 353496002911 allosteric regulatory residue; other site 353496002912 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 353496002913 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 353496002914 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 353496002915 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 353496002916 Bacterial surface layer protein; Region: SLAP; pfam03217 353496002917 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 353496002918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 353496002919 potential frameshift: common BLAST hit: gi|104774062|ref|YP_619042.1| fumarate reductase (flavoprotein) 353496002920 hypothetical protein; Validated; Region: PRK07121 353496002921 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 353496002922 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 353496002923 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 353496002924 Walker A/P-loop; other site 353496002925 ATP binding site [chemical binding]; other site 353496002926 Q-loop/lid; other site 353496002927 ABC transporter signature motif; other site 353496002928 Walker B; other site 353496002929 D-loop; other site 353496002930 H-loop/switch region; other site 353496002931 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 353496002932 Low molecular weight phosphatase family; Region: LMWPc; cd00115 353496002933 active site 353496002934 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 353496002935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496002936 Coenzyme A binding pocket [chemical binding]; other site 353496002937 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 353496002938 active site 353496002939 DNA binding site [nucleotide binding] 353496002940 Int/Topo IB signature motif; other site 353496002941 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 353496002942 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 353496002943 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 353496002944 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 353496002945 DNA binding residues [nucleotide binding] 353496002946 dimer interface [polypeptide binding]; other site 353496002947 putative efflux protein, MATE family; Region: matE; TIGR00797 353496002948 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 353496002949 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 353496002950 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 353496002951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 353496002952 metal binding site [ion binding]; metal-binding site 353496002953 active site 353496002954 I-site; other site 353496002955 potential frameshift: common BLAST hit: gi|313123765|ref|YP_004034024.1| carbamoyl-phosphate synthase small chain 353496002956 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 353496002957 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 353496002958 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 353496002959 Glutamine amidotransferase class-I; Region: GATase; pfam00117 353496002960 catalytic site [active] 353496002961 subunit interface [polypeptide binding]; other site 353496002962 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 353496002963 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 353496002964 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 353496002965 ATP-grasp domain; Region: ATP-grasp_4; cl17255 353496002966 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 353496002967 IMP binding site; other site 353496002968 dimer interface [polypeptide binding]; other site 353496002969 interdomain contacts; other site 353496002970 partial ornithine binding site; other site 353496002971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496002972 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496002973 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496002974 H-loop/switch region; other site 353496002975 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 353496002976 potential frameshift: common BLAST hit: gi|104774039|ref|YP_619019.1| peptide binding protein 353496002977 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496002978 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496002979 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496002980 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 353496002981 Predicted transcriptional regulator [Transcription]; Region: COG1959 353496002982 Transcriptional regulator; Region: Rrf2; pfam02082 353496002983 potential frameshift: common BLAST hit: gi|325978385|ref|YP_004288101.1| UDP-glucose 4-epimerase 353496002984 hypothetical protein; Region: PHA01818 353496002985 TIGR02679 family protein; Region: TIGR02679 353496002986 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 353496002987 TIGR02680 family protein; Region: TIGR02680 353496002988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496002989 ABC transporter signature motif; other site 353496002990 Walker B; other site 353496002991 D-loop; other site 353496002992 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 353496002993 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 353496002994 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 353496002995 NADH(P)-binding; Region: NAD_binding_10; pfam13460 353496002996 NAD(P) binding site [chemical binding]; other site 353496002997 putative active site [active] 353496002998 potential frameshift: common BLAST hit: gi|284048245|ref|YP_003398584.1| ABC transporter 353496002999 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496003000 ABC transporter signature motif; other site 353496003001 Walker B; other site 353496003002 D-loop; other site 353496003003 H-loop/switch region; other site 353496003004 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496003005 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496003006 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496003007 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496003008 Walker A/P-loop; other site 353496003009 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 353496003010 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_1; cd12161 353496003011 putative ligand binding site [chemical binding]; other site 353496003012 putative NAD binding site [chemical binding]; other site 353496003013 catalytic site [active] 353496003014 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 353496003015 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496003016 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496003017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496003018 Walker A/P-loop; other site 353496003019 ATP binding site [chemical binding]; other site 353496003020 Q-loop/lid; other site 353496003021 ABC transporter signature motif; other site 353496003022 Walker B; other site 353496003023 D-loop; other site 353496003024 H-loop/switch region; other site 353496003025 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496003026 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496003027 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 353496003028 Walker A/P-loop; other site 353496003029 ATP binding site [chemical binding]; other site 353496003030 Q-loop/lid; other site 353496003031 ABC transporter signature motif; other site 353496003032 Walker B; other site 353496003033 D-loop; other site 353496003034 H-loop/switch region; other site 353496003035 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 353496003036 active site residue [active] 353496003037 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 353496003038 RNA/DNA hybrid binding site [nucleotide binding]; other site 353496003039 active site 353496003040 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 353496003041 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 353496003042 DNA binding residues [nucleotide binding] 353496003043 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 353496003044 catalytic residues [active] 353496003045 catalytic nucleophile [active] 353496003046 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 353496003047 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 353496003048 RNA/DNA hybrid binding site [nucleotide binding]; other site 353496003049 active site 353496003050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496003051 Coenzyme A binding pocket [chemical binding]; other site 353496003052 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 353496003053 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 353496003054 motif II; other site 353496003055 LytTr DNA-binding domain; Region: LytTR; smart00850 353496003056 Predicted oxidoreductase [General function prediction only]; Region: COG3573 353496003057 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 353496003058 active site 353496003059 catalytic site [active] 353496003060 substrate binding site [chemical binding]; other site 353496003061 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 353496003062 putative active site [active] 353496003063 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 353496003064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496003065 Coenzyme A binding pocket [chemical binding]; other site 353496003066 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 353496003067 DEAD-like helicases superfamily; Region: DEXDc; smart00487 353496003068 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 353496003069 ATP binding site [chemical binding]; other site 353496003070 putative Mg++ binding site [ion binding]; other site 353496003071 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 353496003072 potential frameshift: common BLAST hit: gi|296454263|ref|YP_003661406.1| Fic family protein 353496003073 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 353496003074 putative dimer interface [polypeptide binding]; other site 353496003075 catalytic triad [active] 353496003076 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 353496003077 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 353496003078 S-adenosylmethionine binding site [chemical binding]; other site 353496003079 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 353496003080 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 353496003081 putative substrate binding pocket [chemical binding]; other site 353496003082 AC domain interface; other site 353496003083 catalytic triad [active] 353496003084 AB domain interface; other site 353496003085 interchain disulfide; other site 353496003086 Protease prsW family; Region: PrsW-protease; pfam13367 353496003087 Homoserine O-succinyltransferase; Region: HTS; pfam04204 353496003088 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 353496003089 conserved cys residue [active] 353496003090 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 353496003091 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 353496003092 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 353496003093 tetrameric interface [polypeptide binding]; other site 353496003094 activator binding site; other site 353496003095 NADP binding site [chemical binding]; other site 353496003096 substrate binding site [chemical binding]; other site 353496003097 catalytic residues [active] 353496003098 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496003099 dimer interface [polypeptide binding]; other site 353496003100 conserved gate region; other site 353496003101 putative PBP binding loops; other site 353496003102 ABC-ATPase subunit interface; other site 353496003103 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 353496003104 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 353496003105 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 353496003106 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496003107 Walker A/P-loop; other site 353496003108 ATP binding site [chemical binding]; other site 353496003109 Q-loop/lid; other site 353496003110 ABC transporter signature motif; other site 353496003111 Walker B; other site 353496003112 D-loop; other site 353496003113 H-loop/switch region; other site 353496003114 Predicted transcriptional regulator [Transcription]; Region: COG1959 353496003115 Transcriptional regulator; Region: Rrf2; pfam02082 353496003116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 353496003117 active site 353496003118 Peptidase family M48; Region: Peptidase_M48; cl12018 353496003119 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 353496003120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 353496003121 homodimer interface [polypeptide binding]; other site 353496003122 catalytic residue [active] 353496003123 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 353496003124 putative active site [active] 353496003125 catalytic triad [active] 353496003126 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 353496003127 putative integrin binding motif; other site 353496003128 PA/protease domain interface [polypeptide binding]; other site 353496003129 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 353496003130 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 353496003131 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 353496003132 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 353496003133 Bacterial surface layer protein; Region: SLAP; pfam03217 353496003134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496003135 Coenzyme A binding pocket [chemical binding]; other site 353496003136 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 353496003137 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 353496003138 dimer interface [polypeptide binding]; other site 353496003139 active site 353496003140 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 353496003141 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 353496003142 putative dimer interface [polypeptide binding]; other site 353496003143 putative anticodon binding site; other site 353496003144 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 353496003145 homodimer interface [polypeptide binding]; other site 353496003146 motif 1; other site 353496003147 motif 2; other site 353496003148 active site 353496003149 motif 3; other site 353496003150 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 353496003151 Transposase; Region: DDE_Tnp_ISL3; pfam01610 353496003152 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496003153 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496003154 Integrase core domain; Region: rve; pfam00665 353496003155 Transposase; Region: DEDD_Tnp_IS110; pfam01548 353496003156 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 353496003157 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 353496003158 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 353496003159 Transcriptional regulators [Transcription]; Region: PurR; COG1609 353496003160 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 353496003161 DNA binding site [nucleotide binding] 353496003162 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 353496003163 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 353496003164 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 353496003165 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 353496003166 CARDB; Region: CARDB; pfam07705 353496003167 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 353496003168 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 353496003169 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 353496003170 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 353496003171 HPr interaction site; other site 353496003172 glycerol kinase (GK) interaction site [polypeptide binding]; other site 353496003173 active site 353496003174 phosphorylation site [posttranslational modification] 353496003175 Transposase; Region: DEDD_Tnp_IS110; pfam01548 353496003176 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 353496003177 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 353496003178 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 353496003179 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 353496003180 trimer interface [polypeptide binding]; other site 353496003181 active site 353496003182 substrate binding site [chemical binding]; other site 353496003183 CoA binding site [chemical binding]; other site 353496003184 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 353496003185 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 353496003186 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 353496003187 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 353496003188 Catalytic site [active] 353496003189 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 353496003190 Transposase; Region: DEDD_Tnp_IS110; pfam01548 353496003191 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 353496003192 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 353496003193 peptidase T; Region: peptidase-T; TIGR01882 353496003194 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 353496003195 metal binding site [ion binding]; metal-binding site 353496003196 dimer interface [polypeptide binding]; other site 353496003197 Uncharacterized conserved protein [Function unknown]; Region: COG0327 353496003198 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 353496003199 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 353496003200 Family of unknown function (DUF633); Region: DUF633; pfam04816 353496003201 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 353496003202 putative active site [active] 353496003203 nucleotide binding site [chemical binding]; other site 353496003204 nudix motif; other site 353496003205 putative metal binding site [ion binding]; other site 353496003206 Peptidase family M23; Region: Peptidase_M23; pfam01551 353496003207 Helix-turn-helix domain; Region: HTH_18; pfam12833 353496003208 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 353496003209 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 353496003210 DNA binding site [nucleotide binding] 353496003211 active site 353496003212 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 353496003213 Transposase [DNA replication, recombination, and repair]; Region: COG5421 353496003214 potential frameshift: common BLAST hit: gi|148544104|ref|YP_001271474.1| HsdR family type I site-specific deoxyribonuclease 353496003215 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 353496003216 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 353496003217 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 353496003218 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 353496003219 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 353496003220 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 353496003221 active site 353496003222 Int/Topo IB signature motif; other site 353496003223 DNA binding site [nucleotide binding] 353496003224 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 353496003225 HsdM N-terminal domain; Region: HsdM_N; pfam12161 353496003226 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 353496003227 S-adenosylmethionine binding site [chemical binding]; other site 353496003228 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 353496003229 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 353496003230 AAA domain; Region: AAA_11; pfam13086 353496003231 Part of AAA domain; Region: AAA_19; pfam13245 353496003232 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 353496003233 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 353496003234 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 353496003235 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 353496003236 Transposase; Region: DEDD_Tnp_IS110; pfam01548 353496003237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 353496003238 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 353496003239 potential frameshift: common BLAST hit: gi|313123886|ref|YP_004034145.1| phospho-beta-galactosidase i 353496003240 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 353496003241 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 353496003242 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 353496003243 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 353496003244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 353496003245 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 353496003246 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 353496003247 DNA binding residues [nucleotide binding] 353496003248 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 353496003249 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 353496003250 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 353496003251 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 353496003252 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 353496003253 DNA binding residues [nucleotide binding] 353496003254 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 353496003255 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 353496003256 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 353496003257 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 353496003258 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 353496003259 DNA binding residues [nucleotide binding] 353496003260 DNA primase; Validated; Region: dnaG; PRK05667 353496003261 CHC2 zinc finger; Region: zf-CHC2; pfam01807 353496003262 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 353496003263 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 353496003264 active site 353496003265 metal binding site [ion binding]; metal-binding site 353496003266 interdomain interaction site; other site 353496003267 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 353496003268 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 353496003269 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 353496003270 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 353496003271 motif 1; other site 353496003272 dimer interface [polypeptide binding]; other site 353496003273 active site 353496003274 motif 2; other site 353496003275 motif 3; other site 353496003276 DNA repair protein RecO; Region: reco; TIGR00613 353496003277 Recombination protein O N terminal; Region: RecO_N; pfam11967 353496003278 Recombination protein O C terminal; Region: RecO_C; pfam02565 353496003279 GTPase Era; Reviewed; Region: era; PRK00089 353496003280 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 353496003281 G1 box; other site 353496003282 GTP/Mg2+ binding site [chemical binding]; other site 353496003283 Switch I region; other site 353496003284 G2 box; other site 353496003285 Switch II region; other site 353496003286 G3 box; other site 353496003287 G4 box; other site 353496003288 G5 box; other site 353496003289 KH domain; Region: KH_2; pfam07650 353496003290 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 353496003291 active site 353496003292 catalytic motif [active] 353496003293 Zn binding site [ion binding]; other site 353496003294 metal-binding heat shock protein; Provisional; Region: PRK00016 353496003295 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 353496003296 PhoH-like protein; Region: PhoH; pfam02562 353496003297 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 353496003298 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 353496003299 Uncharacterized conserved protein [Function unknown]; Region: COG1284 353496003300 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 353496003301 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 353496003302 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 353496003303 SecY translocase; Region: SecY; pfam00344 353496003304 SecY translocase; Region: SecY; pfam00344 353496003305 aromatic amino acid aminotransferase; Validated; Region: PRK07309 353496003306 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 353496003307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 353496003308 homodimer interface [polypeptide binding]; other site 353496003309 catalytic residue [active] 353496003310 diaminopimelate decarboxylase; Region: lysA; TIGR01048 353496003311 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 353496003312 active site 353496003313 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 353496003314 substrate binding site [chemical binding]; other site 353496003315 catalytic residues [active] 353496003316 dimer interface [polypeptide binding]; other site 353496003317 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 353496003318 active site 353496003319 catalytic residues [active] 353496003320 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 353496003321 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 353496003322 Walker A motif; other site 353496003323 ATP binding site [chemical binding]; other site 353496003324 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 353496003325 Walker B motif; other site 353496003326 arginine finger; other site 353496003327 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 353496003328 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 353496003329 active site 353496003330 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 353496003331 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 353496003332 active site 353496003333 DNA binding site [nucleotide binding] 353496003334 Int/Topo IB signature motif; other site 353496003335 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 353496003336 Glucose inhibited division protein A; Region: GIDA; pfam01134 353496003337 DNA topoisomerase I; Validated; Region: PRK05582 353496003338 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 353496003339 active site 353496003340 interdomain interaction site; other site 353496003341 putative metal-binding site [ion binding]; other site 353496003342 nucleotide binding site [chemical binding]; other site 353496003343 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 353496003344 domain I; other site 353496003345 DNA binding groove [nucleotide binding] 353496003346 phosphate binding site [ion binding]; other site 353496003347 domain II; other site 353496003348 domain III; other site 353496003349 nucleotide binding site [chemical binding]; other site 353496003350 catalytic site [active] 353496003351 domain IV; other site 353496003352 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 353496003353 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 353496003354 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 353496003355 Transposase; Region: DDE_Tnp_ISL3; pfam01610 353496003356 DNA protecting protein DprA; Region: dprA; TIGR00732 353496003357 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 353496003358 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 353496003359 RNA/DNA hybrid binding site [nucleotide binding]; other site 353496003360 active site 353496003361 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 353496003362 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 353496003363 GTP/Mg2+ binding site [chemical binding]; other site 353496003364 G4 box; other site 353496003365 G5 box; other site 353496003366 G1 box; other site 353496003367 Switch I region; other site 353496003368 G2 box; other site 353496003369 G3 box; other site 353496003370 Switch II region; other site 353496003371 hypothetical protein; Provisional; Region: PRK13672 353496003372 EDD domain protein, DegV family; Region: DegV; TIGR00762 353496003373 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 353496003374 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 353496003375 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 353496003376 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 353496003377 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 353496003378 active site 353496003379 NTP binding site [chemical binding]; other site 353496003380 metal binding triad [ion binding]; metal-binding site 353496003381 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 353496003382 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 353496003383 Uncharacterized conserved protein [Function unknown]; Region: COG1284 353496003384 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 353496003385 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 353496003386 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 353496003387 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 353496003388 nucleotidyl binding site; other site 353496003389 metal binding site [ion binding]; metal-binding site 353496003390 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496003391 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496003392 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 353496003393 Walker A/P-loop; other site 353496003394 ATP binding site [chemical binding]; other site 353496003395 Q-loop/lid; other site 353496003396 ABC transporter signature motif; other site 353496003397 Walker B; other site 353496003398 D-loop; other site 353496003399 H-loop/switch region; other site 353496003400 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496003401 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496003402 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496003403 Walker A/P-loop; other site 353496003404 ATP binding site [chemical binding]; other site 353496003405 Q-loop/lid; other site 353496003406 ABC transporter signature motif; other site 353496003407 Walker B; other site 353496003408 D-loop; other site 353496003409 H-loop/switch region; other site 353496003410 Transcriptional regulator [Transcription]; Region: LysR; COG0583 353496003411 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 353496003412 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 353496003413 dimerization interface [polypeptide binding]; other site 353496003414 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 353496003415 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 353496003416 active site 353496003417 EDD domain protein, DegV family; Region: DegV; TIGR00762 353496003418 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 353496003419 enolase; Provisional; Region: eno; PRK00077 353496003420 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 353496003421 dimer interface [polypeptide binding]; other site 353496003422 metal binding site [ion binding]; metal-binding site 353496003423 substrate binding pocket [chemical binding]; other site 353496003424 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 353496003425 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 353496003426 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 353496003427 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 353496003428 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 353496003429 Walker A/P-loop; other site 353496003430 ATP binding site [chemical binding]; other site 353496003431 Q-loop/lid; other site 353496003432 ABC transporter signature motif; other site 353496003433 Walker B; other site 353496003434 D-loop; other site 353496003435 H-loop/switch region; other site 353496003436 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496003437 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 353496003438 substrate binding pocket [chemical binding]; other site 353496003439 membrane-bound complex binding site; other site 353496003440 hinge residues; other site 353496003441 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 353496003442 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496003443 dimer interface [polypeptide binding]; other site 353496003444 conserved gate region; other site 353496003445 putative PBP binding loops; other site 353496003446 ABC-ATPase subunit interface; other site 353496003447 Transcriptional regulator [Transcription]; Region: LysR; COG0583 353496003448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 353496003449 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 353496003450 dimerization interface [polypeptide binding]; other site 353496003451 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 353496003452 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 353496003453 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 353496003454 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 353496003455 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 353496003456 Domain of unknown function DUF20; Region: UPF0118; pfam01594 353496003457 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 353496003458 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 353496003459 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 353496003460 homodimer interface [polypeptide binding]; other site 353496003461 substrate-cofactor binding pocket; other site 353496003462 catalytic residue [active] 353496003463 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 353496003464 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 353496003465 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 353496003466 dimerization interface [polypeptide binding]; other site 353496003467 putative DNA binding site [nucleotide binding]; other site 353496003468 putative Zn2+ binding site [ion binding]; other site 353496003469 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496003470 active site 353496003471 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 353496003472 DHH family; Region: DHH; pfam01368 353496003473 DHHA1 domain; Region: DHHA1; pfam02272 353496003474 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 353496003475 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 353496003476 active site 353496003477 catalytic site [active] 353496003478 GTP-binding protein LepA; Provisional; Region: PRK05433 353496003479 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 353496003480 G1 box; other site 353496003481 putative GEF interaction site [polypeptide binding]; other site 353496003482 GTP/Mg2+ binding site [chemical binding]; other site 353496003483 Switch I region; other site 353496003484 G2 box; other site 353496003485 G3 box; other site 353496003486 Switch II region; other site 353496003487 G4 box; other site 353496003488 G5 box; other site 353496003489 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 353496003490 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 353496003491 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 353496003492 chaperone protein DnaJ; Provisional; Region: PRK14276 353496003493 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 353496003494 HSP70 interaction site [polypeptide binding]; other site 353496003495 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 353496003496 substrate binding site [polypeptide binding]; other site 353496003497 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 353496003498 Zn binding sites [ion binding]; other site 353496003499 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 353496003500 dimer interface [polypeptide binding]; other site 353496003501 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 353496003502 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 353496003503 nucleotide binding site [chemical binding]; other site 353496003504 NEF interaction site [polypeptide binding]; other site 353496003505 SBD interface [polypeptide binding]; other site 353496003506 GrpE; Region: GrpE; pfam01025 353496003507 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 353496003508 dimer interface [polypeptide binding]; other site 353496003509 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 353496003510 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 353496003511 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 353496003512 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 353496003513 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 353496003514 active site 353496003515 Riboflavin kinase; Region: Flavokinase; smart00904 353496003516 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 353496003517 Int/Topo IB signature motif; other site 353496003518 Transposase; Region: DEDD_Tnp_IS110; pfam01548 353496003519 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 353496003520 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 353496003521 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 353496003522 FAD binding site [chemical binding]; other site 353496003523 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 353496003524 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 353496003525 THF binding site; other site 353496003526 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 353496003527 substrate binding site [chemical binding]; other site 353496003528 THF binding site; other site 353496003529 zinc-binding site [ion binding]; other site 353496003530 S-ribosylhomocysteinase; Provisional; Region: PRK02260 353496003531 potential frameshift: common BLAST hit: gi|161508083|ref|YP_001578050.1| transposase 353496003532 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 353496003533 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 353496003534 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 353496003535 dimer interface [polypeptide binding]; other site 353496003536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 353496003537 catalytic residue [active] 353496003538 cystathionine beta-lyase; Provisional; Region: PRK07671 353496003539 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 353496003540 homodimer interface [polypeptide binding]; other site 353496003541 substrate-cofactor binding pocket; other site 353496003542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 353496003543 catalytic residue [active] 353496003544 potential frameshift: common BLAST hit: gi|161508079|ref|YP_001578046.1| Serine acetyltransferase 353496003545 serine O-acetyltransferase; Region: cysE; TIGR01172 353496003546 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 353496003547 substrate binding site [chemical binding]; other site 353496003548 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 353496003549 putative CoA binding site [chemical binding]; other site 353496003550 putative trimer interface [polypeptide binding]; other site 353496003551 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 353496003552 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 353496003553 RNA binding site [nucleotide binding]; other site 353496003554 active site 353496003555 ribosome-binding factor A; Provisional; Region: PRK13818 353496003556 translation initiation factor IF-2; Validated; Region: infB; PRK05306 353496003557 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 353496003558 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 353496003559 G1 box; other site 353496003560 putative GEF interaction site [polypeptide binding]; other site 353496003561 GTP/Mg2+ binding site [chemical binding]; other site 353496003562 Switch I region; other site 353496003563 G2 box; other site 353496003564 G3 box; other site 353496003565 Switch II region; other site 353496003566 G4 box; other site 353496003567 G5 box; other site 353496003568 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 353496003569 Translation-initiation factor 2; Region: IF-2; pfam11987 353496003570 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 353496003571 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 353496003572 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 353496003573 putative RNA binding cleft [nucleotide binding]; other site 353496003574 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 353496003575 NusA N-terminal domain; Region: NusA_N; pfam08529 353496003576 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 353496003577 RNA binding site [nucleotide binding]; other site 353496003578 homodimer interface [polypeptide binding]; other site 353496003579 NusA-like KH domain; Region: KH_5; pfam13184 353496003580 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 353496003581 G-X-X-G motif; other site 353496003582 DNA polymerase III PolC; Validated; Region: polC; PRK00448 353496003583 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 353496003584 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 353496003585 generic binding surface II; other site 353496003586 generic binding surface I; other site 353496003587 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 353496003588 active site 353496003589 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 353496003590 active site 353496003591 catalytic site [active] 353496003592 substrate binding site [chemical binding]; other site 353496003593 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 353496003594 prolyl-tRNA synthetase; Provisional; Region: PRK09194 353496003595 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 353496003596 dimer interface [polypeptide binding]; other site 353496003597 motif 1; other site 353496003598 active site 353496003599 motif 2; other site 353496003600 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 353496003601 putative deacylase active site [active] 353496003602 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 353496003603 active site 353496003604 motif 3; other site 353496003605 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 353496003606 anticodon binding site; other site 353496003607 RIP metalloprotease RseP; Region: TIGR00054 353496003608 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 353496003609 active site 353496003610 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 353496003611 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 353496003612 protein binding site [polypeptide binding]; other site 353496003613 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 353496003614 putative substrate binding region [chemical binding]; other site 353496003615 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 353496003616 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 353496003617 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 353496003618 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 353496003619 catalytic residue [active] 353496003620 putative FPP diphosphate binding site; other site 353496003621 putative FPP binding hydrophobic cleft; other site 353496003622 dimer interface [polypeptide binding]; other site 353496003623 putative IPP diphosphate binding site; other site 353496003624 ribosome recycling factor; Reviewed; Region: frr; PRK00083 353496003625 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 353496003626 hinge region; other site 353496003627 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 353496003628 putative nucleotide binding site [chemical binding]; other site 353496003629 uridine monophosphate binding site [chemical binding]; other site 353496003630 homohexameric interface [polypeptide binding]; other site 353496003631 elongation factor Ts; Provisional; Region: tsf; PRK09377 353496003632 Elongation factor TS; Region: EF_TS; pfam00889 353496003633 Elongation factor TS; Region: EF_TS; pfam00889 353496003634 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 353496003635 rRNA interaction site [nucleotide binding]; other site 353496003636 S8 interaction site; other site 353496003637 putative laminin-1 binding site; other site 353496003638 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 353496003639 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 353496003640 S-adenosylmethionine binding site [chemical binding]; other site 353496003641 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 353496003642 GIY-YIG motif/motif A; other site 353496003643 putative active site [active] 353496003644 putative metal binding site [ion binding]; other site 353496003645 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 353496003646 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 353496003647 putative acyl-acceptor binding pocket; other site 353496003648 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 353496003649 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 353496003650 aspartate kinase; Reviewed; Region: PRK09034 353496003651 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 353496003652 putative catalytic residues [active] 353496003653 putative nucleotide binding site [chemical binding]; other site 353496003654 putative aspartate binding site [chemical binding]; other site 353496003655 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 353496003656 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 353496003657 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 353496003658 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 353496003659 hypothetical protein; Provisional; Region: PRK04435 353496003660 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 353496003661 DNA-binding interface [nucleotide binding]; DNA binding site 353496003662 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 353496003663 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496003664 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496003665 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 353496003666 Walker A/P-loop; other site 353496003667 ATP binding site [chemical binding]; other site 353496003668 Q-loop/lid; other site 353496003669 ABC transporter signature motif; other site 353496003670 Walker B; other site 353496003671 D-loop; other site 353496003672 H-loop/switch region; other site 353496003673 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496003674 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 353496003675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496003676 Walker A/P-loop; other site 353496003677 ATP binding site [chemical binding]; other site 353496003678 Q-loop/lid; other site 353496003679 ABC transporter signature motif; other site 353496003680 Walker B; other site 353496003681 D-loop; other site 353496003682 H-loop/switch region; other site 353496003683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 353496003684 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 353496003685 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 353496003686 putative DNA binding site [nucleotide binding]; other site 353496003687 LexA repressor; Validated; Region: PRK00215 353496003688 putative Zn2+ binding site [ion binding]; other site 353496003689 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 353496003690 Catalytic site [active] 353496003691 Sugar transport protein; Region: Sugar_transport; pfam06800 353496003692 potential frameshift: common BLAST hit: gi|104774237|ref|YP_619217.1| glutamine-binding protein 353496003693 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 353496003694 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496003695 substrate binding pocket [chemical binding]; other site 353496003696 membrane-bound complex binding site; other site 353496003697 hinge residues; other site 353496003698 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 353496003699 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 353496003700 ATP binding site [chemical binding]; other site 353496003701 putative Mg++ binding site [ion binding]; other site 353496003702 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 353496003703 nucleotide binding region [chemical binding]; other site 353496003704 ATP-binding site [chemical binding]; other site 353496003705 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 353496003706 AAA ATPase domain; Region: AAA_16; pfam13191 353496003707 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 353496003708 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 353496003709 putative active site [active] 353496003710 putative metal binding site [ion binding]; other site 353496003711 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 353496003712 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 353496003713 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 353496003714 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 353496003715 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 353496003716 ATP binding site [chemical binding]; other site 353496003717 putative Mg++ binding site [ion binding]; other site 353496003718 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 353496003719 nucleotide binding region [chemical binding]; other site 353496003720 ATP-binding site [chemical binding]; other site 353496003721 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 353496003722 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 353496003723 RimM N-terminal domain; Region: RimM; pfam01782 353496003724 PRC-barrel domain; Region: PRC; pfam05239 353496003725 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 353496003726 signal recognition particle protein; Provisional; Region: PRK10867 353496003727 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 353496003728 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 353496003729 P loop; other site 353496003730 GTP binding site [chemical binding]; other site 353496003731 Signal peptide binding domain; Region: SRP_SPB; pfam02978 353496003732 putative DNA-binding protein; Validated; Region: PRK00118 353496003733 potential frameshift: common BLAST hit: gi|325957092|ref|YP_004292504.1| dipeptidase 353496003734 Peptidase family C69; Region: Peptidase_C69; cl17793 353496003735 Peptidase family C69; Region: Peptidase_C69; cl17793 353496003736 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 353496003737 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 353496003738 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 353496003739 P loop; other site 353496003740 GTP binding site [chemical binding]; other site 353496003741 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 353496003742 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 353496003743 Walker A/P-loop; other site 353496003744 ATP binding site [chemical binding]; other site 353496003745 Q-loop/lid; other site 353496003746 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 353496003747 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 353496003748 Q-loop/lid; other site 353496003749 ABC transporter signature motif; other site 353496003750 Walker B; other site 353496003751 D-loop; other site 353496003752 H-loop/switch region; other site 353496003753 ribonuclease III; Reviewed; Region: rnc; PRK00102 353496003754 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 353496003755 dimerization interface [polypeptide binding]; other site 353496003756 active site 353496003757 metal binding site [ion binding]; metal-binding site 353496003758 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 353496003759 dsRNA binding site [nucleotide binding]; other site 353496003760 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 353496003761 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 353496003762 peptide binding site [polypeptide binding]; other site 353496003763 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 353496003764 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 353496003765 peptide binding site [polypeptide binding]; other site 353496003766 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 353496003767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496003768 dimer interface [polypeptide binding]; other site 353496003769 conserved gate region; other site 353496003770 putative PBP binding loops; other site 353496003771 ABC-ATPase subunit interface; other site 353496003772 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 353496003773 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496003774 dimer interface [polypeptide binding]; other site 353496003775 conserved gate region; other site 353496003776 putative PBP binding loops; other site 353496003777 ABC-ATPase subunit interface; other site 353496003778 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 353496003779 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 353496003780 Walker A/P-loop; other site 353496003781 ATP binding site [chemical binding]; other site 353496003782 Q-loop/lid; other site 353496003783 ABC transporter signature motif; other site 353496003784 Walker B; other site 353496003785 D-loop; other site 353496003786 H-loop/switch region; other site 353496003787 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 353496003788 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 353496003789 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 353496003790 Walker A/P-loop; other site 353496003791 ATP binding site [chemical binding]; other site 353496003792 Q-loop/lid; other site 353496003793 ABC transporter signature motif; other site 353496003794 Walker B; other site 353496003795 D-loop; other site 353496003796 H-loop/switch region; other site 353496003797 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 353496003798 acyl carrier protein; Provisional; Region: acpP; PRK00982 353496003799 putative phosphate acyltransferase; Provisional; Region: PRK05331 353496003800 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 353496003801 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 353496003802 ssDNA binding site; other site 353496003803 generic binding surface II; other site 353496003804 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 353496003805 ATP binding site [chemical binding]; other site 353496003806 putative Mg++ binding site [ion binding]; other site 353496003807 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 353496003808 nucleotide binding region [chemical binding]; other site 353496003809 ATP-binding site [chemical binding]; other site 353496003810 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 353496003811 DAK2 domain; Region: Dak2; pfam02734 353496003812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 353496003813 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 353496003814 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496003815 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 353496003816 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 353496003817 Walker A/P-loop; other site 353496003818 ATP binding site [chemical binding]; other site 353496003819 Q-loop/lid; other site 353496003820 ABC transporter signature motif; other site 353496003821 Walker B; other site 353496003822 D-loop; other site 353496003823 H-loop/switch region; other site 353496003824 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 353496003825 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 353496003826 Thiamine pyrophosphokinase; Region: TPK; cd07995 353496003827 active site 353496003828 dimerization interface [polypeptide binding]; other site 353496003829 thiamine binding site [chemical binding]; other site 353496003830 GTPase RsgA; Reviewed; Region: PRK00098 353496003831 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 353496003832 RNA binding site [nucleotide binding]; other site 353496003833 homodimer interface [polypeptide binding]; other site 353496003834 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 353496003835 GTPase/Zn-binding domain interface [polypeptide binding]; other site 353496003836 GTP/Mg2+ binding site [chemical binding]; other site 353496003837 G4 box; other site 353496003838 G1 box; other site 353496003839 Switch I region; other site 353496003840 G2 box; other site 353496003841 G3 box; other site 353496003842 Switch II region; other site 353496003843 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 353496003844 Catalytic domain of Protein Kinases; Region: PKc; cd00180 353496003845 active site 353496003846 ATP binding site [chemical binding]; other site 353496003847 substrate binding site [chemical binding]; other site 353496003848 activation loop (A-loop); other site 353496003849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 353496003850 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 353496003851 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 353496003852 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 353496003853 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 353496003854 active site 353496003855 16S rRNA methyltransferase B; Provisional; Region: PRK14902 353496003856 NusB family; Region: NusB; pfam01029 353496003857 putative RNA binding site [nucleotide binding]; other site 353496003858 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 353496003859 S-adenosylmethionine binding site [chemical binding]; other site 353496003860 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 353496003861 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 353496003862 putative active site [active] 353496003863 substrate binding site [chemical binding]; other site 353496003864 putative cosubstrate binding site; other site 353496003865 catalytic site [active] 353496003866 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 353496003867 substrate binding site [chemical binding]; other site 353496003868 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 353496003869 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 353496003870 ATP binding site [chemical binding]; other site 353496003871 putative Mg++ binding site [ion binding]; other site 353496003872 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 353496003873 nucleotide binding region [chemical binding]; other site 353496003874 ATP-binding site [chemical binding]; other site 353496003875 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 353496003876 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 353496003877 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 353496003878 catalytic site [active] 353496003879 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 353496003880 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496003881 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496003882 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496003883 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496003884 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 353496003885 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 353496003886 Walker A/P-loop; other site 353496003887 ATP binding site [chemical binding]; other site 353496003888 Q-loop/lid; other site 353496003889 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 353496003890 ABC transporter signature motif; other site 353496003891 Walker B; other site 353496003892 D-loop; other site 353496003893 H-loop/switch region; other site 353496003894 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 353496003895 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 353496003896 RNA binding surface [nucleotide binding]; other site 353496003897 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 353496003898 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 353496003899 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 353496003900 substrate binding pocket [chemical binding]; other site 353496003901 chain length determination region; other site 353496003902 substrate-Mg2+ binding site; other site 353496003903 catalytic residues [active] 353496003904 aspartate-rich region 1; other site 353496003905 active site lid residues [active] 353496003906 aspartate-rich region 2; other site 353496003907 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 353496003908 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 353496003909 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 353496003910 generic binding surface II; other site 353496003911 generic binding surface I; other site 353496003912 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 353496003913 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 353496003914 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 353496003915 homodimer interface [polypeptide binding]; other site 353496003916 NADP binding site [chemical binding]; other site 353496003917 substrate binding site [chemical binding]; other site 353496003918 transcription antitermination factor NusB; Region: nusB; TIGR01951 353496003919 putative RNA binding site [nucleotide binding]; other site 353496003920 Asp23 family; Region: Asp23; pfam03780 353496003921 elongation factor P; Validated; Region: PRK00529 353496003922 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 353496003923 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 353496003924 RNA binding site [nucleotide binding]; other site 353496003925 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 353496003926 RNA binding site [nucleotide binding]; other site 353496003927 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 353496003928 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 353496003929 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 353496003930 active site 353496003931 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 353496003932 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 353496003933 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 353496003934 ArsC family; Region: ArsC; pfam03960 353496003935 putative ArsC-like catalytic residues; other site 353496003936 putative TRX-like catalytic residues [active] 353496003937 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 353496003938 catalytic residue [active] 353496003939 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 353496003940 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496003941 ABC transporter signature motif; other site 353496003942 Walker B; other site 353496003943 D-loop; other site 353496003944 H-loop/switch region; other site 353496003945 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 353496003946 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 353496003947 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 353496003948 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 353496003949 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 353496003950 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 353496003951 purine monophosphate binding site [chemical binding]; other site 353496003952 dimer interface [polypeptide binding]; other site 353496003953 putative catalytic residues [active] 353496003954 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 353496003955 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 353496003956 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 353496003957 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 353496003958 active site 353496003959 substrate binding site [chemical binding]; other site 353496003960 cosubstrate binding site; other site 353496003961 catalytic site [active] 353496003962 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 353496003963 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 353496003964 dimerization interface [polypeptide binding]; other site 353496003965 putative ATP binding site [chemical binding]; other site 353496003966 amidophosphoribosyltransferase; Provisional; Region: PRK07272 353496003967 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 353496003968 active site 353496003969 tetramer interface [polypeptide binding]; other site 353496003970 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496003971 active site 353496003972 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 353496003973 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 353496003974 dimerization interface [polypeptide binding]; other site 353496003975 ATP binding site [chemical binding]; other site 353496003976 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 353496003977 dimerization interface [polypeptide binding]; other site 353496003978 ATP binding site [chemical binding]; other site 353496003979 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 353496003980 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 353496003981 putative active site [active] 353496003982 catalytic triad [active] 353496003983 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 353496003984 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 353496003985 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 353496003986 ATP binding site [chemical binding]; other site 353496003987 active site 353496003988 substrate binding site [chemical binding]; other site 353496003989 adenylosuccinate lyase; Provisional; Region: PRK07492 353496003990 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 353496003991 tetramer interface [polypeptide binding]; other site 353496003992 active site 353496003993 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 353496003994 ATP-grasp domain; Region: ATP-grasp; pfam02222 353496003995 AIR carboxylase; Region: AIRC; pfam00731 353496003996 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 353496003997 potential frameshift: common BLAST hit: gi|104774310|ref|YP_619290.1| permease 353496003998 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 353496003999 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 353496004000 DNA topoisomerase III; Provisional; Region: PRK07726 353496004001 active site 353496004002 putative interdomain interaction site [polypeptide binding]; other site 353496004003 putative metal-binding site [ion binding]; other site 353496004004 putative nucleotide binding site [chemical binding]; other site 353496004005 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 353496004006 domain I; other site 353496004007 DNA binding groove [nucleotide binding] 353496004008 phosphate binding site [ion binding]; other site 353496004009 domain II; other site 353496004010 domain III; other site 353496004011 nucleotide binding site [chemical binding]; other site 353496004012 catalytic site [active] 353496004013 domain IV; other site 353496004014 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 353496004015 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 353496004016 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 353496004017 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 353496004018 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 353496004019 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 353496004020 putative substrate translocation pore; other site 353496004021 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 353496004022 proposed active site lysine [active] 353496004023 conserved cys residue [active] 353496004024 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 353496004025 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 353496004026 dimer interface [polypeptide binding]; other site 353496004027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 353496004028 catalytic residue [active] 353496004029 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 353496004030 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 353496004031 S-adenosylmethionine binding site [chemical binding]; other site 353496004032 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 353496004033 active site 353496004034 Zn binding site [ion binding]; other site 353496004035 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 353496004036 adenosine deaminase; Provisional; Region: PRK09358 353496004037 active site 353496004038 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 353496004039 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 353496004040 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 353496004041 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 353496004042 Major Facilitator Superfamily; Region: MFS_1; pfam07690 353496004043 putative substrate translocation pore; other site 353496004044 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 353496004045 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 353496004046 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 353496004047 potential frameshift: common BLAST hit: gi|313124157|ref|YP_004034416.1| cystathionine beta-lyase 353496004048 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 353496004049 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 353496004050 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 353496004051 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 353496004052 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 353496004053 active site residue [active] 353496004054 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 353496004055 Rhomboid family; Region: Rhomboid; pfam01694 353496004056 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 353496004057 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 353496004058 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 353496004059 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 353496004060 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 353496004061 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 353496004062 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 353496004063 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 353496004064 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 353496004065 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 353496004066 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 353496004067 putative tRNA-binding site [nucleotide binding]; other site 353496004068 B3/4 domain; Region: B3_4; pfam03483 353496004069 tRNA synthetase B5 domain; Region: B5; smart00874 353496004070 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 353496004071 dimer interface [polypeptide binding]; other site 353496004072 motif 1; other site 353496004073 motif 3; other site 353496004074 motif 2; other site 353496004075 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 353496004076 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 353496004077 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 353496004078 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 353496004079 dimer interface [polypeptide binding]; other site 353496004080 motif 1; other site 353496004081 active site 353496004082 motif 2; other site 353496004083 motif 3; other site 353496004084 Predicted transcriptional regulators [Transcription]; Region: COG1733 353496004085 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 353496004086 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 353496004087 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 353496004088 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 353496004089 Acylphosphatase; Region: Acylphosphatase; pfam00708 353496004090 OxaA-like protein precursor; Provisional; Region: PRK02463 353496004091 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 353496004092 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 353496004093 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 353496004094 dimerization interface [polypeptide binding]; other site 353496004095 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 353496004096 dimer interface [polypeptide binding]; other site 353496004097 phosphorylation site [posttranslational modification] 353496004098 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 353496004099 ATP binding site [chemical binding]; other site 353496004100 Mg2+ binding site [ion binding]; other site 353496004101 G-X-G motif; other site 353496004102 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 353496004103 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 353496004104 active site 353496004105 phosphorylation site [posttranslational modification] 353496004106 intermolecular recognition site; other site 353496004107 dimerization interface [polypeptide binding]; other site 353496004108 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 353496004109 DNA binding site [nucleotide binding] 353496004110 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 353496004111 hypothetical protein; Provisional; Region: PRK13670 353496004112 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 353496004113 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 353496004114 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 353496004115 Zn2+ binding site [ion binding]; other site 353496004116 Mg2+ binding site [ion binding]; other site 353496004117 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 353496004118 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 353496004119 active site 353496004120 (T/H)XGH motif; other site 353496004121 GTPase YqeH; Provisional; Region: PRK13796 353496004122 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 353496004123 GTP/Mg2+ binding site [chemical binding]; other site 353496004124 G4 box; other site 353496004125 G5 box; other site 353496004126 G1 box; other site 353496004127 Switch I region; other site 353496004128 G2 box; other site 353496004129 G3 box; other site 353496004130 Switch II region; other site 353496004131 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 353496004132 23S rRNA binding site [nucleotide binding]; other site 353496004133 L21 binding site [polypeptide binding]; other site 353496004134 L13 binding site [polypeptide binding]; other site 353496004135 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 353496004136 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 353496004137 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 353496004138 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 353496004139 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 353496004140 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 353496004141 Archaeal ATPase; Region: Arch_ATPase; pfam01637 353496004142 AAA ATPase domain; Region: AAA_16; pfam13191 353496004143 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 353496004144 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 353496004145 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 353496004146 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 353496004147 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 353496004148 active site 353496004149 dimer interface [polypeptide binding]; other site 353496004150 motif 1; other site 353496004151 motif 2; other site 353496004152 motif 3; other site 353496004153 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 353496004154 anticodon binding site; other site 353496004155 primosomal protein DnaI; Reviewed; Region: PRK08939 353496004156 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 353496004157 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 353496004158 Walker A motif; other site 353496004159 ATP binding site [chemical binding]; other site 353496004160 Walker B motif; other site 353496004161 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 353496004162 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 353496004163 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 353496004164 ATP cone domain; Region: ATP-cone; pfam03477 353496004165 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 353496004166 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 353496004167 CoA-binding site [chemical binding]; other site 353496004168 ATP-binding [chemical binding]; other site 353496004169 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 353496004170 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 353496004171 DNA binding site [nucleotide binding] 353496004172 catalytic residue [active] 353496004173 H2TH interface [polypeptide binding]; other site 353496004174 putative catalytic residues [active] 353496004175 turnover-facilitating residue; other site 353496004176 intercalation triad [nucleotide binding]; other site 353496004177 8OG recognition residue [nucleotide binding]; other site 353496004178 putative reading head residues; other site 353496004179 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 353496004180 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 353496004181 DNA polymerase I; Provisional; Region: PRK05755 353496004182 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 353496004183 active site 353496004184 metal binding site 1 [ion binding]; metal-binding site 353496004185 putative 5' ssDNA interaction site; other site 353496004186 metal binding site 3; metal-binding site 353496004187 metal binding site 2 [ion binding]; metal-binding site 353496004188 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 353496004189 putative DNA binding site [nucleotide binding]; other site 353496004190 putative metal binding site [ion binding]; other site 353496004191 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 353496004192 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 353496004193 active site 353496004194 DNA binding site [nucleotide binding] 353496004195 catalytic site [active] 353496004196 potential frameshift: common BLAST hit: gi|148543596|ref|YP_001270966.1| major facilitator transporter 353496004197 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 353496004198 potential frameshift: common BLAST hit: gi|116630050|ref|YP_815222.1| major facilitator superfamily permease 353496004199 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 353496004200 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 353496004201 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496004202 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496004203 Integrase core domain; Region: rve; pfam00665 353496004204 MobA/MobL family; Region: MobA_MobL; pfam03389 353496004205 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 353496004206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 353496004207 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 353496004208 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 353496004209 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 353496004210 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 353496004211 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 353496004212 putative tRNA-binding site [nucleotide binding]; other site 353496004213 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 353496004214 catalytic residues [active] 353496004215 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 353496004216 S-adenosylmethionine binding site [chemical binding]; other site 353496004217 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 353496004218 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 353496004219 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 353496004220 Walker A/P-loop; other site 353496004221 ATP binding site [chemical binding]; other site 353496004222 Q-loop/lid; other site 353496004223 ABC transporter signature motif; other site 353496004224 Walker B; other site 353496004225 D-loop; other site 353496004226 H-loop/switch region; other site 353496004227 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 353496004228 HIT family signature motif; other site 353496004229 catalytic residue [active] 353496004230 YtxH-like protein; Region: YtxH; pfam12732 353496004231 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 353496004232 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 353496004233 heterodimer interface [polypeptide binding]; other site 353496004234 active site 353496004235 FMN binding site [chemical binding]; other site 353496004236 homodimer interface [polypeptide binding]; other site 353496004237 substrate binding site [chemical binding]; other site 353496004238 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 353496004239 active site 353496004240 dimer interface [polypeptide binding]; other site 353496004241 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496004242 active site 353496004243 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 353496004244 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 353496004245 potential frameshift: common BLAST hit: gi|313124215|ref|YP_004034474.1| 3-phosphoshikimate 1-carboxyvinyltransferase 353496004246 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 353496004247 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 353496004248 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 353496004249 ADP binding site [chemical binding]; other site 353496004250 magnesium binding site [ion binding]; other site 353496004251 putative shikimate binding site; other site 353496004252 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 353496004253 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 353496004254 generic binding surface II; other site 353496004255 generic binding surface I; other site 353496004256 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 353496004257 Zn2+ binding site [ion binding]; other site 353496004258 Mg2+ binding site [ion binding]; other site 353496004259 P-loop containing region of AAA domain; Region: AAA_29; cl17516 353496004260 AAA domain; Region: AAA_23; pfam13476 353496004261 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 353496004262 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 353496004263 active site 353496004264 metal binding site [ion binding]; metal-binding site 353496004265 DNA binding site [nucleotide binding] 353496004266 hypothetical protein; Provisional; Region: PRK13676 353496004267 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 353496004268 Transglycosylase; Region: Transgly; pfam00912 353496004269 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 353496004270 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 353496004271 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 353496004272 active site 353496004273 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 353496004274 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 353496004275 intersubunit interface [polypeptide binding]; other site 353496004276 active site 353496004277 zinc binding site [ion binding]; other site 353496004278 Na+ binding site [ion binding]; other site 353496004279 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 353496004280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 353496004281 potential frameshift: common BLAST hit: gi|295693726|ref|YP_003602336.1| transposase 353496004282 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 353496004283 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 353496004284 Rib/alpha-like repeat; Region: Rib; pfam08428 353496004285 Rib/alpha-like repeat; Region: Rib; cl07159 353496004286 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 353496004287 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 353496004288 putative substrate binding site [chemical binding]; other site 353496004289 putative ATP binding site [chemical binding]; other site 353496004290 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 353496004291 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 353496004292 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 353496004293 potential frameshift: common BLAST hit: gi|104774814|ref|YP_619794.1| pyruvate oxidase 353496004294 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 353496004295 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 353496004296 TPP-binding site [chemical binding]; other site 353496004297 potential frameshift: common BLAST hit: gi|313124234|ref|YP_004034493.1| pyruvate, water dikinase 353496004298 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 353496004299 potential frameshift: common BLAST hit: gi|313124234|ref|YP_004034493.1| pyruvate, water dikinase 353496004300 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 353496004301 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 353496004302 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 353496004303 potential frameshift: common BLAST hit: gi|313124234|ref|YP_004034493.1| pyruvate, water dikinase 353496004304 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 353496004305 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 353496004306 stage V sporulation protein B; Region: spore_V_B; TIGR02900 353496004307 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 353496004308 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 353496004309 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 353496004310 HIGH motif; other site 353496004311 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 353496004312 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 353496004313 active site 353496004314 KMSKS motif; other site 353496004315 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 353496004316 tRNA binding surface [nucleotide binding]; other site 353496004317 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496004318 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496004319 Integrase core domain; Region: rve; pfam00665 353496004320 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 353496004321 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 353496004322 active site 353496004323 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 353496004324 Major Facilitator Superfamily; Region: MFS_1; pfam07690 353496004325 putative substrate translocation pore; other site 353496004326 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 353496004327 S-adenosylmethionine synthetase; Validated; Region: PRK05250 353496004328 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 353496004329 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 353496004330 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 353496004331 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 353496004332 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 353496004333 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 353496004334 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 353496004335 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 353496004336 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 353496004337 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 353496004338 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 353496004339 active site 353496004340 motif I; other site 353496004341 motif II; other site 353496004342 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 353496004343 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 353496004344 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 353496004345 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 353496004346 active site 353496004347 metal binding site [ion binding]; metal-binding site 353496004348 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 353496004349 catabolite control protein A; Region: ccpA; TIGR01481 353496004350 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 353496004351 DNA binding site [nucleotide binding] 353496004352 domain linker motif; other site 353496004353 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 353496004354 dimerization interface [polypeptide binding]; other site 353496004355 effector binding site; other site 353496004356 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 353496004357 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 353496004358 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 353496004359 active site 353496004360 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 353496004361 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 353496004362 Mechanosensitive ion channel; Region: MS_channel; pfam00924 353496004363 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 353496004364 active site 353496004365 dimerization interface [polypeptide binding]; other site 353496004366 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 353496004367 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 353496004368 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 353496004369 catalytic residues [active] 353496004370 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 353496004371 MutS domain III; Region: MutS_III; pfam05192 353496004372 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 353496004373 Walker A/P-loop; other site 353496004374 ATP binding site [chemical binding]; other site 353496004375 Q-loop/lid; other site 353496004376 ABC transporter signature motif; other site 353496004377 Walker B; other site 353496004378 D-loop; other site 353496004379 H-loop/switch region; other site 353496004380 Smr domain; Region: Smr; pfam01713 353496004381 hypothetical protein; Provisional; Region: PRK13678 353496004382 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 353496004383 hypothetical protein; Provisional; Region: PRK05473 353496004384 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 353496004385 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 353496004386 motif 1; other site 353496004387 active site 353496004388 motif 2; other site 353496004389 motif 3; other site 353496004390 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 353496004391 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 353496004392 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 353496004393 ATP binding site [chemical binding]; other site 353496004394 putative Mg++ binding site [ion binding]; other site 353496004395 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 353496004396 nucleotide binding region [chemical binding]; other site 353496004397 ATP-binding site [chemical binding]; other site 353496004398 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 353496004399 DHH family; Region: DHH; pfam01368 353496004400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 353496004401 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 353496004402 active site 353496004403 DNA polymerase IV; Validated; Region: PRK02406 353496004404 DNA binding site [nucleotide binding] 353496004405 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 353496004406 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 353496004407 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 353496004408 Preprotein translocase subunit; Region: YajC; pfam02699 353496004409 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 353496004410 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 353496004411 Walker A motif; other site 353496004412 ATP binding site [chemical binding]; other site 353496004413 Walker B motif; other site 353496004414 arginine finger; other site 353496004415 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 353496004416 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 353496004417 RuvA N terminal domain; Region: RuvA_N; pfam01330 353496004418 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 353496004419 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 353496004420 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 353496004421 ATP binding site [chemical binding]; other site 353496004422 Mg2+ binding site [ion binding]; other site 353496004423 G-X-G motif; other site 353496004424 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 353496004425 ATP binding site [chemical binding]; other site 353496004426 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 353496004427 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 353496004428 MutS domain I; Region: MutS_I; pfam01624 353496004429 MutS domain II; Region: MutS_II; pfam05188 353496004430 MutS domain III; Region: MutS_III; pfam05192 353496004431 MutS domain V; Region: MutS_V; pfam00488 353496004432 Walker A/P-loop; other site 353496004433 ATP binding site [chemical binding]; other site 353496004434 Q-loop/lid; other site 353496004435 ABC transporter signature motif; other site 353496004436 Walker B; other site 353496004437 D-loop; other site 353496004438 H-loop/switch region; other site 353496004439 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 353496004440 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 353496004441 ring oligomerisation interface [polypeptide binding]; other site 353496004442 ATP/Mg binding site [chemical binding]; other site 353496004443 stacking interactions; other site 353496004444 hinge regions; other site 353496004445 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 353496004446 oligomerisation interface [polypeptide binding]; other site 353496004447 mobile loop; other site 353496004448 roof hairpin; other site 353496004449 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 353496004450 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 353496004451 CoA binding domain; Region: CoA_binding; pfam02629 353496004452 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 353496004453 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 353496004454 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 353496004455 ABC transporter; Region: ABC_tran_2; pfam12848 353496004456 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 353496004457 UGMP family protein; Validated; Region: PRK09604 353496004458 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 353496004459 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 353496004460 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496004461 Coenzyme A binding pocket [chemical binding]; other site 353496004462 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 353496004463 Glycoprotease family; Region: Peptidase_M22; pfam00814 353496004464 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 353496004465 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 353496004466 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 353496004467 active site 353496004468 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 353496004469 active site 353496004470 Predicted methyltransferases [General function prediction only]; Region: COG0313 353496004471 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 353496004472 putative SAM binding site [chemical binding]; other site 353496004473 putative homodimer interface [polypeptide binding]; other site 353496004474 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 353496004475 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 353496004476 Protein of unknown function (DUF970); Region: DUF970; cl17525 353496004477 thymidylate kinase; Validated; Region: tmk; PRK00698 353496004478 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 353496004479 TMP-binding site; other site 353496004480 ATP-binding site [chemical binding]; other site 353496004481 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 353496004482 recombination protein RecR; Reviewed; Region: recR; PRK00076 353496004483 RecR protein; Region: RecR; pfam02132 353496004484 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 353496004485 putative active site [active] 353496004486 putative metal-binding site [ion binding]; other site 353496004487 tetramer interface [polypeptide binding]; other site 353496004488 hypothetical protein; Validated; Region: PRK00153 353496004489 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 353496004490 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 353496004491 Walker A motif; other site 353496004492 ATP binding site [chemical binding]; other site 353496004493 Walker B motif; other site 353496004494 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 353496004495 nucleoside/Zn binding site; other site 353496004496 dimer interface [polypeptide binding]; other site 353496004497 catalytic motif [active] 353496004498 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 353496004499 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 353496004500 S-adenosylmethionine binding site [chemical binding]; other site 353496004501 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 353496004502 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496004503 active site 353496004504 Beta-lactamase; Region: Beta-lactamase; pfam00144 353496004505 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 353496004506 Beta-lactamase; Region: Beta-lactamase; pfam00144 353496004507 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 353496004508 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 353496004509 IHF dimer interface [polypeptide binding]; other site 353496004510 IHF - DNA interface [nucleotide binding]; other site 353496004511 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 353496004512 ApbE family; Region: ApbE; pfam02424 353496004513 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 353496004514 beta-alpha-beta structure motif; other site 353496004515 NAD binding pocket [chemical binding]; other site 353496004516 potential frameshift: common BLAST hit: gi|116513389|ref|YP_812295.1| ABC-type oligopeptide transport system, periplasmic component 353496004517 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496004518 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496004519 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 353496004520 core dimer interface [polypeptide binding]; other site 353496004521 peripheral dimer interface [polypeptide binding]; other site 353496004522 L10 interface [polypeptide binding]; other site 353496004523 L11 interface [polypeptide binding]; other site 353496004524 putative EF-Tu interaction site [polypeptide binding]; other site 353496004525 putative EF-G interaction site [polypeptide binding]; other site 353496004526 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 353496004527 23S rRNA interface [nucleotide binding]; other site 353496004528 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 353496004529 potential frameshift: common BLAST hit: gi|104773483|ref|YP_618463.1| transposase 353496004530 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 353496004531 Probable transposase; Region: OrfB_IS605; pfam01385 353496004532 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 353496004533 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 353496004534 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 353496004535 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 353496004536 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 353496004537 active site 353496004538 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 353496004539 mRNA/rRNA interface [nucleotide binding]; other site 353496004540 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 353496004541 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 353496004542 23S rRNA interface [nucleotide binding]; other site 353496004543 L7/L12 interface [polypeptide binding]; other site 353496004544 putative thiostrepton binding site; other site 353496004545 L25 interface [polypeptide binding]; other site 353496004546 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 353496004547 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 353496004548 putative homodimer interface [polypeptide binding]; other site 353496004549 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 353496004550 heterodimer interface [polypeptide binding]; other site 353496004551 homodimer interface [polypeptide binding]; other site 353496004552 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 353496004553 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 353496004554 potential frameshift: common BLAST hit: gi|313124313|ref|YP_004034572.1| 1-deoxy-d-xylulose-5-phosphate synthase 353496004555 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 353496004556 TPP-binding site [chemical binding]; other site 353496004557 potential frameshift: common BLAST hit: gi|313124313|ref|YP_004034572.1| 1-deoxy-d-xylulose-5-phosphate synthase 353496004558 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 353496004559 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 353496004560 PYR/PP interface [polypeptide binding]; other site 353496004561 TPP binding site [chemical binding]; other site 353496004562 dimer interface [polypeptide binding]; other site 353496004563 potential frameshift: common BLAST hit: gi|313124313|ref|YP_004034572.1| 1-deoxy-d-xylulose-5-phosphate synthase 353496004564 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 353496004565 dimer interface [polypeptide binding]; other site 353496004566 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 353496004567 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 353496004568 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 353496004569 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 353496004570 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 353496004571 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 353496004572 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 353496004573 active site 353496004574 metal binding site [ion binding]; metal-binding site 353496004575 dimerization interface [polypeptide binding]; other site 353496004576 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 353496004577 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 353496004578 active site 353496004579 HIGH motif; other site 353496004580 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 353496004581 KMSKS motif; other site 353496004582 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 353496004583 tRNA binding surface [nucleotide binding]; other site 353496004584 anticodon binding site; other site 353496004585 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 353496004586 nudix motif; other site 353496004587 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 353496004588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 353496004589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 353496004590 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 353496004591 dimerization interface [polypeptide binding]; other site 353496004592 Predicted membrane protein [Function unknown]; Region: COG2855 353496004593 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 353496004594 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 353496004595 HIGH motif; other site 353496004596 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 353496004597 active site 353496004598 KMSKS motif; other site 353496004599 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 353496004600 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496004601 Walker A/P-loop; other site 353496004602 ATP binding site [chemical binding]; other site 353496004603 Q-loop/lid; other site 353496004604 ABC transporter signature motif; other site 353496004605 Walker B; other site 353496004606 D-loop; other site 353496004607 H-loop/switch region; other site 353496004608 Predicted transcriptional regulators [Transcription]; Region: COG1725 353496004609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 353496004610 DNA-binding site [nucleotide binding]; DNA binding site 353496004611 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 353496004612 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 353496004613 peptide binding site [polypeptide binding]; other site 353496004614 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 353496004615 ADP-ribose binding site [chemical binding]; other site 353496004616 dimer interface [polypeptide binding]; other site 353496004617 active site 353496004618 nudix motif; other site 353496004619 metal binding site [ion binding]; metal-binding site 353496004620 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 353496004621 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 353496004622 glucose-1-phosphate thymidylyltransferase RfbA; Provisional; Region: PRK15480 353496004623 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 353496004624 active site 353496004625 Substrate binding site; other site 353496004626 Mg++ binding site; other site 353496004627 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 353496004628 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 353496004629 ATP binding site [chemical binding]; other site 353496004630 substrate binding site [chemical binding]; other site 353496004631 H+ Antiporter protein; Region: 2A0121; TIGR00900 353496004632 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 353496004633 putative substrate translocation pore; other site 353496004634 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 353496004635 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 353496004636 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 353496004637 active site 353496004638 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 353496004639 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 353496004640 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 353496004641 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 353496004642 potential frameshift: common BLAST hit: gi|313124342|ref|YP_004034601.1| iron-binding alcohol dehydrogenase and aldehyde dehydrogenase 353496004643 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 353496004644 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 353496004645 putative catalytic cysteine [active] 353496004646 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 353496004647 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 353496004648 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496004649 Walker A/P-loop; other site 353496004650 ATP binding site [chemical binding]; other site 353496004651 Q-loop/lid; other site 353496004652 ABC transporter signature motif; other site 353496004653 Walker B; other site 353496004654 D-loop; other site 353496004655 H-loop/switch region; other site 353496004656 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 353496004657 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 353496004658 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 353496004659 Walker A/P-loop; other site 353496004660 ATP binding site [chemical binding]; other site 353496004661 Q-loop/lid; other site 353496004662 ABC transporter signature motif; other site 353496004663 Walker B; other site 353496004664 D-loop; other site 353496004665 H-loop/switch region; other site 353496004666 hypothetical protein; Provisional; Region: PRK13661 353496004667 Uncharacterized conserved protein [Function unknown]; Region: COG1912 353496004668 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 353496004669 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 353496004670 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 353496004671 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 353496004672 Walker A/P-loop; other site 353496004673 ATP binding site [chemical binding]; other site 353496004674 Q-loop/lid; other site 353496004675 ABC transporter signature motif; other site 353496004676 Walker B; other site 353496004677 D-loop; other site 353496004678 H-loop/switch region; other site 353496004679 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 353496004680 DNA-binding site [nucleotide binding]; DNA binding site 353496004681 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 353496004682 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 353496004683 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 353496004684 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 353496004685 Ligand binding site; other site 353496004686 metal-binding site 353496004687 DNA repair protein RadA; Provisional; Region: PRK11823 353496004688 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 353496004689 Walker A motif/ATP binding site; other site 353496004690 ATP binding site [chemical binding]; other site 353496004691 Walker B motif; other site 353496004692 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 353496004693 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 353496004694 trimer interface [polypeptide binding]; other site 353496004695 active site 353496004696 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 353496004697 trimer interface [polypeptide binding]; other site 353496004698 active site 353496004699 G bulge; other site 353496004700 AAA domain; Region: AAA_33; pfam13671 353496004701 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 353496004702 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 353496004703 catalytic core [active] 353496004704 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 353496004705 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 353496004706 catalytic core [active] 353496004707 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 353496004708 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 353496004709 hypothetical protein; Provisional; Region: PRK10621 353496004710 DJ-1 family protein; Region: not_thiJ; TIGR01383 353496004711 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 353496004712 conserved cys residue [active] 353496004713 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496004714 Coenzyme A binding pocket [chemical binding]; other site 353496004715 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 353496004716 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 353496004717 active site 353496004718 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 353496004719 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 353496004720 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 353496004721 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 353496004722 dipeptidase PepV; Region: dipeptidase; TIGR01886 353496004723 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 353496004724 active site 353496004725 metal binding site [ion binding]; metal-binding site 353496004726 potential frameshift: common BLAST hit: gi|313124374|ref|YP_004034633.1| gamma-aminobutyrate permease related permease 353496004727 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 353496004728 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 353496004729 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 353496004730 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 353496004731 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 353496004732 Aspartase; Region: Aspartase; cd01357 353496004733 active sites [active] 353496004734 tetramer interface [polypeptide binding]; other site 353496004735 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 353496004736 homoserine kinase; Provisional; Region: PRK01212 353496004737 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 353496004738 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 353496004739 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 353496004740 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 353496004741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 353496004742 catalytic residue [active] 353496004743 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 353496004744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496004745 Coenzyme A binding pocket [chemical binding]; other site 353496004746 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 353496004747 Transcriptional regulators [Transcription]; Region: PurR; COG1609 353496004748 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 353496004749 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 353496004750 dimerization interface [polypeptide binding]; other site 353496004751 ligand binding site [chemical binding]; other site 353496004752 sodium binding site [ion binding]; other site 353496004753 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 353496004754 6-phosphofructokinase; Provisional; Region: PRK03202 353496004755 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 353496004756 active site 353496004757 ADP/pyrophosphate binding site [chemical binding]; other site 353496004758 dimerization interface [polypeptide binding]; other site 353496004759 allosteric effector site; other site 353496004760 fructose-1,6-bisphosphate binding site; other site 353496004761 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 353496004762 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 353496004763 active site 353496004764 substrate binding site [chemical binding]; other site 353496004765 metal binding site [ion binding]; metal-binding site 353496004766 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 353496004767 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 353496004768 putative ornithine decarboxylase; Region: lacto_ODC_hypo; TIGR04318 353496004769 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 353496004770 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 353496004771 catalytic residue [active] 353496004772 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 353496004773 Amino acid permease; Region: AA_permease_2; pfam13520 353496004774 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496004775 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496004776 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 353496004777 putative substrate translocation pore; other site 353496004778 Major Facilitator Superfamily; Region: MFS_1; pfam07690 353496004779 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496004780 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496004781 Integrase core domain; Region: rve; pfam00665 353496004782 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 353496004783 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 353496004784 active site 353496004785 catalytic site [active] 353496004786 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 353496004787 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 353496004788 putative substrate translocation pore; other site 353496004789 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 353496004790 PLD-like domain; Region: PLDc_2; pfam13091 353496004791 putative homodimer interface [polypeptide binding]; other site 353496004792 putative active site [active] 353496004793 catalytic site [active] 353496004794 DEAD-like helicases superfamily; Region: DEXDc; smart00487 353496004795 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 353496004796 ATP binding site [chemical binding]; other site 353496004797 putative Mg++ binding site [ion binding]; other site 353496004798 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 353496004799 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 353496004800 nucleotide binding region [chemical binding]; other site 353496004801 ATP-binding site [chemical binding]; other site 353496004802 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 353496004803 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 353496004804 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 353496004805 NAD binding site [chemical binding]; other site 353496004806 homodimer interface [polypeptide binding]; other site 353496004807 active site 353496004808 substrate binding site [chemical binding]; other site 353496004809 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 353496004810 NlpC/P60 family; Region: NLPC_P60; pfam00877 353496004811 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 353496004812 Spore germination protein; Region: Spore_permease; cl17796 353496004813 replication factor C small subunit 2; Reviewed; Region: PRK12402 353496004814 Domain of unknown function (DUF956); Region: DUF956; pfam06115 353496004815 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 353496004816 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 353496004817 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 353496004818 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 353496004819 active pocket/dimerization site; other site 353496004820 active site 353496004821 phosphorylation site [posttranslational modification] 353496004822 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 353496004823 active site 353496004824 phosphorylation site [posttranslational modification] 353496004825 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 353496004826 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 353496004827 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 353496004828 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 353496004829 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 353496004830 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 353496004831 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 353496004832 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 353496004833 seryl-tRNA synthetase; Provisional; Region: PRK05431 353496004834 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 353496004835 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 353496004836 dimer interface [polypeptide binding]; other site 353496004837 active site 353496004838 motif 1; other site 353496004839 motif 2; other site 353496004840 motif 3; other site 353496004841 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 353496004842 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 353496004843 Uncharacterized conserved protein [Function unknown]; Region: COG0398 353496004844 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 353496004845 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 353496004846 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 353496004847 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 353496004848 non-specific DNA binding site [nucleotide binding]; other site 353496004849 salt bridge; other site 353496004850 sequence-specific DNA binding site [nucleotide binding]; other site 353496004851 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 353496004852 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 353496004853 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 353496004854 catalytic triad [active] 353496004855 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496004856 Integrase core domain; Region: rve; pfam00665 353496004857 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 353496004858 MMPL family; Region: MMPL; pfam03176 353496004859 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 353496004860 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 353496004861 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 353496004862 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 353496004863 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 353496004864 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 353496004865 Cl binding site [ion binding]; other site 353496004866 oligomer interface [polypeptide binding]; other site 353496004867 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 353496004868 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 353496004869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 353496004870 Coenzyme A binding pocket [chemical binding]; other site 353496004871 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 353496004872 Peptidase family C69; Region: Peptidase_C69; cl17793 353496004873 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 353496004874 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 353496004875 active site 353496004876 catalytic tetrad [active] 353496004877 potential frameshift: common BLAST hit: gi|116514718|ref|YP_813624.1| transcriptional regulator/sugar kinase 353496004878 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 353496004879 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 353496004880 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496004881 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496004882 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 353496004883 Walker A/P-loop; other site 353496004884 ATP binding site [chemical binding]; other site 353496004885 Q-loop/lid; other site 353496004886 ABC transporter signature motif; other site 353496004887 Walker B; other site 353496004888 D-loop; other site 353496004889 H-loop/switch region; other site 353496004890 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496004891 Integrase core domain; Region: rve; pfam00665 353496004892 aldehyde dehydrogenase family 7 member; Region: PLN02315 353496004893 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 353496004894 TAP-like protein; Region: Abhydrolase_4; pfam08386 353496004895 Helix-turn-helix domain; Region: HTH_25; pfam13413 353496004896 elongation factor P; Validated; Region: PRK00529 353496004897 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 353496004898 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 353496004899 RNA binding site [nucleotide binding]; other site 353496004900 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 353496004901 RNA binding site [nucleotide binding]; other site 353496004902 pantothenate kinase; Provisional; Region: PRK05439 353496004903 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 353496004904 ATP-binding site [chemical binding]; other site 353496004905 CoA-binding site [chemical binding]; other site 353496004906 Mg2+-binding site [ion binding]; other site 353496004907 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 353496004908 active site 353496004909 catalytic triad [active] 353496004910 oxyanion hole [active] 353496004911 LytTr DNA-binding domain; Region: LytTR; smart00850 353496004912 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 353496004913 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 353496004914 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496004915 substrate binding pocket [chemical binding]; other site 353496004916 membrane-bound complex binding site; other site 353496004917 hinge residues; other site 353496004918 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496004919 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 353496004920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496004921 ABC transporter signature motif; other site 353496004922 Walker B; other site 353496004923 D-loop; other site 353496004924 H-loop/switch region; other site 353496004925 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 353496004926 Part of AAA domain; Region: AAA_19; pfam13245 353496004927 Family description; Region: UvrD_C_2; pfam13538 353496004928 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 353496004929 active site 353496004930 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 353496004931 catalytic core [active] 353496004932 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 353496004933 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 353496004934 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 353496004935 active site 353496004936 catalytic site [active] 353496004937 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 353496004938 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 353496004939 putative active site [active] 353496004940 catalytic site [active] 353496004941 putative metal binding site [ion binding]; other site 353496004942 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 353496004943 active site 353496004944 metal binding site [ion binding]; metal-binding site 353496004945 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 353496004946 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 353496004947 VanZ like family; Region: VanZ; pfam04892 353496004948 Predicted membrane protein [Function unknown]; Region: COG2246 353496004949 GtrA-like protein; Region: GtrA; pfam04138 353496004950 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 353496004951 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 353496004952 putative active site [active] 353496004953 Transposase; Region: DEDD_Tnp_IS110; pfam01548 353496004954 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 353496004955 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 353496004956 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 353496004957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 353496004958 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 353496004959 Acyltransferase family; Region: Acyl_transf_3; pfam01757 353496004960 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496004961 Helix-turn-helix domain; Region: HTH_38; pfam13936 353496004962 Integrase core domain; Region: rve; pfam00665 353496004963 Chain length determinant protein; Region: Wzz; pfam02706 353496004964 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 353496004965 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 353496004966 active site 353496004967 nucleotide binding site [chemical binding]; other site 353496004968 HIGH motif; other site 353496004969 KMSKS motif; other site 353496004970 LicD family; Region: LicD; pfam04991 353496004971 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 353496004972 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 353496004973 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 353496004974 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 353496004975 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 353496004976 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 353496004977 Probable Catalytic site; other site 353496004978 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 353496004979 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 353496004980 UDP-galactopyranose mutase; Region: GLF; pfam03275 353496004981 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 353496004982 Bacterial sugar transferase; Region: Bac_transf; pfam02397 353496004983 potential frameshift: common BLAST hit: gi|313124532|ref|YP_004034791.1| epsiib, glycosyltransferase 353496004984 Core-2/I-Branching enzyme; Region: Branch; pfam02485 353496004985 Core-2/I-Branching enzyme; Region: Branch; pfam02485 353496004986 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 353496004987 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 353496004988 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 353496004989 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 353496004990 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 353496004991 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 353496004992 non-specific DNA binding site [nucleotide binding]; other site 353496004993 salt bridge; other site 353496004994 sequence-specific DNA binding site [nucleotide binding]; other site 353496004995 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 353496004996 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 353496004997 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 353496004998 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 353496004999 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 353496005000 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 353496005001 Integrase core domain; Region: rve; pfam00665 353496005002 potential frameshift: common BLAST hit: gi|104774638|ref|YP_619618.1| ABC transporter substrate-binding protein 353496005003 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 353496005004 zinc binding site [ion binding]; other site 353496005005 putative ligand binding site [chemical binding]; other site 353496005006 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 353496005007 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 353496005008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 353496005009 ABC transporter signature motif; other site 353496005010 Walker B; other site 353496005011 D-loop; other site 353496005012 H-loop/switch region; other site 353496005013 methionine sulfoxide reductase B; Provisional; Region: PRK00222 353496005014 SelR domain; Region: SelR; pfam01641 353496005015 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 353496005016 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 353496005017 sequence-specific DNA binding site [nucleotide binding]; other site 353496005018 salt bridge; other site 353496005019 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 353496005020 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 353496005021 NAD binding site [chemical binding]; other site 353496005022 substrate binding site [chemical binding]; other site 353496005023 homodimer interface [polypeptide binding]; other site 353496005024 active site 353496005025 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 353496005026 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 353496005027 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 353496005028 amphipathic channel; other site 353496005029 Asn-Pro-Ala signature motifs; other site 353496005030 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 353496005031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 353496005032 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 353496005033 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 353496005034 DDE superfamily endonuclease; Region: DDE_5; cl17874 353496005035 putative glycosyl transferase; Provisional; Region: PRK10073 353496005036 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 353496005037 active site 353496005038 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 353496005039 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 353496005040 active site 353496005041 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 353496005042 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 353496005043 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 353496005044 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 353496005045 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 353496005046 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 353496005047 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 353496005048 Bacterial sugar transferase; Region: Bac_transf; pfam02397 353496005049 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 353496005050 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 353496005051 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 353496005052 Nucleotide binding site [chemical binding]; other site 353496005053 DTAP/Switch II; other site 353496005054 Switch I; other site 353496005055 Chain length determinant protein; Region: Wzz; cl15801 353496005056 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 353496005057 Chain length determinant protein; Region: Wzz; cl15801 353496005058 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 353496005059 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 353496005060 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 353496005061 HflX GTPase family; Region: HflX; cd01878 353496005062 G1 box; other site 353496005063 GTP/Mg2+ binding site [chemical binding]; other site 353496005064 Switch I region; other site 353496005065 G2 box; other site 353496005066 G3 box; other site 353496005067 Switch II region; other site 353496005068 G4 box; other site 353496005069 G5 box; other site 353496005070 potential frameshift: common BLAST hit: gi|116514797|ref|YP_813703.1| cell wall-associated hydrolase 353496005071 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 353496005072 NlpC/P60 family; Region: NLPC_P60; cl17555 353496005073 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 353496005074 NlpC/P60 family; Region: NLPC_P60; pfam00877 353496005075 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 353496005076 NlpC/P60 family; Region: NLPC_P60; pfam00877 353496005077 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 353496005078 NlpC/P60 family; Region: NLPC_P60; pfam00877 353496005079 (R)-2-Hydroxyglutarate Dehydrogenase and related dehydrogenases, NAD-binding and catalytic domains; Region: HGDH_like; cd12184 353496005080 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 353496005081 putative homodimer interface [polypeptide binding]; other site 353496005082 putative ligand binding site [chemical binding]; other site 353496005083 putative NAD binding site [chemical binding]; other site 353496005084 catalytic site [active] 353496005085 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 353496005086 NlpC/P60 family; Region: NLPC_P60; pfam00877 353496005087 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 353496005088 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 353496005089 catalytic site [active] 353496005090 G-X2-G-X-G-K; other site 353496005091 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 353496005092 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 353496005093 Uncharacterized conserved protein [Function unknown]; Region: COG2966 353496005094 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 353496005095 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 353496005096 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 353496005097 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496005098 Walker A/P-loop; other site 353496005099 ATP binding site [chemical binding]; other site 353496005100 Q-loop/lid; other site 353496005101 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 353496005102 ABC transporter signature motif; other site 353496005103 Walker B; other site 353496005104 D-loop; other site 353496005105 ABC transporter; Region: ABC_tran_2; pfam12848 353496005106 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 353496005107 Predicted membrane protein (DUF2109); Region: DUF2109; cl01660 353496005108 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 353496005109 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 353496005110 Probable transposase; Region: OrfB_IS605; pfam01385 353496005111 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 353496005112 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 353496005113 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 353496005114 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 353496005115 active site 353496005116 Zn binding site [ion binding]; other site 353496005117 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 353496005118 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 353496005119 phosphate binding site [ion binding]; other site 353496005120 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 353496005121 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 353496005122 ABC-ATPase subunit interface; other site 353496005123 dimer interface [polypeptide binding]; other site 353496005124 putative PBP binding regions; other site 353496005125 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 353496005126 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 353496005127 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 353496005128 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 353496005129 active site 353496005130 motif I; other site 353496005131 motif II; other site 353496005132 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; cl17915 353496005133 motif II; other site 353496005134 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 353496005135 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 353496005136 active site 353496005137 phosphorylation site [posttranslational modification] 353496005138 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 353496005139 active site 353496005140 P-loop; other site 353496005141 phosphorylation site [posttranslational modification] 353496005142 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 353496005143 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 353496005144 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 353496005145 putative substrate binding site [chemical binding]; other site 353496005146 putative ATP binding site [chemical binding]; other site 353496005147 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 353496005148 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 353496005149 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 353496005150 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 353496005151 aspartate racemase; Region: asp_race; TIGR00035 353496005152 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 353496005153 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 353496005154 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 353496005155 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 353496005156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 353496005157 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 353496005158 dimer interface [polypeptide binding]; other site 353496005159 phosphorylation site [posttranslational modification] 353496005160 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 353496005161 ATP binding site [chemical binding]; other site 353496005162 Mg2+ binding site [ion binding]; other site 353496005163 G-X-G motif; other site 353496005164 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 353496005165 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 353496005166 active site 353496005167 phosphorylation site [posttranslational modification] 353496005168 intermolecular recognition site; other site 353496005169 dimerization interface [polypeptide binding]; other site 353496005170 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 353496005171 DNA binding site [nucleotide binding] 353496005172 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496005173 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496005174 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 353496005175 Walker A/P-loop; other site 353496005176 ATP binding site [chemical binding]; other site 353496005177 Q-loop/lid; other site 353496005178 ABC transporter signature motif; other site 353496005179 Walker B; other site 353496005180 D-loop; other site 353496005181 H-loop/switch region; other site 353496005182 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496005183 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496005184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496005185 Walker A/P-loop; other site 353496005186 ATP binding site [chemical binding]; other site 353496005187 Q-loop/lid; other site 353496005188 ABC transporter signature motif; other site 353496005189 Walker B; other site 353496005190 D-loop; other site 353496005191 H-loop/switch region; other site 353496005192 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 353496005193 GTP-binding protein YchF; Reviewed; Region: PRK09601 353496005194 YchF GTPase; Region: YchF; cd01900 353496005195 G1 box; other site 353496005196 GTP/Mg2+ binding site [chemical binding]; other site 353496005197 Switch I region; other site 353496005198 G2 box; other site 353496005199 Switch II region; other site 353496005200 G3 box; other site 353496005201 G4 box; other site 353496005202 G5 box; other site 353496005203 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 353496005204 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 353496005205 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 353496005206 ParB-like nuclease domain; Region: ParB; smart00470 353496005207 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 353496005208 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 353496005209 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 353496005210 P-loop; other site 353496005211 Magnesium ion binding site [ion binding]; other site 353496005212 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 353496005213 ParB-like nuclease domain; Region: ParB; smart00470 353496005214 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 353496005215 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 353496005216 S-adenosylmethionine binding site [chemical binding]; other site 353496005217 Colicin V production protein; Region: Colicin_V; pfam02674 353496005218 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 353496005219 ApbE family; Region: ApbE; pfam02424 353496005220 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 353496005221 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 353496005222 Predicted flavoprotein [General function prediction only]; Region: COG0431 353496005223 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 353496005224 Predicted flavoprotein [General function prediction only]; Region: COG0431 353496005225 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 353496005226 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 353496005227 WHG domain; Region: WHG; pfam13305 353496005228 Peptidase family C69; Region: Peptidase_C69; pfam03577 353496005229 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 353496005230 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 353496005231 Walker A/P-loop; other site 353496005232 ATP binding site [chemical binding]; other site 353496005233 Q-loop/lid; other site 353496005234 ABC transporter signature motif; other site 353496005235 Walker B; other site 353496005236 D-loop; other site 353496005237 H-loop/switch region; other site 353496005238 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 353496005239 HPr interaction site; other site 353496005240 glycerol kinase (GK) interaction site [polypeptide binding]; other site 353496005241 active site 353496005242 phosphorylation site [posttranslational modification] 353496005243 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 353496005244 HTH domain; Region: HTH_11; cl17392 353496005245 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 353496005246 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 353496005247 Walker A/P-loop; other site 353496005248 ATP binding site [chemical binding]; other site 353496005249 Q-loop/lid; other site 353496005250 ABC transporter signature motif; other site 353496005251 Walker B; other site 353496005252 D-loop; other site 353496005253 H-loop/switch region; other site 353496005254 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 353496005255 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 353496005256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 353496005257 potential frameshift: common BLAST hit: gi|116514845|ref|YP_813751.1| FAD/FMN-containing dehydrogenase 353496005258 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 353496005259 potential frameshift: common BLAST hit: gi|313124659|ref|YP_004034918.1| fad/fmn-containing dehydrogenase 353496005260 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 353496005261 Protein of unknown function (DUF328); Region: DUF328; pfam03883 353496005262 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 353496005263 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 353496005264 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 353496005265 dimer interface [polypeptide binding]; other site 353496005266 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 353496005267 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 353496005268 cofactor binding site; other site 353496005269 DNA binding site [nucleotide binding] 353496005270 substrate interaction site [chemical binding]; other site 353496005271 Putative catalytic domain of type II restriction enzyme NgoFVII and similar proteins; Region: PLDc_RE_NgoFVII; cd09177 353496005272 PLD-like domain; Region: PLDc_2; pfam13091 353496005273 putative homodimer interface [polypeptide binding]; other site 353496005274 putative active site [active] 353496005275 catalytic site [active] 353496005276 Z1 domain; Region: Z1; pfam10593 353496005277 HNH endonuclease; Region: HNH_2; pfam13391 353496005278 Peptidase family M1; Region: Peptidase_M1; pfam01433 353496005279 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 353496005280 Zn binding site [ion binding]; other site 353496005281 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 353496005282 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 353496005283 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 353496005284 Peptidase family C69; Region: Peptidase_C69; pfam03577 353496005285 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 353496005286 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 353496005287 transmembrane helices; other site 353496005288 fumarate hydratase; Reviewed; Region: fumC; PRK00485 353496005289 Class II fumarases; Region: Fumarase_classII; cd01362 353496005290 active site 353496005291 tetramer interface [polypeptide binding]; other site 353496005292 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 353496005293 putative ADP-ribose binding site [chemical binding]; other site 353496005294 putative active site [active] 353496005295 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 353496005296 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 353496005297 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 353496005298 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 353496005299 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 353496005300 Walker A/P-loop; other site 353496005301 ATP binding site [chemical binding]; other site 353496005302 Q-loop/lid; other site 353496005303 ABC transporter signature motif; other site 353496005304 Walker B; other site 353496005305 D-loop; other site 353496005306 H-loop/switch region; other site 353496005307 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 353496005308 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 353496005309 active site 353496005310 substrate binding site [chemical binding]; other site 353496005311 ATP binding site [chemical binding]; other site 353496005312 activation loop (A-loop); other site 353496005313 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 353496005314 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 353496005315 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 353496005316 nucleotide binding site [chemical binding]; other site 353496005317 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 353496005318 catalytic triad [active] 353496005319 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 353496005320 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 353496005321 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 353496005322 Walker A motif; other site 353496005323 ATP binding site [chemical binding]; other site 353496005324 Walker B motif; other site 353496005325 arginine finger; other site 353496005326 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 353496005327 Walker A motif; other site 353496005328 ATP binding site [chemical binding]; other site 353496005329 Walker B motif; other site 353496005330 arginine finger; other site 353496005331 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 353496005332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 353496005333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 353496005334 metal binding site [ion binding]; metal-binding site 353496005335 active site 353496005336 I-site; other site 353496005337 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 353496005338 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 353496005339 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 353496005340 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 353496005341 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 353496005342 ATP-grasp domain; Region: ATP-grasp_4; cl17255 353496005343 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 353496005344 IMP binding site; other site 353496005345 dimer interface [polypeptide binding]; other site 353496005346 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 353496005347 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 353496005348 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 353496005349 catalytic site [active] 353496005350 subunit interface [polypeptide binding]; other site 353496005351 dihydroorotase; Validated; Region: pyrC; PRK09357 353496005352 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 353496005353 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 353496005354 active site 353496005355 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 353496005356 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 353496005357 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 353496005358 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 353496005359 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 353496005360 active site 353496005361 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 353496005362 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 353496005363 heterodimer interface [polypeptide binding]; other site 353496005364 active site 353496005365 FMN binding site [chemical binding]; other site 353496005366 homodimer interface [polypeptide binding]; other site 353496005367 substrate binding site [chemical binding]; other site 353496005368 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 353496005369 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 353496005370 DNA-binding site [nucleotide binding]; DNA binding site 353496005371 RNA-binding motif; other site 353496005372 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 353496005373 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 353496005374 catalytic residues [active] 353496005375 catalytic nucleophile [active] 353496005376 EamA-like transporter family; Region: EamA; pfam00892 353496005377 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 353496005378 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 353496005379 catalytic triad [active] 353496005380 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 353496005381 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 353496005382 active site 353496005383 motif I; other site 353496005384 motif II; other site 353496005385 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 353496005386 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 353496005387 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 353496005388 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 353496005389 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 353496005390 Transcriptional regulator [Transcription]; Region: LysR; COG0583 353496005391 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 353496005392 dimerization interface [polypeptide binding]; other site 353496005393 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 353496005394 homopentamer interface [polypeptide binding]; other site 353496005395 active site 353496005396 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 353496005397 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 353496005398 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 353496005399 dimerization interface [polypeptide binding]; other site 353496005400 active site 353496005401 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 353496005402 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 353496005403 catalytic motif [active] 353496005404 Zn binding site [ion binding]; other site 353496005405 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 353496005406 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 353496005407 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 353496005408 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 353496005409 Walker A/P-loop; other site 353496005410 ATP binding site [chemical binding]; other site 353496005411 Q-loop/lid; other site 353496005412 ABC transporter signature motif; other site 353496005413 Walker B; other site 353496005414 D-loop; other site 353496005415 H-loop/switch region; other site 353496005416 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 353496005417 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 353496005418 FtsX-like permease family; Region: FtsX; pfam02687 353496005419 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 353496005420 DltD N-terminal region; Region: DltD_N; pfam04915 353496005421 DltD central region; Region: DltD_M; pfam04918 353496005422 DltD C-terminal region; Region: DltD_C; pfam04914 353496005423 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 353496005424 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 353496005425 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 353496005426 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 353496005427 acyl-activating enzyme (AAE) consensus motif; other site 353496005428 AMP binding site [chemical binding]; other site 353496005429 FOG: CBS domain [General function prediction only]; Region: COG0517 353496005430 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_30; cd04643 353496005431 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 353496005432 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 353496005433 Soluble P-type ATPase [General function prediction only]; Region: COG4087 353496005434 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 353496005435 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 353496005436 CAAX protease self-immunity; Region: Abi; pfam02517 353496005437 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 353496005438 putative active site [active] 353496005439 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 353496005440 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 353496005441 ligand binding site [chemical binding]; other site 353496005442 Transposase; Region: DDE_Tnp_ISL3; pfam01610 353496005443 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 353496005444 Catalytic domain of Protein Kinases; Region: PKc; cd00180 353496005445 active site 353496005446 ATP binding site [chemical binding]; other site 353496005447 substrate binding site [chemical binding]; other site 353496005448 activation loop (A-loop); other site 353496005449 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 353496005450 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 353496005451 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 353496005452 ligand binding site [chemical binding]; other site 353496005453 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 353496005454 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 353496005455 ligand binding site [chemical binding]; other site 353496005456 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 353496005457 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 353496005458 Walker A/P-loop; other site 353496005459 ATP binding site [chemical binding]; other site 353496005460 Q-loop/lid; other site 353496005461 ABC transporter signature motif; other site 353496005462 Walker B; other site 353496005463 D-loop; other site 353496005464 H-loop/switch region; other site 353496005465 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 353496005466 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 353496005467 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 353496005468 TM-ABC transporter signature motif; other site 353496005469 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 353496005470 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 353496005471 TM-ABC transporter signature motif; other site 353496005472 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 353496005473 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 353496005474 active site 353496005475 catalytic tetrad [active] 353496005476 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 353496005477 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 353496005478 active site 353496005479 trimer interface [polypeptide binding]; other site 353496005480 allosteric site; other site 353496005481 active site lid [active] 353496005482 hexamer (dimer of trimers) interface [polypeptide binding]; other site 353496005483 Integrase core domain; Region: rve_2; pfam13333 353496005484 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 353496005485 active site 353496005486 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 353496005487 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 353496005488 Substrate-binding site [chemical binding]; other site 353496005489 Substrate specificity [chemical binding]; other site 353496005490 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 353496005491 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 353496005492 Substrate-binding site [chemical binding]; other site 353496005493 Substrate specificity [chemical binding]; other site 353496005494 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 353496005495 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 353496005496 substrate binding pocket [chemical binding]; other site 353496005497 membrane-bound complex binding site; other site 353496005498 hinge residues; other site 353496005499 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 353496005500 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 353496005501 dimer interface [polypeptide binding]; other site 353496005502 conserved gate region; other site 353496005503 putative PBP binding loops; other site 353496005504 ABC-ATPase subunit interface; other site 353496005505 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 353496005506 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 353496005507 Walker A/P-loop; other site 353496005508 ATP binding site [chemical binding]; other site 353496005509 Q-loop/lid; other site 353496005510 ABC transporter signature motif; other site 353496005511 Walker B; other site 353496005512 D-loop; other site 353496005513 H-loop/switch region; other site 353496005514 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 353496005515 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 353496005516 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 353496005517 Cl- selectivity filter; other site 353496005518 Cl- binding residues [ion binding]; other site 353496005519 pore gating glutamate residue; other site 353496005520 dimer interface [polypeptide binding]; other site 353496005521 H+/Cl- coupling transport residue; other site 353496005522 TrkA-C domain; Region: TrkA_C; pfam02080 353496005523 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 353496005524 putative deacylase active site [active] 353496005525 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 353496005526 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 353496005527 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 353496005528 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 353496005529 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 353496005530 PYR/PP interface [polypeptide binding]; other site 353496005531 dimer interface [polypeptide binding]; other site 353496005532 TPP binding site [chemical binding]; other site 353496005533 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 353496005534 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 353496005535 TPP-binding site [chemical binding]; other site 353496005536 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 353496005537 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 353496005538 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 353496005539 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 353496005540 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 353496005541 trmE is a tRNA modification GTPase; Region: trmE; cd04164 353496005542 G1 box; other site 353496005543 GTP/Mg2+ binding site [chemical binding]; other site 353496005544 Switch I region; other site 353496005545 G2 box; other site 353496005546 Switch II region; other site 353496005547 G3 box; other site 353496005548 G4 box; other site 353496005549 G5 box; other site 353496005550 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 353496005551 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 353496005552 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 353496005553 ribonuclease P; Reviewed; Region: rnpA; PRK00499