-- dump date 20140619_074332 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1104325000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1104325000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1104325000003 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 1104325000004 Walker A motif; other site 1104325000005 ATP binding site [chemical binding]; other site 1104325000006 Walker B motif; other site 1104325000007 arginine finger; other site 1104325000008 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 1104325000009 DnaA box-binding interface [nucleotide binding]; other site 1104325000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1104325000011 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 1104325000012 putative DNA binding surface [nucleotide binding]; other site 1104325000013 dimer interface [polypeptide binding]; other site 1104325000014 beta-clamp/clamp loader binding surface; other site 1104325000015 beta-clamp/translesion DNA polymerase binding surface; other site 1104325000016 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 1104325000017 recombination protein F; Reviewed; Region: recF; PRK00064 1104325000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1104325000019 Walker A/P-loop; other site 1104325000020 ATP binding site [chemical binding]; other site 1104325000021 Q-loop/lid; other site 1104325000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325000023 ABC transporter signature motif; other site 1104325000024 Walker B; other site 1104325000025 D-loop; other site 1104325000026 H-loop/switch region; other site 1104325000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1104325000028 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 1104325000029 Mg2+ binding site [ion binding]; other site 1104325000030 G-X-G motif; other site 1104325000031 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 1104325000032 anchoring element; other site 1104325000033 dimer interface [polypeptide binding]; other site 1104325000034 ATP binding site [chemical binding]; other site 1104325000035 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 1104325000036 active site 1104325000037 putative metal-binding site [ion binding]; other site 1104325000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1104325000039 DNA gyrase subunit A; Validated; Region: PRK05560 1104325000040 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 1104325000041 CAP-like domain; other site 1104325000042 active site 1104325000043 primary dimer interface [polypeptide binding]; other site 1104325000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104325000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104325000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104325000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104325000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104325000049 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1104325000050 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1104325000051 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 1104325000052 dimer interface [polypeptide binding]; other site 1104325000053 ssDNA binding site [nucleotide binding]; other site 1104325000054 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104325000055 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1104325000056 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1104325000057 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1104325000058 DHH family; Region: DHH; pfam01368 1104325000059 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1104325000060 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1104325000061 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1104325000062 replicative DNA helicase; Provisional; Region: PRK05748 1104325000063 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1104325000064 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 1104325000065 Walker A motif; other site 1104325000066 ATP binding site [chemical binding]; other site 1104325000067 Walker B motif; other site 1104325000068 DNA binding loops [nucleotide binding] 1104325000069 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1104325000070 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 1104325000071 GDP-binding site [chemical binding]; other site 1104325000072 ACT binding site; other site 1104325000073 IMP binding site; other site 1104325000074 EDD domain protein, DegV family; Region: DegV; TIGR00762 1104325000075 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1104325000076 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1104325000077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325000078 Walker A/P-loop; other site 1104325000079 ATP binding site [chemical binding]; other site 1104325000080 Q-loop/lid; other site 1104325000081 ABC transporter signature motif; other site 1104325000082 Walker B; other site 1104325000083 D-loop; other site 1104325000084 H-loop/switch region; other site 1104325000085 ABC transporter; Region: ABC_tran_2; pfam12848 1104325000086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325000087 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1104325000088 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 1104325000089 PYR/PP interface [polypeptide binding]; other site 1104325000090 dimer interface [polypeptide binding]; other site 1104325000091 tetramer interface [polypeptide binding]; other site 1104325000092 TPP binding site [chemical binding]; other site 1104325000093 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104325000094 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 1104325000095 TPP-binding site [chemical binding]; other site 1104325000096 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1104325000097 ZIP Zinc transporter; Region: Zip; pfam02535 1104325000098 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1104325000099 VanZ like family; Region: VanZ; pfam04892 1104325000100 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1104325000101 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 1104325000102 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1104325000103 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 1104325000104 motif II; other site 1104325000105 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104325000106 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1104325000107 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104325000108 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1104325000109 beta-galactosidase; Region: BGL; TIGR03356 1104325000110 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1104325000111 methionine cluster; other site 1104325000112 active site 1104325000113 phosphorylation site [posttranslational modification] 1104325000114 metal binding site [ion binding]; metal-binding site 1104325000115 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1104325000116 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1104325000117 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 1104325000118 active site 1104325000119 P-loop; other site 1104325000120 phosphorylation site [posttranslational modification] 1104325000121 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 1104325000122 GMP synthase; Reviewed; Region: guaA; PRK00074 1104325000123 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1104325000124 AMP/PPi binding site [chemical binding]; other site 1104325000125 candidate oxyanion hole; other site 1104325000126 catalytic triad [active] 1104325000127 potential glutamine specificity residues [chemical binding]; other site 1104325000128 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 1104325000129 ATP Binding subdomain [chemical binding]; other site 1104325000130 Dimerization subdomain; other site 1104325000131 pantothenate kinase; Provisional; Region: PRK05439 1104325000132 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 1104325000133 ATP-binding site [chemical binding]; other site 1104325000134 CoA-binding site [chemical binding]; other site 1104325000135 Mg2+-binding site [ion binding]; other site 1104325000136 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1104325000137 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 1104325000138 S-adenosylmethionine binding site [chemical binding]; other site 1104325000139 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325000140 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325000141 DNA binding site [nucleotide binding] 1104325000142 domain linker motif; other site 1104325000143 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1104325000144 dimerization interface [polypeptide binding]; other site 1104325000145 ligand binding site [chemical binding]; other site 1104325000146 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1104325000147 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1104325000148 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1104325000149 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1104325000150 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1104325000151 intersubunit interface [polypeptide binding]; other site 1104325000152 active site 1104325000153 catalytic residue [active] 1104325000154 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 1104325000155 active site 1104325000156 catalytic motif [active] 1104325000157 Zn binding site [ion binding]; other site 1104325000158 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1104325000159 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 1104325000160 ligand binding site [chemical binding]; other site 1104325000161 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1104325000162 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104325000163 Walker A/P-loop; other site 1104325000164 ATP binding site [chemical binding]; other site 1104325000165 Q-loop/lid; other site 1104325000166 ABC transporter signature motif; other site 1104325000167 Walker B; other site 1104325000168 D-loop; other site 1104325000169 H-loop/switch region; other site 1104325000170 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104325000171 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104325000172 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 1104325000173 TM-ABC transporter signature motif; other site 1104325000174 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104325000175 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 1104325000176 TM-ABC transporter signature motif; other site 1104325000177 phosphopentomutase; Provisional; Region: PRK05362 1104325000178 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1104325000179 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 1104325000180 catalytic core [active] 1104325000181 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 1104325000182 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1104325000183 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 1104325000184 catalytic residues [active] 1104325000185 catalytic nucleophile [active] 1104325000186 Presynaptic Site I dimer interface [polypeptide binding]; other site 1104325000187 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1104325000188 Synaptic Flat tetramer interface [polypeptide binding]; other site 1104325000189 Synaptic Site I dimer interface [polypeptide binding]; other site 1104325000190 DNA binding site [nucleotide binding] 1104325000191 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 1104325000192 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104325000193 active site 1104325000194 dimer interface [polypeptide binding]; other site 1104325000195 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 1104325000196 S17 interaction site [polypeptide binding]; other site 1104325000197 S8 interaction site; other site 1104325000198 16S rRNA interaction site [nucleotide binding]; other site 1104325000199 streptomycin interaction site [chemical binding]; other site 1104325000200 23S rRNA interaction site [nucleotide binding]; other site 1104325000201 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1104325000202 30S ribosomal protein S7; Validated; Region: PRK05302 1104325000203 elongation factor G; Reviewed; Region: PRK00007 1104325000204 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1104325000205 G1 box; other site 1104325000206 putative GEF interaction site [polypeptide binding]; other site 1104325000207 GTP/Mg2+ binding site [chemical binding]; other site 1104325000208 Switch I region; other site 1104325000209 G2 box; other site 1104325000210 G3 box; other site 1104325000211 Switch II region; other site 1104325000212 G4 box; other site 1104325000213 G5 box; other site 1104325000214 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 1104325000215 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 1104325000216 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 1104325000217 elongation factor Tu; Reviewed; Region: PRK00049 1104325000218 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1104325000219 G1 box; other site 1104325000220 GEF interaction site [polypeptide binding]; other site 1104325000221 GTP/Mg2+ binding site [chemical binding]; other site 1104325000222 Switch I region; other site 1104325000223 G2 box; other site 1104325000224 G3 box; other site 1104325000225 Switch II region; other site 1104325000226 G4 box; other site 1104325000227 G5 box; other site 1104325000228 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 1104325000229 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 1104325000230 Antibiotic Binding Site [chemical binding]; other site 1104325000231 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1104325000232 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1104325000233 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1104325000234 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1104325000235 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1104325000236 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1104325000237 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1104325000238 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1104325000239 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 1104325000240 putative translocon binding site; other site 1104325000241 protein-rRNA interface [nucleotide binding]; other site 1104325000242 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1104325000243 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 1104325000244 G-X-X-G motif; other site 1104325000245 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1104325000246 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 1104325000247 23S rRNA interface [nucleotide binding]; other site 1104325000248 5S rRNA interface [nucleotide binding]; other site 1104325000249 putative antibiotic binding site [chemical binding]; other site 1104325000250 L25 interface [polypeptide binding]; other site 1104325000251 L27 interface [polypeptide binding]; other site 1104325000252 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 1104325000253 23S rRNA interface [nucleotide binding]; other site 1104325000254 putative translocon interaction site; other site 1104325000255 signal recognition particle (SRP54) interaction site; other site 1104325000256 L23 interface [polypeptide binding]; other site 1104325000257 trigger factor interaction site; other site 1104325000258 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1104325000259 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1104325000260 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1104325000261 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1104325000262 RNA binding site [nucleotide binding]; other site 1104325000263 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1104325000264 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1104325000265 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1104325000266 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1104325000267 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1104325000268 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1104325000269 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1104325000270 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1104325000271 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 1104325000272 5S rRNA interface [nucleotide binding]; other site 1104325000273 L27 interface [polypeptide binding]; other site 1104325000274 23S rRNA interface [nucleotide binding]; other site 1104325000275 L5 interface [polypeptide binding]; other site 1104325000276 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1104325000277 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1104325000278 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1104325000279 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 1104325000280 23S rRNA binding site [nucleotide binding]; other site 1104325000281 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1104325000282 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1104325000283 SecY translocase; Region: SecY; pfam00344 1104325000284 adenylate kinase; Reviewed; Region: adk; PRK00279 1104325000285 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 1104325000286 AMP-binding site [chemical binding]; other site 1104325000287 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1104325000288 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 1104325000289 rRNA binding site [nucleotide binding]; other site 1104325000290 predicted 30S ribosome binding site; other site 1104325000291 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1104325000292 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1104325000293 30S ribosomal protein S11; Validated; Region: PRK05309 1104325000294 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1104325000295 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1104325000296 alphaNTD homodimer interface [polypeptide binding]; other site 1104325000297 alphaNTD - beta interaction site [polypeptide binding]; other site 1104325000298 alphaNTD - beta' interaction site [polypeptide binding]; other site 1104325000299 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1104325000300 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1104325000301 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1104325000302 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1104325000303 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1104325000304 dimerization interface 3.5A [polypeptide binding]; other site 1104325000305 active site 1104325000306 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1104325000307 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1104325000308 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1104325000309 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1104325000310 putative DNA binding site [nucleotide binding]; other site 1104325000311 putative Zn2+ binding site [ion binding]; other site 1104325000312 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 1104325000313 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1104325000314 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1104325000315 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1104325000316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1104325000317 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1104325000318 DAK2 domain; Region: Dak2; pfam02734 1104325000319 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 1104325000320 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1104325000321 Y-family of DNA polymerases; Region: PolY; cl12025 1104325000322 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 1104325000323 generic binding surface II; other site 1104325000324 ssDNA binding site; other site 1104325000325 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 1104325000326 ATP binding site [chemical binding]; other site 1104325000327 putative Mg++ binding site [ion binding]; other site 1104325000328 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 1104325000329 nucleotide binding region [chemical binding]; other site 1104325000330 ATP-binding site [chemical binding]; other site 1104325000331 putative phosphate acyltransferase; Provisional; Region: PRK05331 1104325000332 acyl carrier protein; Provisional; Region: acpP; PRK00982 1104325000333 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104325000334 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104325000335 Walker A/P-loop; other site 1104325000336 ATP binding site [chemical binding]; other site 1104325000337 Q-loop/lid; other site 1104325000338 ABC transporter signature motif; other site 1104325000339 Walker B; other site 1104325000340 D-loop; other site 1104325000341 H-loop/switch region; other site 1104325000342 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104325000343 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104325000344 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104325000345 Walker A/P-loop; other site 1104325000346 ATP binding site [chemical binding]; other site 1104325000347 Q-loop/lid; other site 1104325000348 ABC transporter signature motif; other site 1104325000349 Walker B; other site 1104325000350 D-loop; other site 1104325000351 H-loop/switch region; other site 1104325000352 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104325000353 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104325000354 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 1104325000355 dimer interface [polypeptide binding]; other site 1104325000356 conserved gate region; other site 1104325000357 putative PBP binding loops; other site 1104325000358 ABC-ATPase subunit interface; other site 1104325000359 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104325000360 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 1104325000361 putative PBP binding loops; other site 1104325000362 dimer interface [polypeptide binding]; other site 1104325000363 ABC-ATPase subunit interface; other site 1104325000364 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1104325000365 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1104325000366 peptide binding site [polypeptide binding]; other site 1104325000367 ribonuclease III; Reviewed; Region: rnc; PRK00102 1104325000368 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 1104325000369 dimerization interface [polypeptide binding]; other site 1104325000370 active site 1104325000371 metal binding site [ion binding]; metal-binding site 1104325000372 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 1104325000373 dsRNA binding site [nucleotide binding]; other site 1104325000374 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1104325000375 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1104325000376 Walker A/P-loop; other site 1104325000377 ATP binding site [chemical binding]; other site 1104325000378 Q-loop/lid; other site 1104325000379 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1104325000380 Nucleoporin complex subunit 54; Region: Nup54; pfam13874 1104325000381 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1104325000382 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1104325000383 ABC transporter signature motif; other site 1104325000384 Walker B; other site 1104325000385 D-loop; other site 1104325000386 H-loop/switch region; other site 1104325000387 sugar phosphate phosphatase; Provisional; Region: PRK10513 1104325000388 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 1104325000389 active site 1104325000390 motif I; other site 1104325000391 motif II; other site 1104325000392 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 1104325000393 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1104325000394 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1104325000395 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 1104325000396 P loop; other site 1104325000397 GTP binding site [chemical binding]; other site 1104325000398 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1104325000399 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1104325000400 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104325000401 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 1104325000402 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1104325000403 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1104325000404 Walker A/P-loop; other site 1104325000405 ATP binding site [chemical binding]; other site 1104325000406 Q-loop/lid; other site 1104325000407 ABC transporter signature motif; other site 1104325000408 Walker B; other site 1104325000409 D-loop; other site 1104325000410 H-loop/switch region; other site 1104325000411 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1104325000412 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1104325000413 putative ligand binding residues [chemical binding]; other site 1104325000414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 1104325000415 putative phosphoesterase; Region: acc_ester; TIGR03729 1104325000416 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1104325000417 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104325000418 legume lectins; Region: lectin_L-type; cd01951 1104325000419 homotetramer interaction site [polypeptide binding]; other site 1104325000420 homodimer interaction site [polypeptide binding]; other site 1104325000421 carbohydrate binding site [chemical binding]; other site 1104325000422 metal binding site [ion binding]; metal-binding site 1104325000423 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1104325000424 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1104325000425 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1104325000426 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325000427 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1104325000428 amphipathic channel; other site 1104325000429 Asn-Pro-Ala signature motifs; other site 1104325000430 LrgA family; Region: LrgA; pfam03788 1104325000431 LrgB-like family; Region: LrgB; pfam04172 1104325000432 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325000433 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1104325000434 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 1104325000435 classical (c) SDRs; Region: SDR_c; cd05233 1104325000436 NAD(P) binding site [chemical binding]; other site 1104325000437 active site 1104325000438 QueT transporter; Region: QueT; pfam06177 1104325000439 BioY family; Region: BioY; pfam02632 1104325000440 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1104325000441 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1104325000442 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 1104325000443 RNA binding surface [nucleotide binding]; other site 1104325000444 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1104325000445 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 1104325000446 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1104325000447 active site 1104325000448 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 1104325000449 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104325000450 active site 1104325000451 motif I; other site 1104325000452 motif II; other site 1104325000453 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 1104325000454 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1104325000455 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1104325000456 putative active site [active] 1104325000457 metal binding site [ion binding]; metal-binding site 1104325000458 homodimer binding site [polypeptide binding]; other site 1104325000459 Protein of unknown function (DUF964); Region: DUF964; cl01483 1104325000460 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1104325000461 MutS domain I; Region: MutS_I; pfam01624 1104325000462 MutS domain II; Region: MutS_II; pfam05188 1104325000463 MutS domain III; Region: MutS_III; pfam05192 1104325000464 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1104325000465 Walker A/P-loop; other site 1104325000466 ATP binding site [chemical binding]; other site 1104325000467 Q-loop/lid; other site 1104325000468 ABC transporter signature motif; other site 1104325000469 Walker B; other site 1104325000470 D-loop; other site 1104325000471 H-loop/switch region; other site 1104325000472 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 1104325000473 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 1104325000474 ATP binding site [chemical binding]; other site 1104325000475 Mg2+ binding site [ion binding]; other site 1104325000476 G-X-G motif; other site 1104325000477 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 1104325000478 ATP binding site [chemical binding]; other site 1104325000479 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1104325000480 Maf-like protein; Region: Maf; pfam02545 1104325000481 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1104325000482 active site 1104325000483 dimer interface [polypeptide binding]; other site 1104325000484 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 1104325000485 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325000486 active site turn [active] 1104325000487 phosphorylation site [posttranslational modification] 1104325000488 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325000489 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104325000490 HPr interaction site; other site 1104325000491 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325000492 active site 1104325000493 phosphorylation site [posttranslational modification] 1104325000494 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 1104325000495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325000496 DNA-binding site [nucleotide binding]; DNA binding site 1104325000497 UTRA domain; Region: UTRA; pfam07702 1104325000498 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1104325000499 SelR domain; Region: SelR; pfam01641 1104325000500 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1104325000501 RuvA N terminal domain; Region: RuvA_N; pfam01330 1104325000502 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1104325000503 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1104325000504 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 1104325000505 Walker A motif; other site 1104325000506 ATP binding site [chemical binding]; other site 1104325000507 Walker B motif; other site 1104325000508 arginine finger; other site 1104325000509 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1104325000510 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1104325000511 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104325000512 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1104325000513 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1104325000514 active site 1104325000515 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1104325000516 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1104325000517 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1104325000518 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1104325000519 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104325000520 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104325000521 Walker A/P-loop; other site 1104325000522 ATP binding site [chemical binding]; other site 1104325000523 Q-loop/lid; other site 1104325000524 ABC transporter signature motif; other site 1104325000525 Walker B; other site 1104325000526 D-loop; other site 1104325000527 H-loop/switch region; other site 1104325000528 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104325000529 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 1104325000530 substrate binding pocket [chemical binding]; other site 1104325000531 membrane-bound complex binding site; other site 1104325000532 hinge residues; other site 1104325000533 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104325000534 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 1104325000535 dimer interface [polypeptide binding]; other site 1104325000536 conserved gate region; other site 1104325000537 putative PBP binding loops; other site 1104325000538 ABC-ATPase subunit interface; other site 1104325000539 NAD-dependent deacetylase; Provisional; Region: PRK00481 1104325000540 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 1104325000541 maltose O-acetyltransferase; Provisional; Region: PRK10092 1104325000542 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 1104325000543 active site 1104325000544 substrate binding site [chemical binding]; other site 1104325000545 trimer interface [polypeptide binding]; other site 1104325000546 CoA binding site [chemical binding]; other site 1104325000547 hypothetical protein; Provisional; Region: PRK07248 1104325000548 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1104325000549 HTH domain; Region: HTH_11; pfam08279 1104325000550 3H domain; Region: 3H; pfam02829 1104325000551 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 1104325000552 active site 1104325000553 catalytic residues [active] 1104325000554 metal binding site [ion binding]; metal-binding site 1104325000555 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 1104325000556 16S/18S rRNA binding site [nucleotide binding]; other site 1104325000557 S13e-L30e interaction site [polypeptide binding]; other site 1104325000558 25S rRNA binding site [nucleotide binding]; other site 1104325000559 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1104325000560 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1104325000561 RNase E interface [polypeptide binding]; other site 1104325000562 trimer interface [polypeptide binding]; other site 1104325000563 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1104325000564 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1104325000565 RNase E interface [polypeptide binding]; other site 1104325000566 trimer interface [polypeptide binding]; other site 1104325000567 active site 1104325000568 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1104325000569 putative nucleic acid binding region [nucleotide binding]; other site 1104325000570 G-X-X-G motif; other site 1104325000571 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1104325000572 RNA binding site [nucleotide binding]; other site 1104325000573 domain interface; other site 1104325000574 K+ potassium transporter; Region: K_trans; cl15781 1104325000575 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1104325000576 Domain of unknown function DUF21; Region: DUF21; pfam01595 1104325000577 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 1104325000578 Transporter associated domain; Region: CorC_HlyC; smart01091 1104325000579 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1104325000580 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1104325000581 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 1104325000582 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1104325000583 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1104325000584 5S rRNA interface [nucleotide binding]; other site 1104325000585 CTC domain interface [polypeptide binding]; other site 1104325000586 L16 interface [polypeptide binding]; other site 1104325000587 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1104325000588 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1104325000589 active site 1104325000590 uracil binding [chemical binding]; other site 1104325000591 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1104325000592 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 1104325000593 motif II; other site 1104325000594 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1104325000595 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 1104325000596 Sugar specificity; other site 1104325000597 Pyrimidine base specificity; other site 1104325000598 ATP-binding site [chemical binding]; other site 1104325000599 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1104325000600 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1104325000601 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104325000602 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104325000603 hypothetical protein; Validated; Region: PRK00124 1104325000604 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1104325000605 ABC1 family; Region: ABC1; cl17513 1104325000606 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1104325000607 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1104325000608 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1104325000609 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1104325000610 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104325000611 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104325000612 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104325000613 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1104325000614 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 1104325000615 ATP binding site [chemical binding]; other site 1104325000616 Mg++ binding site [ion binding]; other site 1104325000617 motif III; other site 1104325000618 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 1104325000619 nucleotide binding region [chemical binding]; other site 1104325000620 ATP-binding site [chemical binding]; other site 1104325000621 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1104325000622 alanine racemase; Reviewed; Region: alr; PRK00053 1104325000623 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1104325000624 active site 1104325000625 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104325000626 dimer interface [polypeptide binding]; other site 1104325000627 substrate binding site [chemical binding]; other site 1104325000628 catalytic residues [active] 1104325000629 PemK-like protein; Region: PemK; pfam02452 1104325000630 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1104325000631 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1104325000632 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1104325000633 putative NAD(P) binding site [chemical binding]; other site 1104325000634 Predicted membrane protein [Function unknown]; Region: COG1511 1104325000635 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1104325000636 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1104325000637 Amino acid permease; Region: AA_permease_2; pfam13520 1104325000638 Predicted transcriptional regulator [Transcription]; Region: COG4189 1104325000639 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1104325000640 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1104325000641 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 1104325000642 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 1104325000643 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 1104325000644 dimer interface [polypeptide binding]; other site 1104325000645 conserved gate region; other site 1104325000646 putative PBP binding loops; other site 1104325000647 ABC-ATPase subunit interface; other site 1104325000648 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1104325000649 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 1104325000650 dimer interface [polypeptide binding]; other site 1104325000651 conserved gate region; other site 1104325000652 putative PBP binding loops; other site 1104325000653 ABC-ATPase subunit interface; other site 1104325000654 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1104325000655 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 1104325000656 Walker A/P-loop; other site 1104325000657 ATP binding site [chemical binding]; other site 1104325000658 Q-loop/lid; other site 1104325000659 ABC transporter signature motif; other site 1104325000660 Walker B; other site 1104325000661 D-loop; other site 1104325000662 H-loop/switch region; other site 1104325000663 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1104325000664 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1104325000665 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1104325000666 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1104325000667 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104325000668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325000669 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1104325000670 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104325000671 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1104325000672 Protein of unknown function (DUF975); Region: DUF975; cl10504 1104325000673 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1104325000674 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1104325000675 Preprotein translocase subunit; Region: YajC; cl00806 1104325000676 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1104325000677 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1104325000678 putative catalytic cysteine [active] 1104325000679 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1104325000680 putative active site [active] 1104325000681 metal binding site [ion binding]; metal-binding site 1104325000682 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 1104325000683 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1104325000684 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1104325000685 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1104325000686 DctM-like transporters; Region: DctM; pfam06808 1104325000687 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1104325000688 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1104325000689 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1104325000690 N- and C-terminal domain interface [polypeptide binding]; other site 1104325000691 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 1104325000692 active site 1104325000693 putative catalytic site [active] 1104325000694 metal binding site [ion binding]; metal-binding site 1104325000695 ATP binding site [chemical binding]; other site 1104325000696 carbohydrate binding site [chemical binding]; other site 1104325000697 L-rhamnose isomerase; Provisional; Region: PRK01076 1104325000698 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 1104325000699 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1104325000700 intersubunit interface [polypeptide binding]; other site 1104325000701 active site 1104325000702 Zn2+ binding site [ion binding]; other site 1104325000703 Domain of unknown function (DUF718); Region: DUF718; cl01281 1104325000704 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1104325000705 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1104325000706 dimer interface [polypeptide binding]; other site 1104325000707 active site 1104325000708 metal binding site [ion binding]; metal-binding site 1104325000709 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104325000710 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1104325000711 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104325000712 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1104325000713 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1104325000714 active site 1104325000715 intersubunit interface [polypeptide binding]; other site 1104325000716 catalytic residue [active] 1104325000717 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104325000718 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1104325000719 substrate binding site [chemical binding]; other site 1104325000720 ATP binding site [chemical binding]; other site 1104325000721 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1104325000722 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 1104325000723 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1104325000724 NADP binding site [chemical binding]; other site 1104325000725 homodimer interface [polypeptide binding]; other site 1104325000726 active site 1104325000727 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1104325000728 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 1104325000729 homotetramer interface [polypeptide binding]; other site 1104325000730 FMN binding site [chemical binding]; other site 1104325000731 homodimer contacts [polypeptide binding]; other site 1104325000732 putative active site [active] 1104325000733 putative substrate binding site [chemical binding]; other site 1104325000734 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 1104325000735 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1104325000736 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 1104325000737 diphosphomevalonate decarboxylase; Region: PLN02407 1104325000738 mevalonate kinase; Region: mevalon_kin; TIGR00549 1104325000739 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1104325000740 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1104325000741 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 1104325000742 Substrate-binding site [chemical binding]; other site 1104325000743 Substrate specificity [chemical binding]; other site 1104325000744 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1104325000745 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1104325000746 Cl binding site [ion binding]; other site 1104325000747 oligomer interface [polypeptide binding]; other site 1104325000748 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1104325000749 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1104325000750 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1104325000751 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1104325000752 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1104325000753 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1104325000754 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1104325000755 23S rRNA binding site [nucleotide binding]; other site 1104325000756 L21 binding site [polypeptide binding]; other site 1104325000757 L13 binding site [polypeptide binding]; other site 1104325000758 Citrate transporter; Region: CitMHS; pfam03600 1104325000759 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1104325000760 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1104325000761 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1104325000762 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104325000763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325000764 DNA-binding site [nucleotide binding]; DNA binding site 1104325000765 FCD domain; Region: FCD; pfam07729 1104325000766 NosL; Region: NosL; cl01769 1104325000767 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 1104325000768 active site 1104325000769 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 1104325000770 putative substrate binding site [chemical binding]; other site 1104325000771 putative ATP binding site [chemical binding]; other site 1104325000772 dipeptidase PepV; Reviewed; Region: PRK07318 1104325000773 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1104325000774 active site 1104325000775 metal binding site [ion binding]; metal-binding site 1104325000776 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 1104325000777 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1104325000778 Ligand binding site; other site 1104325000779 Putative Catalytic site; other site 1104325000780 DXD motif; other site 1104325000781 Predicted small secreted protein [Function unknown]; Region: COG5584 1104325000782 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1104325000783 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1104325000784 oligomer interface [polypeptide binding]; other site 1104325000785 active site 1104325000786 metal binding site [ion binding]; metal-binding site 1104325000787 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 1104325000788 catalytic residues [active] 1104325000789 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 1104325000790 Ligand Binding Site [chemical binding]; other site 1104325000791 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 1104325000792 putative tRNA-binding site [nucleotide binding]; other site 1104325000793 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1104325000794 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 1104325000795 protein binding site [polypeptide binding]; other site 1104325000796 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1104325000797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1104325000798 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1104325000799 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1104325000800 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1104325000801 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1104325000802 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1104325000803 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1104325000804 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1104325000805 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1104325000806 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 1104325000807 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104325000808 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1104325000809 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1104325000810 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1104325000811 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325000812 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104325000813 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 1104325000814 metal-binding site [ion binding] 1104325000815 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1104325000816 dinuclear metal binding motif [ion binding]; other site 1104325000817 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1104325000818 Sulfatase; Region: Sulfatase; pfam00884 1104325000819 serine/threonine transporter SstT; Provisional; Region: PRK13628 1104325000820 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1104325000821 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1104325000822 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1104325000823 dimerization interface 3.5A [polypeptide binding]; other site 1104325000824 active site 1104325000825 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1104325000826 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1104325000827 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1104325000828 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1104325000829 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 1104325000830 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104325000831 active site 1104325000832 catalytic tetrad [active] 1104325000833 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104325000834 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325000835 DNA-binding site [nucleotide binding]; DNA binding site 1104325000836 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1104325000837 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104325000838 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1104325000839 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104325000840 beta-galactosidase; Region: BGL; TIGR03356 1104325000841 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1104325000842 active site 1104325000843 P-loop; other site 1104325000844 phosphorylation site [posttranslational modification] 1104325000845 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1104325000846 active site 1104325000847 methionine cluster; other site 1104325000848 phosphorylation site [posttranslational modification] 1104325000849 metal binding site [ion binding]; metal-binding site 1104325000850 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104325000851 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1104325000852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325000853 Coenzyme A binding pocket [chemical binding]; other site 1104325000854 YrhK-like protein; Region: YrhK; pfam14145 1104325000855 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1104325000856 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1104325000857 NAD binding site [chemical binding]; other site 1104325000858 catalytic Zn binding site [ion binding]; other site 1104325000859 structural Zn binding site [ion binding]; other site 1104325000860 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 1104325000861 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 1104325000862 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 1104325000863 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 1104325000864 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 1104325000865 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104325000866 catalytic residue [active] 1104325000867 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1104325000868 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1104325000869 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104325000870 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1104325000871 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325000872 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1104325000873 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1104325000874 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104325000875 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1104325000876 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1104325000877 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325000878 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1104325000879 Protein of unknown function (DUF419); Region: DUF419; cl15265 1104325000880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104325000881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104325000882 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 1104325000883 dimerization interface [polypeptide binding]; other site 1104325000884 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1104325000885 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1104325000886 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1104325000887 Coenzyme A transferase; Region: CoA_trans; cl17247 1104325000888 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 1104325000889 malonate decarboxylase, beta subunit; Region: malonate_beta; TIGR03133 1104325000890 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 1104325000891 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 1104325000892 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1104325000893 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1104325000894 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 1104325000895 Tim44-like domain; Region: Tim44; cl09208 1104325000896 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104325000897 PRD domain; Region: PRD; pfam00874 1104325000898 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1104325000899 active site 1104325000900 P-loop; other site 1104325000901 phosphorylation site [posttranslational modification] 1104325000902 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 1104325000903 active site 1104325000904 phosphorylation site [posttranslational modification] 1104325000905 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1104325000906 active site 1104325000907 P-loop; other site 1104325000908 phosphorylation site [posttranslational modification] 1104325000909 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 1104325000910 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 1104325000911 intersubunit interface [polypeptide binding]; other site 1104325000912 active site 1104325000913 zinc binding site [ion binding]; other site 1104325000914 Na+ binding site [ion binding]; other site 1104325000915 AAA domain; Region: AAA_18; pfam13238 1104325000916 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 1104325000917 Walker A motif; other site 1104325000918 ATP binding site [chemical binding]; other site 1104325000919 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 1104325000920 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 1104325000921 nudix motif; other site 1104325000922 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104325000923 MarR family; Region: MarR; pfam01047 1104325000924 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1104325000925 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325000926 Coenzyme A binding pocket [chemical binding]; other site 1104325000927 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1104325000928 B3/4 domain; Region: B3_4; pfam03483 1104325000929 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1104325000930 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1104325000931 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1104325000932 Ca binding site [ion binding]; other site 1104325000933 active site 1104325000934 catalytic site [active] 1104325000935 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104325000936 beta-galactosidase; Region: BGL; TIGR03356 1104325000937 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104325000938 HTH domain; Region: HTH_11; pfam08279 1104325000939 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1104325000940 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325000941 active site turn [active] 1104325000942 phosphorylation site [posttranslational modification] 1104325000943 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325000944 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 1104325000945 HPr interaction site; other site 1104325000946 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325000947 active site 1104325000948 phosphorylation site [posttranslational modification] 1104325000949 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1104325000950 beta-galactosidase; Region: BGL; TIGR03356 1104325000951 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104325000952 MarR family; Region: MarR; pfam01047 1104325000953 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1104325000954 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1104325000955 putative active site [active] 1104325000956 putative FMN binding site [chemical binding]; other site 1104325000957 putative substrate binding site [chemical binding]; other site 1104325000958 putative catalytic residue [active] 1104325000959 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1104325000960 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1104325000961 potential catalytic triad [active] 1104325000962 conserved cys residue [active] 1104325000963 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1104325000964 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325000965 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104325000966 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325000967 glycerol kinase; Provisional; Region: glpK; PRK00047 1104325000968 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1104325000969 N- and C-terminal domain interface [polypeptide binding]; other site 1104325000970 active site 1104325000971 MgATP binding site [chemical binding]; other site 1104325000972 catalytic site [active] 1104325000973 metal binding site [ion binding]; metal-binding site 1104325000974 glycerol binding site [chemical binding]; other site 1104325000975 homotetramer interface [polypeptide binding]; other site 1104325000976 homodimer interface [polypeptide binding]; other site 1104325000977 FBP binding site [chemical binding]; other site 1104325000978 protein IIAGlc interface [polypeptide binding]; other site 1104325000979 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1104325000980 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1104325000981 amphipathic channel; other site 1104325000982 Asn-Pro-Ala signature motifs; other site 1104325000983 MutS domain III; Region: MutS_III; pfam05192 1104325000984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325000985 Walker A/P-loop; other site 1104325000986 ATP binding site [chemical binding]; other site 1104325000987 Q-loop/lid; other site 1104325000988 ABC transporter signature motif; other site 1104325000989 Walker B; other site 1104325000990 D-loop; other site 1104325000991 H-loop/switch region; other site 1104325000992 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1104325000993 DsrE/DsrF-like family; Region: DrsE; cl00672 1104325000994 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 1104325000995 putative homodimer interface [polypeptide binding]; other site 1104325000996 putative homotetramer interface [polypeptide binding]; other site 1104325000997 putative metal binding site [ion binding]; other site 1104325000998 putative homodimer-homodimer interface [polypeptide binding]; other site 1104325000999 putative allosteric switch controlling residues; other site 1104325001000 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 1104325001001 active site residue [active] 1104325001002 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104325001003 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1104325001004 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325001005 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104325001006 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 1104325001007 active site residue [active] 1104325001008 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1104325001009 Part of AAA domain; Region: AAA_19; pfam13245 1104325001010 Family description; Region: UvrD_C_2; pfam13538 1104325001011 N-glycosyltransferase; Provisional; Region: PRK11204 1104325001012 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1104325001013 DXD motif; other site 1104325001014 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1104325001015 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 1104325001016 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1104325001017 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 1104325001018 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 1104325001019 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1104325001020 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104325001021 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 1104325001022 ligand binding site [chemical binding]; other site 1104325001023 flexible hinge region; other site 1104325001024 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 1104325001025 putative switch regulator; other site 1104325001026 non-specific DNA interactions [nucleotide binding]; other site 1104325001027 DNA binding site [nucleotide binding] 1104325001028 sequence specific DNA binding site [nucleotide binding]; other site 1104325001029 putative cAMP binding site [chemical binding]; other site 1104325001030 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 1104325001031 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104325001032 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104325001033 Walker A/P-loop; other site 1104325001034 ATP binding site [chemical binding]; other site 1104325001035 Q-loop/lid; other site 1104325001036 ABC transporter signature motif; other site 1104325001037 Walker B; other site 1104325001038 D-loop; other site 1104325001039 H-loop/switch region; other site 1104325001040 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1104325001041 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104325001042 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104325001043 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1104325001044 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1104325001045 putative active site [active] 1104325001046 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 1104325001047 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1104325001048 active site 1104325001049 HIGH motif; other site 1104325001050 dimer interface [polypeptide binding]; other site 1104325001051 KMSKS motif; other site 1104325001052 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 1104325001053 RNA binding surface [nucleotide binding]; other site 1104325001054 tyrosine decarboxylase, Enterococcus type; Region: tyr_de_CO2_Ent; TIGR03811 1104325001055 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104325001056 catalytic residue [active] 1104325001057 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1104325001058 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1104325001059 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325001060 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325001061 DNA binding site [nucleotide binding] 1104325001062 domain linker motif; other site 1104325001063 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 1104325001064 putative dimerization interface [polypeptide binding]; other site 1104325001065 putative ligand binding site [chemical binding]; other site 1104325001066 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1104325001067 active site 1104325001068 catalytic residues [active] 1104325001069 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1104325001070 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 1104325001071 motif II; other site 1104325001072 maltose phosphorylase; Provisional; Region: PRK13807 1104325001073 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1104325001074 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1104325001075 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1104325001076 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325001077 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 1104325001078 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325001079 active site turn [active] 1104325001080 phosphorylation site [posttranslational modification] 1104325001081 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104325001082 HPr interaction site; other site 1104325001083 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325001084 active site 1104325001085 phosphorylation site [posttranslational modification] 1104325001086 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 1104325001087 putative catalytic site [active] 1104325001088 putative metal binding site [ion binding]; other site 1104325001089 putative phosphate binding site [ion binding]; other site 1104325001090 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1104325001091 active site 1104325001092 catalytic site [active] 1104325001093 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104325001094 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325001095 Coenzyme A binding pocket [chemical binding]; other site 1104325001096 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 1104325001097 Predicted transcriptional regulators [Transcription]; Region: COG1695 1104325001098 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1104325001099 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1104325001100 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1104325001101 DNA binding residues [nucleotide binding] 1104325001102 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104325001103 putative dimer interface [polypeptide binding]; other site 1104325001104 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 1104325001105 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104325001106 putative substrate translocation pore; other site 1104325001107 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 1104325001108 Urea transporter; Region: UT; cl01829 1104325001109 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 1104325001110 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104325001111 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104325001112 Walker A/P-loop; other site 1104325001113 ATP binding site [chemical binding]; other site 1104325001114 Q-loop/lid; other site 1104325001115 ABC transporter signature motif; other site 1104325001116 Walker B; other site 1104325001117 D-loop; other site 1104325001118 H-loop/switch region; other site 1104325001119 FtsX-like permease family; Region: FtsX; pfam02687 1104325001120 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1104325001121 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325001122 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 1104325001123 active site 1104325001124 phosphorylation site [posttranslational modification] 1104325001125 intermolecular recognition site; other site 1104325001126 dimerization interface [polypeptide binding]; other site 1104325001127 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 1104325001128 DNA binding site [nucleotide binding] 1104325001129 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325001130 HAMP domain; Region: HAMP; pfam00672 1104325001131 dimerization interface [polypeptide binding]; other site 1104325001132 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 1104325001133 dimer interface [polypeptide binding]; other site 1104325001134 phosphorylation site [posttranslational modification] 1104325001135 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 1104325001136 ATP binding site [chemical binding]; other site 1104325001137 Mg2+ binding site [ion binding]; other site 1104325001138 G-X-G motif; other site 1104325001139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104325001140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104325001141 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 1104325001142 dimerization interface [polypeptide binding]; other site 1104325001143 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1104325001144 Predicted transcriptional regulators [Transcription]; Region: COG1695 1104325001145 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 1104325001146 dimerization interface [polypeptide binding]; other site 1104325001147 putative Zn2+ binding site [ion binding]; other site 1104325001148 putative DNA binding site [nucleotide binding]; other site 1104325001149 Predicted membrane protein [Function unknown]; Region: COG4709 1104325001150 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1104325001151 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 1104325001152 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1104325001153 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 1104325001154 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104325001155 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104325001156 Walker A/P-loop; other site 1104325001157 ATP binding site [chemical binding]; other site 1104325001158 Q-loop/lid; other site 1104325001159 ABC transporter signature motif; other site 1104325001160 Walker B; other site 1104325001161 D-loop; other site 1104325001162 H-loop/switch region; other site 1104325001163 FtsX-like permease family; Region: FtsX; pfam02687 1104325001164 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1104325001165 active site 1104325001166 catalytic residues [active] 1104325001167 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104325001168 NlpC/P60 family; Region: NLPC_P60; pfam00877 1104325001169 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1104325001170 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 1104325001171 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1104325001172 active site turn [active] 1104325001173 phosphorylation site [posttranslational modification] 1104325001174 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325001175 D-ribose pyranase; Provisional; Region: PRK11797 1104325001176 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104325001177 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 1104325001178 substrate binding site [chemical binding]; other site 1104325001179 dimer interface [polypeptide binding]; other site 1104325001180 ATP binding site [chemical binding]; other site 1104325001181 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325001182 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325001183 DNA binding site [nucleotide binding] 1104325001184 domain linker motif; other site 1104325001185 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1104325001186 dimerization interface [polypeptide binding]; other site 1104325001187 ligand binding site [chemical binding]; other site 1104325001188 Isochorismatase family; Region: Isochorismatase; pfam00857 1104325001189 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 1104325001190 catalytic triad [active] 1104325001191 conserved cis-peptide bond; other site 1104325001192 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104325001193 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104325001194 Walker A/P-loop; other site 1104325001195 ATP binding site [chemical binding]; other site 1104325001196 Q-loop/lid; other site 1104325001197 ABC transporter signature motif; other site 1104325001198 Walker B; other site 1104325001199 D-loop; other site 1104325001200 H-loop/switch region; other site 1104325001201 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104325001202 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1104325001203 FtsX-like permease family; Region: FtsX; pfam02687 1104325001204 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1104325001205 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1104325001206 Ca binding site [ion binding]; other site 1104325001207 active site 1104325001208 catalytic site [active] 1104325001209 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104325001210 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104325001211 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1104325001212 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1104325001213 metal binding site [ion binding]; metal-binding site 1104325001214 YodA lipocalin-like domain; Region: YodA; pfam09223 1104325001215 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1104325001216 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 1104325001217 active site 1104325001218 phosphorylation site [posttranslational modification] 1104325001219 intermolecular recognition site; other site 1104325001220 LytTr DNA-binding domain; Region: LytTR; pfam04397 1104325001221 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1104325001222 Accessory gene regulator B; Region: AgrB; pfam04647 1104325001223 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1104325001224 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 1104325001225 Substrate-binding site [chemical binding]; other site 1104325001226 Substrate specificity [chemical binding]; other site 1104325001227 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1104325001228 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1104325001229 Part of AAA domain; Region: AAA_19; pfam13245 1104325001230 Family description; Region: UvrD_C_2; pfam13538 1104325001231 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 1104325001232 ArsC family; Region: ArsC; pfam03960 1104325001233 putative catalytic residues [active] 1104325001234 thiol/disulfide switch; other site 1104325001235 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 1104325001236 ArsC family; Region: ArsC; pfam03960 1104325001237 putative catalytic residues [active] 1104325001238 thiol/disulfide switch; other site 1104325001239 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1104325001240 catalytic residues [active] 1104325001241 dimer interface [polypeptide binding]; other site 1104325001242 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1104325001243 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 1104325001244 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 1104325001245 homodimer interface [polypeptide binding]; other site 1104325001246 substrate-cofactor binding pocket; other site 1104325001247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325001248 catalytic residue [active] 1104325001249 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1104325001250 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 1104325001251 dimer interface [polypeptide binding]; other site 1104325001252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325001253 catalytic residue [active] 1104325001254 elongation factor P; Validated; Region: PRK00529 1104325001255 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1104325001256 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 1104325001257 RNA binding site [nucleotide binding]; other site 1104325001258 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 1104325001259 RNA binding site [nucleotide binding]; other site 1104325001260 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1104325001261 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1104325001262 active site 1104325001263 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104325001264 substrate binding site [chemical binding]; other site 1104325001265 catalytic residues [active] 1104325001266 dimer interface [polypeptide binding]; other site 1104325001267 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1104325001268 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1104325001269 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1104325001270 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1104325001271 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1104325001272 dimer interface [polypeptide binding]; other site 1104325001273 active site 1104325001274 catalytic residue [active] 1104325001275 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1104325001276 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1104325001277 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1104325001278 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1104325001279 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1104325001280 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 1104325001281 active site 1104325001282 trimer interface [polypeptide binding]; other site 1104325001283 substrate binding site [chemical binding]; other site 1104325001284 CoA binding site [chemical binding]; other site 1104325001285 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1104325001286 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1104325001287 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 1104325001288 aspartate kinase; Reviewed; Region: PRK09034 1104325001289 putative catalytic residues [active] 1104325001290 putative nucleotide binding site [chemical binding]; other site 1104325001291 putative aspartate binding site [chemical binding]; other site 1104325001292 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 1104325001293 allosteric regulatory residue; other site 1104325001294 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 1104325001295 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1104325001296 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1104325001297 metal binding site [ion binding]; metal-binding site 1104325001298 dimer interface [polypeptide binding]; other site 1104325001299 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1104325001300 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 1104325001301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325001302 homodimer interface [polypeptide binding]; other site 1104325001303 catalytic residue [active] 1104325001304 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1104325001305 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325001306 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104325001307 HTH-like domain; Region: HTH_21; pfam13276 1104325001308 Integrase core domain; Region: rve; pfam00665 1104325001309 Integrase core domain; Region: rve_2; pfam13333 1104325001310 Predicted membrane protein [Function unknown]; Region: COG2323 1104325001311 DNA polymerase IV; Reviewed; Region: PRK03103 1104325001312 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1104325001313 active site 1104325001314 DNA binding site [nucleotide binding] 1104325001315 galactokinase; Provisional; Region: PRK05322 1104325001316 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1104325001317 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1104325001318 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1104325001319 active site 1104325001320 catalytic residues [active] 1104325001321 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1104325001322 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1104325001323 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1104325001324 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104325001325 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104325001326 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104325001327 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1104325001328 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1104325001329 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1104325001330 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1104325001331 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1104325001332 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1104325001333 ABC-ATPase subunit interface; other site 1104325001334 dimer interface [polypeptide binding]; other site 1104325001335 putative PBP binding regions; other site 1104325001336 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1104325001337 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1104325001338 metal binding site [ion binding]; metal-binding site 1104325001339 epoxyqueuosine reductase; Region: TIGR00276 1104325001340 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1104325001341 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1104325001342 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325001343 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 1104325001344 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104325001345 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 1104325001346 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104325001347 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 1104325001348 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1104325001349 Arginine repressor [Transcription]; Region: ArgR; COG1438 1104325001350 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1104325001351 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1104325001352 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1104325001353 active site 1104325001354 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1104325001355 substrate binding site [chemical binding]; other site 1104325001356 metal binding site [ion binding]; metal-binding site 1104325001357 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1104325001358 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1104325001359 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325001360 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104325001361 Isochorismatase family; Region: Isochorismatase; pfam00857 1104325001362 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 1104325001363 catalytic triad [active] 1104325001364 conserved cis-peptide bond; other site 1104325001365 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104325001366 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104325001367 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1104325001368 Flavin Reductases; Region: FlaRed; cl00801 1104325001369 PemK-like protein; Region: PemK; pfam02452 1104325001370 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1104325001371 dimanganese center [ion binding]; other site 1104325001372 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104325001373 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104325001374 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104325001375 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 1104325001376 dimer interface [polypeptide binding]; other site 1104325001377 conserved gate region; other site 1104325001378 putative PBP binding loops; other site 1104325001379 ABC-ATPase subunit interface; other site 1104325001380 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104325001381 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 1104325001382 dimer interface [polypeptide binding]; other site 1104325001383 conserved gate region; other site 1104325001384 putative PBP binding loops; other site 1104325001385 ABC-ATPase subunit interface; other site 1104325001386 Protein of unknown function, DUF624; Region: DUF624; pfam04854 1104325001387 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1104325001388 active site 1104325001389 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1104325001390 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1104325001391 metal ion-dependent adhesion site (MIDAS); other site 1104325001392 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1104325001393 Cna protein B-type domain; Region: Cna_B; pfam05738 1104325001394 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1104325001395 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1104325001396 active site 1104325001397 catalytic site [active] 1104325001398 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325001399 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 1104325001400 active site 1104325001401 phosphorylation site [posttranslational modification] 1104325001402 intermolecular recognition site; other site 1104325001403 dimerization interface [polypeptide binding]; other site 1104325001404 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 1104325001405 DNA binding site [nucleotide binding] 1104325001406 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325001407 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; cl00080 1104325001408 dimer interface [polypeptide binding]; other site 1104325001409 phosphorylation site [posttranslational modification] 1104325001410 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 1104325001411 ATP binding site [chemical binding]; other site 1104325001412 Mg2+ binding site [ion binding]; other site 1104325001413 G-X-G motif; other site 1104325001414 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1104325001415 amino acid transporter; Region: 2A0306; TIGR00909 1104325001416 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1104325001417 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 1104325001418 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 1104325001419 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 1104325001420 dimer interface [polypeptide binding]; other site 1104325001421 ADP-ribose binding site [chemical binding]; other site 1104325001422 active site 1104325001423 nudix motif; other site 1104325001424 metal binding site [ion binding]; metal-binding site 1104325001425 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1104325001426 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1104325001427 Isochorismatase family; Region: Isochorismatase; pfam00857 1104325001428 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 1104325001429 catalytic triad [active] 1104325001430 conserved cis-peptide bond; other site 1104325001431 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1104325001432 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1104325001433 active site 1104325001434 Zn binding site [ion binding]; other site 1104325001435 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1104325001436 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1104325001437 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325001438 active site 1104325001439 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1104325001440 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1104325001441 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104325001442 catalytic residue [active] 1104325001443 Putative amino acid metabolism; Region: DUF1831; pfam08866 1104325001444 H+ Antiporter protein; Region: 2A0121; TIGR00900 1104325001445 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 1104325001446 putative substrate translocation pore; other site 1104325001447 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 1104325001448 putative active site [active] 1104325001449 putative metal binding site [ion binding]; other site 1104325001450 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1104325001451 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 1104325001452 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1104325001453 transaminase; Validated; Region: PRK07324 1104325001454 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 1104325001455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325001456 homodimer interface [polypeptide binding]; other site 1104325001457 catalytic residue [active] 1104325001458 drug efflux system protein MdtG; Provisional; Region: PRK09874 1104325001459 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 1104325001460 putative substrate translocation pore; other site 1104325001461 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104325001462 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104325001463 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 1104325001464 WHG domain; Region: WHG; pfam13305 1104325001465 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 1104325001466 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 1104325001467 DNA topoisomerase III; Provisional; Region: PRK07726 1104325001468 active site 1104325001469 putative metal-binding site [ion binding]; other site 1104325001470 putative interdomain interaction site [polypeptide binding]; other site 1104325001471 putative nucleotide binding site [chemical binding]; other site 1104325001472 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 1104325001473 domain I; other site 1104325001474 DNA binding groove [nucleotide binding] 1104325001475 phosphate binding site [ion binding]; other site 1104325001476 domain II; other site 1104325001477 domain III; other site 1104325001478 nucleotide binding site [chemical binding]; other site 1104325001479 catalytic site [active] 1104325001480 domain IV; other site 1104325001481 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1104325001482 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1104325001483 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1104325001484 Ligand binding site; other site 1104325001485 Putative Catalytic site; other site 1104325001486 DXD motif; other site 1104325001487 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1104325001488 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1104325001489 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 1104325001490 DNA binding site [nucleotide binding] 1104325001491 active site 1104325001492 Predicted membrane protein [Function unknown]; Region: COG2855 1104325001493 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1104325001494 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 1104325001495 gating phenylalanine in ion channel; other site 1104325001496 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104325001497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104325001498 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 1104325001499 dimerization interface [polypeptide binding]; other site 1104325001500 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1104325001501 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 1104325001502 ArsC family; Region: ArsC; pfam03960 1104325001503 putative ArsC-like catalytic residues; other site 1104325001504 putative TRX-like catalytic residues [active] 1104325001505 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1104325001506 lipoyl attachment site [posttranslational modification]; other site 1104325001507 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1104325001508 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1104325001509 Walker A/P-loop; other site 1104325001510 ATP binding site [chemical binding]; other site 1104325001511 Q-loop/lid; other site 1104325001512 ABC transporter signature motif; other site 1104325001513 Walker B; other site 1104325001514 D-loop; other site 1104325001515 H-loop/switch region; other site 1104325001516 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1104325001517 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 1104325001518 conserved gate region; other site 1104325001519 ABC-ATPase subunit interface; other site 1104325001520 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104325001521 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104325001522 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1104325001523 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1104325001524 Walker A/P-loop; other site 1104325001525 ATP binding site [chemical binding]; other site 1104325001526 Q-loop/lid; other site 1104325001527 ABC transporter signature motif; other site 1104325001528 Walker B; other site 1104325001529 D-loop; other site 1104325001530 H-loop/switch region; other site 1104325001531 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1104325001532 FeS assembly protein SufD; Region: sufD; TIGR01981 1104325001533 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1104325001534 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 1104325001535 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104325001536 catalytic residue [active] 1104325001537 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1104325001538 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1104325001539 trimerization site [polypeptide binding]; other site 1104325001540 active site 1104325001541 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1104325001542 FeS assembly protein SufB; Region: sufB; TIGR01980 1104325001543 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1104325001544 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1104325001545 putative active site [active] 1104325001546 putative NTP binding site [chemical binding]; other site 1104325001547 putative nucleic acid binding site [nucleotide binding]; other site 1104325001548 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104325001549 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 1104325001550 Int/Topo IB signature motif; other site 1104325001551 hypothetical protein; Reviewed; Region: PRK00024 1104325001552 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1104325001553 MPN+ (JAMM) motif; other site 1104325001554 Zinc-binding site [ion binding]; other site 1104325001555 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104325001556 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 1104325001557 non-specific DNA binding site [nucleotide binding]; other site 1104325001558 salt bridge; other site 1104325001559 sequence-specific DNA binding site [nucleotide binding]; other site 1104325001560 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1104325001561 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1104325001562 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1104325001563 catalytic residues [active] 1104325001564 catalytic nucleophile [active] 1104325001565 Recombinase; Region: Recombinase; pfam07508 1104325001566 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_c; cd10311 1104325001567 putative active site [active] 1104325001568 catalytic site [active] 1104325001569 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1104325001570 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 1104325001571 ATP binding site [chemical binding]; other site 1104325001572 putative Mg++ binding site [ion binding]; other site 1104325001573 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 1104325001574 nucleotide binding region [chemical binding]; other site 1104325001575 ATP-binding site [chemical binding]; other site 1104325001576 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 1104325001577 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1104325001578 DNA methylase; Region: N6_N4_Mtase; pfam01555 1104325001579 DNA methylase; Region: N6_N4_Mtase; cl17433 1104325001580 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1104325001581 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 1104325001582 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 1104325001583 non-specific DNA binding site [nucleotide binding]; other site 1104325001584 salt bridge; other site 1104325001585 sequence-specific DNA binding site [nucleotide binding]; other site 1104325001586 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325001587 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1104325001588 active site 1104325001589 catalytic site [active] 1104325001590 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 1104325001591 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104325001592 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 1104325001593 non-specific DNA binding site [nucleotide binding]; other site 1104325001594 salt bridge; other site 1104325001595 sequence-specific DNA binding site [nucleotide binding]; other site 1104325001596 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 1104325001597 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1104325001598 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 1104325001599 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1104325001600 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1104325001601 Protein of unknown function (DUF552); Region: DUF552; cl00775 1104325001602 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1104325001603 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1104325001604 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104325001605 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1104325001606 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 1104325001607 active site 1104325001608 phosphorylation site [posttranslational modification] 1104325001609 intermolecular recognition site; other site 1104325001610 dimerization interface [polypeptide binding]; other site 1104325001611 LytTr DNA-binding domain; Region: LytTR; smart00850 1104325001612 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1104325001613 Predicted transcriptional regulators [Transcription]; Region: COG1733 1104325001614 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1104325001615 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 1104325001616 homodimer interface [polypeptide binding]; other site 1104325001617 chemical substrate binding site [chemical binding]; other site 1104325001618 oligomer interface [polypeptide binding]; other site 1104325001619 metal binding site [ion binding]; metal-binding site 1104325001620 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 1104325001621 active site 1104325001622 catalytic site [active] 1104325001623 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1104325001624 CAT RNA binding domain; Region: CAT_RBD; smart01061 1104325001625 PRD domain; Region: PRD; pfam00874 1104325001626 PRD domain; Region: PRD; pfam00874 1104325001627 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1104325001628 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325001629 active site turn [active] 1104325001630 phosphorylation site [posttranslational modification] 1104325001631 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325001632 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 1104325001633 HPr interaction site; other site 1104325001634 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325001635 active site 1104325001636 phosphorylation site [posttranslational modification] 1104325001637 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1104325001638 beta-galactosidase; Region: BGL; TIGR03356 1104325001639 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104325001640 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325001641 DNA-binding site [nucleotide binding]; DNA binding site 1104325001642 UTRA domain; Region: UTRA; pfam07702 1104325001643 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1104325001644 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 1104325001645 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 1104325001646 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1104325001647 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 1104325001648 Substrate-binding site [chemical binding]; other site 1104325001649 Substrate specificity [chemical binding]; other site 1104325001650 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325001651 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325001652 DNA binding site [nucleotide binding] 1104325001653 domain linker motif; other site 1104325001654 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1104325001655 ligand binding site [chemical binding]; other site 1104325001656 dimerization interface [polypeptide binding]; other site 1104325001657 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104325001658 beta-galactosidase; Region: BGL; TIGR03356 1104325001659 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1104325001660 Sulfatase; Region: Sulfatase; pfam00884 1104325001661 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 1104325001662 non-specific DNA binding site [nucleotide binding]; other site 1104325001663 salt bridge; other site 1104325001664 sequence-specific DNA binding site [nucleotide binding]; other site 1104325001665 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1104325001666 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1104325001667 active site 1104325001668 multimer interface [polypeptide binding]; other site 1104325001669 magnesium-transporting ATPase; Provisional; Region: PRK15122 1104325001670 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1104325001671 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325001672 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1104325001673 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1104325001674 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1104325001675 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1104325001676 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 1104325001677 motif II; other site 1104325001678 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1104325001679 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1104325001680 Walker A/P-loop; other site 1104325001681 ATP binding site [chemical binding]; other site 1104325001682 Q-loop/lid; other site 1104325001683 ABC transporter signature motif; other site 1104325001684 Walker B; other site 1104325001685 D-loop; other site 1104325001686 H-loop/switch region; other site 1104325001687 NIL domain; Region: NIL; pfam09383 1104325001688 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 1104325001689 dimer interface [polypeptide binding]; other site 1104325001690 conserved gate region; other site 1104325001691 ABC-ATPase subunit interface; other site 1104325001692 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104325001693 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104325001694 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 1104325001695 amidohydrolase; Region: amidohydrolases; TIGR01891 1104325001696 metal binding site [ion binding]; metal-binding site 1104325001697 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1104325001698 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1104325001699 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1104325001700 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1104325001701 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1104325001702 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1104325001703 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104325001704 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325001705 ABC transporter; Region: ABC_tran_2; pfam12848 1104325001706 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325001707 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 1104325001708 catalytic core [active] 1104325001709 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1104325001710 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1104325001711 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1104325001712 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1104325001713 putative active site [active] 1104325001714 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1104325001715 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325001716 active site turn [active] 1104325001717 phosphorylation site [posttranslational modification] 1104325001718 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325001719 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104325001720 HPr interaction site; other site 1104325001721 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325001722 active site 1104325001723 phosphorylation site [posttranslational modification] 1104325001724 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 1104325001725 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1104325001726 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1104325001727 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104325001728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325001729 Walker A/P-loop; other site 1104325001730 ATP binding site [chemical binding]; other site 1104325001731 Q-loop/lid; other site 1104325001732 ABC transporter signature motif; other site 1104325001733 Walker B; other site 1104325001734 D-loop; other site 1104325001735 H-loop/switch region; other site 1104325001736 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1104325001737 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1104325001738 Predicted membrane protein [Function unknown]; Region: COG3817 1104325001739 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1104325001740 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 1104325001741 putative substrate binding pocket [chemical binding]; other site 1104325001742 AC domain interface; other site 1104325001743 catalytic triad [active] 1104325001744 AB domain interface; other site 1104325001745 interchain disulfide; other site 1104325001746 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1104325001747 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1104325001748 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104325001749 putative metal binding site [ion binding]; other site 1104325001750 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 1104325001751 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 1104325001752 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325001753 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1104325001754 Coenzyme A binding pocket [chemical binding]; other site 1104325001755 Tubby C 2; Region: Tub_2; cl02043 1104325001756 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 1104325001757 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104325001758 active site 1104325001759 motif I; other site 1104325001760 motif II; other site 1104325001761 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104325001762 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1104325001763 ligand binding site [chemical binding]; other site 1104325001764 active site 1104325001765 UGI interface [polypeptide binding]; other site 1104325001766 catalytic site [active] 1104325001767 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1104325001768 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1104325001769 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1104325001770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325001771 Coenzyme A binding pocket [chemical binding]; other site 1104325001772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1104325001773 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 1104325001774 active site 1104325001775 catalytic site [active] 1104325001776 substrate binding site [chemical binding]; other site 1104325001777 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1104325001778 active site 1104325001779 putative catalytic site [active] 1104325001780 DNA binding site [nucleotide binding] 1104325001781 putative phosphate binding site [ion binding]; other site 1104325001782 metal binding site A [ion binding]; metal-binding site 1104325001783 AP binding site [nucleotide binding]; other site 1104325001784 metal binding site B [ion binding]; metal-binding site 1104325001785 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104325001786 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104325001787 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104325001788 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1104325001789 FAD binding domain; Region: FAD_binding_4; pfam01565 1104325001790 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1104325001791 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325001792 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1104325001793 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1104325001794 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104325001795 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325001796 Coenzyme A binding pocket [chemical binding]; other site 1104325001797 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 1104325001798 L-aspartate oxidase; Provisional; Region: PRK06175 1104325001799 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1104325001800 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1104325001801 NAD(P) binding site [chemical binding]; other site 1104325001802 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1104325001803 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1104325001804 NAD(P) binding site [chemical binding]; other site 1104325001805 putative active site [active] 1104325001806 Predicted membrane protein [Function unknown]; Region: COG4684 1104325001807 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1104325001808 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 1104325001809 Flavoprotein; Region: Flavoprotein; pfam02441 1104325001810 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 1104325001811 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1104325001812 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1104325001813 NADP binding site [chemical binding]; other site 1104325001814 dimer interface [polypeptide binding]; other site 1104325001815 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104325001816 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 1104325001817 non-specific DNA binding site [nucleotide binding]; other site 1104325001818 salt bridge; other site 1104325001819 sequence-specific DNA binding site [nucleotide binding]; other site 1104325001820 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104325001821 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1104325001822 Walker A/P-loop; other site 1104325001823 ATP binding site [chemical binding]; other site 1104325001824 Q-loop/lid; other site 1104325001825 ABC transporter signature motif; other site 1104325001826 Walker B; other site 1104325001827 D-loop; other site 1104325001828 H-loop/switch region; other site 1104325001829 TOBE domain; Region: TOBE_2; pfam08402 1104325001830 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 1104325001831 dimer interface [polypeptide binding]; other site 1104325001832 conserved gate region; other site 1104325001833 putative PBP binding loops; other site 1104325001834 ABC-ATPase subunit interface; other site 1104325001835 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104325001836 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 1104325001837 dimer interface [polypeptide binding]; other site 1104325001838 conserved gate region; other site 1104325001839 putative PBP binding loops; other site 1104325001840 ABC-ATPase subunit interface; other site 1104325001841 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1104325001842 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104325001843 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1104325001844 Helix-turn-helix domain; Region: HTH_38; pfam13936 1104325001845 Integrase core domain; Region: rve; pfam00665 1104325001846 Integrase core domain; Region: rve_3; cl15866 1104325001847 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 1104325001848 substrate binding site [chemical binding]; other site 1104325001849 THF binding site; other site 1104325001850 zinc-binding site [ion binding]; other site 1104325001851 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1104325001852 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104325001853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325001854 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104325001855 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; cl00125 1104325001856 active site residue [active] 1104325001857 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104325001858 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325001859 Walker A/P-loop; other site 1104325001860 ATP binding site [chemical binding]; other site 1104325001861 Q-loop/lid; other site 1104325001862 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325001863 ABC transporter signature motif; other site 1104325001864 Walker B; other site 1104325001865 D-loop; other site 1104325001866 ABC transporter; Region: ABC_tran_2; pfam12848 1104325001867 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325001868 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1104325001869 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1104325001870 CoA binding domain; Region: CoA_binding; pfam02629 1104325001871 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 1104325001872 catalytic residues [active] 1104325001873 Predicted permeases [General function prediction only]; Region: COG0701 1104325001874 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 1104325001875 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1104325001876 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1104325001877 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1104325001878 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 1104325001879 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1104325001880 hypothetical protein; Provisional; Region: PRK05473 1104325001881 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1104325001882 hypothetical protein; Provisional; Region: PRK13678 1104325001883 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1104325001884 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1104325001885 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325001886 Coenzyme A binding pocket [chemical binding]; other site 1104325001887 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1104325001888 malate dehydrogenase; Provisional; Region: PRK13529 1104325001889 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1104325001890 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1104325001891 NAD(P) binding site [chemical binding]; other site 1104325001892 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 1104325001893 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 1104325001894 teramer interface [polypeptide binding]; other site 1104325001895 active site 1104325001896 FMN binding site [chemical binding]; other site 1104325001897 catalytic residues [active] 1104325001898 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104325001899 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1104325001900 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1104325001901 electron transport complex protein RnfC; Provisional; Region: PRK05035 1104325001902 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325001903 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1104325001904 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104325001905 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325001906 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104325001907 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104325001908 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104325001909 Walker A/P-loop; other site 1104325001910 ATP binding site [chemical binding]; other site 1104325001911 Q-loop/lid; other site 1104325001912 ABC transporter signature motif; other site 1104325001913 Walker B; other site 1104325001914 D-loop; other site 1104325001915 H-loop/switch region; other site 1104325001916 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104325001917 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104325001918 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1104325001919 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1104325001920 active site 1104325001921 metal binding site [ion binding]; metal-binding site 1104325001922 ribonuclease HIII; Provisional; Region: PRK00996 1104325001923 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1104325001924 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1104325001925 RNA/DNA hybrid binding site [nucleotide binding]; other site 1104325001926 active site 1104325001927 Cell division protein ZapA; Region: ZapA; cl01146 1104325001928 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1104325001929 Colicin V production protein; Region: Colicin_V; pfam02674 1104325001930 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1104325001931 MutS domain III; Region: MutS_III; pfam05192 1104325001932 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325001933 Walker A/P-loop; other site 1104325001934 ATP binding site [chemical binding]; other site 1104325001935 Q-loop/lid; other site 1104325001936 ABC transporter signature motif; other site 1104325001937 Walker B; other site 1104325001938 D-loop; other site 1104325001939 H-loop/switch region; other site 1104325001940 Smr domain; Region: Smr; pfam01713 1104325001941 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 1104325001942 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1104325001943 catalytic residues [active] 1104325001944 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1104325001945 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1104325001946 GIY-YIG motif/motif A; other site 1104325001947 active site 1104325001948 catalytic site [active] 1104325001949 putative DNA binding site [nucleotide binding]; other site 1104325001950 metal binding site [ion binding]; metal-binding site 1104325001951 UvrB/uvrC motif; Region: UVR; pfam02151 1104325001952 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1104325001953 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1104325001954 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325001955 Walker A/P-loop; other site 1104325001956 ATP binding site [chemical binding]; other site 1104325001957 Q-loop/lid; other site 1104325001958 ABC transporter signature motif; other site 1104325001959 Walker B; other site 1104325001960 D-loop; other site 1104325001961 H-loop/switch region; other site 1104325001962 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1104325001963 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1104325001964 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1104325001965 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1104325001966 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1104325001967 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1104325001968 catalytic triad [active] 1104325001969 V-type ATP synthase subunit I; Validated; Region: PRK05771 1104325001970 V-type ATP synthase subunit K; Validated; Region: PRK06558 1104325001971 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 1104325001972 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 1104325001973 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 1104325001974 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 1104325001975 V-type ATP synthase subunit F; Provisional; Region: PRK01395 1104325001976 V-type ATP synthase subunit A; Provisional; Region: PRK04192 1104325001977 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104325001978 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 1104325001979 Walker A motif/ATP binding site; other site 1104325001980 Walker B motif; other site 1104325001981 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104325001982 V-type ATP synthase subunit B; Provisional; Region: PRK04196 1104325001983 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104325001984 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 1104325001985 Walker A motif homologous position; other site 1104325001986 Walker B motif; other site 1104325001987 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104325001988 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 1104325001989 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1104325001990 Cation transport protein; Region: TrkH; pfam02386 1104325001991 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1104325001992 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325001993 DNA-binding site [nucleotide binding]; DNA binding site 1104325001994 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 1104325001995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325001996 homodimer interface [polypeptide binding]; other site 1104325001997 catalytic residue [active] 1104325001998 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1104325001999 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1104325002000 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1104325002001 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104325002002 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1104325002003 dimer interface [polypeptide binding]; other site 1104325002004 active site 1104325002005 metal binding site [ion binding]; metal-binding site 1104325002006 glutathione binding site [chemical binding]; other site 1104325002007 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 1104325002008 nudix motif; other site 1104325002009 sugar phosphate phosphatase; Provisional; Region: PRK10513 1104325002010 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 1104325002011 active site 1104325002012 motif I; other site 1104325002013 motif II; other site 1104325002014 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 1104325002015 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1104325002016 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104325002017 Zn2+ binding site [ion binding]; other site 1104325002018 Mg2+ binding site [ion binding]; other site 1104325002019 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1104325002020 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1104325002021 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1104325002022 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1104325002023 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104325002024 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 1104325002025 DNA binding residues [nucleotide binding] 1104325002026 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1104325002027 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1104325002028 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1104325002029 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1104325002030 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1104325002031 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1104325002032 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1104325002033 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1104325002034 Phosphoglycerate kinase; Region: PGK; pfam00162 1104325002035 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 1104325002036 substrate binding site [chemical binding]; other site 1104325002037 hinge regions; other site 1104325002038 ADP binding site [chemical binding]; other site 1104325002039 catalytic site [active] 1104325002040 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 1104325002041 triosephosphate isomerase; Provisional; Region: PRK14565 1104325002042 substrate binding site [chemical binding]; other site 1104325002043 dimer interface [polypeptide binding]; other site 1104325002044 catalytic triad [active] 1104325002045 enolase; Provisional; Region: eno; PRK00077 1104325002046 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 1104325002047 dimer interface [polypeptide binding]; other site 1104325002048 metal binding site [ion binding]; metal-binding site 1104325002049 substrate binding pocket [chemical binding]; other site 1104325002050 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 1104325002051 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1104325002052 metal binding site [ion binding]; metal-binding site 1104325002053 dimer interface [polypeptide binding]; other site 1104325002054 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1104325002055 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 1104325002056 active site 1104325002057 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104325002058 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104325002059 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1104325002060 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1104325002061 Esterase/lipase [General function prediction only]; Region: COG1647 1104325002062 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104325002063 ribonuclease R; Region: RNase_R; TIGR02063 1104325002064 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1104325002065 RNB domain; Region: RNB; pfam00773 1104325002066 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 1104325002067 RNA binding site [nucleotide binding]; other site 1104325002068 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 1104325002069 SmpB-tmRNA interface; other site 1104325002070 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1104325002071 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1104325002072 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1104325002073 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1104325002074 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1104325002075 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1104325002076 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1104325002077 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1104325002078 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104325002079 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 1104325002080 beta subunit interaction interface [polypeptide binding]; other site 1104325002081 Walker A motif; other site 1104325002082 ATP binding site [chemical binding]; other site 1104325002083 Walker B motif; other site 1104325002084 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104325002085 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1104325002086 core domain interface [polypeptide binding]; other site 1104325002087 delta subunit interface [polypeptide binding]; other site 1104325002088 epsilon subunit interface [polypeptide binding]; other site 1104325002089 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1104325002090 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104325002091 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 1104325002092 alpha subunit interaction interface [polypeptide binding]; other site 1104325002093 Walker A motif; other site 1104325002094 ATP binding site [chemical binding]; other site 1104325002095 Walker B motif; other site 1104325002096 inhibitor binding site; inhibition site 1104325002097 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104325002098 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1104325002099 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1104325002100 gamma subunit interface [polypeptide binding]; other site 1104325002101 epsilon subunit interface [polypeptide binding]; other site 1104325002102 LBP interface [polypeptide binding]; other site 1104325002103 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1104325002104 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 1104325002105 hinge; other site 1104325002106 active site 1104325002107 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1104325002108 Haemolytic domain; Region: Haemolytic; cl00506 1104325002109 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325002110 Coenzyme A binding pocket [chemical binding]; other site 1104325002111 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1104325002112 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104325002113 nucleotide binding site [chemical binding]; other site 1104325002114 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1104325002115 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104325002116 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325002117 DNA-binding site [nucleotide binding]; DNA binding site 1104325002118 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1104325002119 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1104325002120 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1104325002121 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1104325002122 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 1104325002123 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1104325002124 active site 1104325002125 P-loop; other site 1104325002126 phosphorylation site [posttranslational modification] 1104325002127 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 1104325002128 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1104325002129 ATP binding site [chemical binding]; other site 1104325002130 putative Mg++ binding site [ion binding]; other site 1104325002131 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 1104325002132 nucleotide binding region [chemical binding]; other site 1104325002133 ATP-binding site [chemical binding]; other site 1104325002134 comF family protein; Region: comF; TIGR00201 1104325002135 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325002136 active site 1104325002137 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 1104325002138 30S subunit binding site; other site 1104325002139 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1104325002140 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1104325002141 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1104325002142 nucleotide binding region [chemical binding]; other site 1104325002143 ATP-binding site [chemical binding]; other site 1104325002144 SEC-C motif; Region: SEC-C; pfam02810 1104325002145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1104325002146 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1104325002147 peptide chain release factor 2; Provisional; Region: PRK05589 1104325002148 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1104325002149 RF-1 domain; Region: RF-1; pfam00472 1104325002150 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1104325002151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325002152 Walker A/P-loop; other site 1104325002153 ATP binding site [chemical binding]; other site 1104325002154 Q-loop/lid; other site 1104325002155 ABC transporter signature motif; other site 1104325002156 Walker B; other site 1104325002157 D-loop; other site 1104325002158 H-loop/switch region; other site 1104325002159 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1104325002160 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1104325002161 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1104325002162 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1104325002163 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1104325002164 putative active site [active] 1104325002165 catalytic site [active] 1104325002166 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1104325002167 putative active site [active] 1104325002168 catalytic site [active] 1104325002169 phosphate binding protein; Region: ptsS_2; TIGR02136 1104325002170 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1104325002171 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1104325002172 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 1104325002173 dimer interface [polypeptide binding]; other site 1104325002174 conserved gate region; other site 1104325002175 putative PBP binding loops; other site 1104325002176 ABC-ATPase subunit interface; other site 1104325002177 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1104325002178 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 1104325002179 dimer interface [polypeptide binding]; other site 1104325002180 conserved gate region; other site 1104325002181 putative PBP binding loops; other site 1104325002182 ABC-ATPase subunit interface; other site 1104325002183 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1104325002184 PhoU domain; Region: PhoU; pfam01895 1104325002185 PhoU domain; Region: PhoU; pfam01895 1104325002186 YibE/F-like protein; Region: YibE_F; pfam07907 1104325002187 YibE/F-like protein; Region: YibE_F; pfam07907 1104325002188 Uncharacterized conserved protein [Function unknown]; Region: COG3595 1104325002189 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1104325002190 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1104325002191 PspC domain; Region: PspC; pfam04024 1104325002192 Membrane protein of unknown function; Region: DUF360; pfam04020 1104325002193 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1104325002194 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1104325002195 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 1104325002196 Hpr binding site; other site 1104325002197 active site 1104325002198 homohexamer subunit interaction site [polypeptide binding]; other site 1104325002199 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1104325002200 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1104325002201 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1104325002202 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1104325002203 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1104325002204 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1104325002205 active site 1104325002206 tetramer interface; other site 1104325002207 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 1104325002208 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104325002209 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104325002210 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 1104325002211 active site 1104325002212 catabolite control protein A; Region: ccpA; TIGR01481 1104325002213 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325002214 DNA binding site [nucleotide binding] 1104325002215 domain linker motif; other site 1104325002216 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 1104325002217 dimerization interface [polypeptide binding]; other site 1104325002218 effector binding site; other site 1104325002219 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1104325002220 Transglycosylase; Region: Transgly; pfam00912 1104325002221 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1104325002222 endonuclease IV; Provisional; Region: PRK01060 1104325002223 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1104325002224 AP (apurinic/apyrimidinic) site pocket; other site 1104325002225 DNA interaction; other site 1104325002226 Metal-binding active site; metal-binding site 1104325002227 manganese transport protein MntH; Reviewed; Region: PRK00701 1104325002228 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1104325002229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1104325002230 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1104325002231 CAT RNA binding domain; Region: CAT_RBD; smart01061 1104325002232 PRD domain; Region: PRD; pfam00874 1104325002233 PRD domain; Region: PRD; pfam00874 1104325002234 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1104325002235 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325002236 active site turn [active] 1104325002237 phosphorylation site [posttranslational modification] 1104325002238 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325002239 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104325002240 HPr interaction site; other site 1104325002241 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325002242 active site 1104325002243 phosphorylation site [posttranslational modification] 1104325002244 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104325002245 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104325002246 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104325002247 putative active site [active] 1104325002248 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1104325002249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104325002250 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325002251 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1104325002252 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 1104325002253 active site 1104325002254 substrate binding site [chemical binding]; other site 1104325002255 metal binding site [ion binding]; metal-binding site 1104325002256 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 1104325002257 dimerization interface [polypeptide binding]; other site 1104325002258 putative DNA binding site [nucleotide binding]; other site 1104325002259 putative Zn2+ binding site [ion binding]; other site 1104325002260 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 1104325002261 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104325002262 metal binding site 2 [ion binding]; metal-binding site 1104325002263 putative DNA binding helix; other site 1104325002264 metal binding site 1 [ion binding]; metal-binding site 1104325002265 dimer interface [polypeptide binding]; other site 1104325002266 structural Zn2+ binding site [ion binding]; other site 1104325002267 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1104325002268 Yqey-like protein; Region: YqeY; pfam09424 1104325002269 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1104325002270 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1104325002271 PhoH-like protein; Region: PhoH; pfam02562 1104325002272 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1104325002273 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 1104325002274 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104325002275 Zn2+ binding site [ion binding]; other site 1104325002276 Mg2+ binding site [ion binding]; other site 1104325002277 metal-binding heat shock protein; Provisional; Region: PRK00016 1104325002278 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1104325002279 GTPase Era; Reviewed; Region: era; PRK00089 1104325002280 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1104325002281 G1 box; other site 1104325002282 GTP/Mg2+ binding site [chemical binding]; other site 1104325002283 Switch I region; other site 1104325002284 G2 box; other site 1104325002285 Switch II region; other site 1104325002286 G3 box; other site 1104325002287 G4 box; other site 1104325002288 G5 box; other site 1104325002289 KH domain; Region: KH_2; pfam07650 1104325002290 Recombination protein O N terminal; Region: RecO_N; pfam11967 1104325002291 DNA repair protein RecO; Region: reco; TIGR00613 1104325002292 Recombination protein O C terminal; Region: RecO_C; pfam02565 1104325002293 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1104325002294 dimer interface [polypeptide binding]; other site 1104325002295 motif 1; other site 1104325002296 active site 1104325002297 motif 2; other site 1104325002298 motif 3; other site 1104325002299 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1104325002300 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1104325002301 DALR anticodon binding domain; Region: DALR_1; pfam05746 1104325002302 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1104325002303 Chain length determinant protein; Region: Wzz; cl15801 1104325002304 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1104325002305 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1104325002306 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104325002307 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1104325002308 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 1104325002309 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1104325002310 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 1104325002311 NAD(P) binding site [chemical binding]; other site 1104325002312 homodimer interface [polypeptide binding]; other site 1104325002313 substrate binding site [chemical binding]; other site 1104325002314 active site 1104325002315 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1104325002316 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104325002317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104325002318 NAD(P) binding site [chemical binding]; other site 1104325002319 active site 1104325002320 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104325002321 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 1104325002322 active site 1104325002323 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1104325002324 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 1104325002325 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104325002326 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104325002327 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 1104325002328 active site 1104325002329 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1104325002330 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1104325002331 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1104325002332 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104325002333 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104325002334 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104325002335 putative active site [active] 1104325002336 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1104325002337 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 1104325002338 putative substrate binding site [chemical binding]; other site 1104325002339 putative ATP binding site [chemical binding]; other site 1104325002340 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 1104325002341 active site 1104325002342 P-loop; other site 1104325002343 phosphorylation site [posttranslational modification] 1104325002344 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1104325002345 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1104325002346 Class I aldolases; Region: Aldolase_Class_I; cl17187 1104325002347 OxaA-like protein precursor; Provisional; Region: PRK02463 1104325002348 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1104325002349 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 1104325002350 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1104325002351 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1104325002352 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104325002353 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1104325002354 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104325002355 Zn2+ binding site [ion binding]; other site 1104325002356 Mg2+ binding site [ion binding]; other site 1104325002357 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104325002358 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1104325002359 putative active site [active] 1104325002360 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1104325002361 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1104325002362 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1104325002363 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 1104325002364 DNA-binding site [nucleotide binding]; DNA binding site 1104325002365 RNA-binding motif; other site 1104325002366 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 1104325002367 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104325002368 active site 1104325002369 catalytic site [active] 1104325002370 substrate binding site [chemical binding]; other site 1104325002371 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 1104325002372 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12294 1104325002373 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1104325002374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1104325002375 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 1104325002376 aspartate aminotransferase; Provisional; Region: PRK05764 1104325002377 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 1104325002378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325002379 homodimer interface [polypeptide binding]; other site 1104325002380 catalytic residue [active] 1104325002381 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1104325002382 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 1104325002383 putative dimer interface [polypeptide binding]; other site 1104325002384 putative anticodon binding site; other site 1104325002385 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 1104325002386 homodimer interface [polypeptide binding]; other site 1104325002387 motif 1; other site 1104325002388 motif 2; other site 1104325002389 active site 1104325002390 motif 3; other site 1104325002391 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 1104325002392 active site 1104325002393 catalytic triad [active] 1104325002394 oxyanion hole [active] 1104325002395 hypothetical protein; Provisional; Region: PRK11770 1104325002396 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1104325002397 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1104325002398 Putative cyclase; Region: Cyclase; cl00814 1104325002399 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104325002400 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 1104325002401 metal-binding site [ion binding] 1104325002402 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325002403 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104325002404 inner membrane transporter YjeM; Provisional; Region: PRK15238 1104325002405 topology modulation protein; Reviewed; Region: PRK08118 1104325002406 AAA domain; Region: AAA_17; pfam13207 1104325002407 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1104325002408 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1104325002409 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1104325002410 Protein of unknown function DUF58; Region: DUF58; pfam01882 1104325002411 MoxR-like ATPases [General function prediction only]; Region: COG0714 1104325002412 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 1104325002413 Walker A motif; other site 1104325002414 ATP binding site [chemical binding]; other site 1104325002415 Walker B motif; other site 1104325002416 arginine finger; other site 1104325002417 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1104325002418 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 1104325002419 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; cl02712 1104325002420 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1104325002421 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1104325002422 active site 1104325002423 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1104325002424 phosphate binding protein; Region: ptsS_2; TIGR02136 1104325002425 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 1104325002426 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325002427 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104325002428 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1104325002429 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 1104325002430 dimer interface [polypeptide binding]; other site 1104325002431 phosphorylation site [posttranslational modification] 1104325002432 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 1104325002433 ATP binding site [chemical binding]; other site 1104325002434 Mg2+ binding site [ion binding]; other site 1104325002435 G-X-G motif; other site 1104325002436 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325002437 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 1104325002438 active site 1104325002439 phosphorylation site [posttranslational modification] 1104325002440 intermolecular recognition site; other site 1104325002441 dimerization interface [polypeptide binding]; other site 1104325002442 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 1104325002443 DNA binding site [nucleotide binding] 1104325002444 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1104325002445 putative DNA-binding protein; Validated; Region: PRK00118 1104325002446 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1104325002447 signal recognition particle protein; Provisional; Region: PRK10867 1104325002448 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1104325002449 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 1104325002450 P loop; other site 1104325002451 GTP binding site [chemical binding]; other site 1104325002452 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1104325002453 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1104325002454 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; cl17426 1104325002455 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1104325002456 NADP+ binding site [chemical binding]; other site 1104325002457 RibD C-terminal domain; Region: RibD_C; cl17279 1104325002458 Predicted flavoprotein [General function prediction only]; Region: COG0431 1104325002459 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1104325002460 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1104325002461 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1104325002462 KH domain; Region: KH_4; pfam13083 1104325002463 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1104325002464 RimM N-terminal domain; Region: RimM; pfam01782 1104325002465 PRC-barrel domain; Region: PRC; pfam05239 1104325002466 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1104325002467 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1104325002468 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 1104325002469 active site 1104325002470 DNA binding site [nucleotide binding] 1104325002471 Int/Topo IB signature motif; other site 1104325002472 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104325002473 Integrase core domain; Region: rve; pfam00665 1104325002474 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1104325002475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1104325002476 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1104325002477 Homeodomain-like domain; Region: HTH_23; pfam13384 1104325002478 Winged helix-turn helix; Region: HTH_33; pfam13592 1104325002479 Transposase; Region: HTH_Tnp_1; cl17663 1104325002480 HTH-like domain; Region: HTH_21; pfam13276 1104325002481 Integrase core domain; Region: rve; pfam00665 1104325002482 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1104325002483 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104325002484 nucleotide binding site [chemical binding]; other site 1104325002485 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1104325002486 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325002487 active site turn [active] 1104325002488 phosphorylation site [posttranslational modification] 1104325002489 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325002490 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 1104325002491 HPr interaction site; other site 1104325002492 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325002493 active site 1104325002494 phosphorylation site [posttranslational modification] 1104325002495 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1104325002496 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1104325002497 substrate binding [chemical binding]; other site 1104325002498 active site 1104325002499 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1104325002500 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325002501 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325002502 DNA binding site [nucleotide binding] 1104325002503 domain linker motif; other site 1104325002504 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 1104325002505 dimerization interface [polypeptide binding]; other site 1104325002506 ligand binding site [chemical binding]; other site 1104325002507 sodium binding site [ion binding]; other site 1104325002508 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1104325002509 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104325002510 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104325002511 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104325002512 putative active site [active] 1104325002513 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1104325002514 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1104325002515 putative active site cavity [active] 1104325002516 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1104325002517 Helix-turn-helix domain; Region: HTH_38; pfam13936 1104325002518 Integrase core domain; Region: rve; pfam00665 1104325002519 DNA polymerase IV; Reviewed; Region: PRK03103 1104325002520 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1104325002521 active site 1104325002522 DNA binding site [nucleotide binding] 1104325002523 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1104325002524 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104325002525 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104325002526 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1104325002527 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1104325002528 active site 1104325002529 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 1104325002530 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104325002531 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104325002532 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 1104325002533 dimer interface [polypeptide binding]; other site 1104325002534 conserved gate region; other site 1104325002535 putative PBP binding loops; other site 1104325002536 ABC-ATPase subunit interface; other site 1104325002537 acetolactate synthase; Reviewed; Region: PRK08617 1104325002538 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1104325002539 PYR/PP interface [polypeptide binding]; other site 1104325002540 dimer interface [polypeptide binding]; other site 1104325002541 TPP binding site [chemical binding]; other site 1104325002542 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104325002543 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 1104325002544 TPP-binding site [chemical binding]; other site 1104325002545 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1104325002546 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1104325002547 GAF domain; Region: GAF_2; pfam13185 1104325002548 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1104325002549 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 1104325002550 active site 1104325002551 motif I; other site 1104325002552 motif II; other site 1104325002553 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104325002554 SdpI/YhfL protein family; Region: SdpI; pfam13630 1104325002555 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325002556 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 1104325002557 active site 1104325002558 phosphorylation site [posttranslational modification] 1104325002559 intermolecular recognition site; other site 1104325002560 dimerization interface [polypeptide binding]; other site 1104325002561 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 1104325002562 DNA binding site [nucleotide binding] 1104325002563 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325002564 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 1104325002565 dimerization interface [polypeptide binding]; other site 1104325002566 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 1104325002567 dimer interface [polypeptide binding]; other site 1104325002568 phosphorylation site [posttranslational modification] 1104325002569 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 1104325002570 ATP binding site [chemical binding]; other site 1104325002571 Mg2+ binding site [ion binding]; other site 1104325002572 G-X-G motif; other site 1104325002573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325002574 Q-loop/lid; other site 1104325002575 ABC transporter signature motif; other site 1104325002576 Walker B; other site 1104325002577 D-loop; other site 1104325002578 H-loop/switch region; other site 1104325002579 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1104325002580 Sulfatase; Region: Sulfatase; pfam00884 1104325002581 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1104325002582 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1104325002583 putative RNA binding site [nucleotide binding]; other site 1104325002584 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 1104325002585 S-adenosylmethionine binding site [chemical binding]; other site 1104325002586 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1104325002587 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1104325002588 active site 1104325002589 catalytic residue [active] 1104325002590 dimer interface [polypeptide binding]; other site 1104325002591 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 1104325002592 putative deacylase active site [active] 1104325002593 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1104325002594 HI0933-like protein; Region: HI0933_like; pfam03486 1104325002595 glutamate dehydrogenase; Provisional; Region: PRK09414 1104325002596 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1104325002597 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1104325002598 NAD(P) binding site [chemical binding]; other site 1104325002599 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1104325002600 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 1104325002601 active site 1104325002602 dimer interface [polypeptide binding]; other site 1104325002603 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 1104325002604 dimer interface [polypeptide binding]; other site 1104325002605 active site 1104325002606 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 1104325002607 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 1104325002608 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 1104325002609 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1104325002610 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1104325002611 putative active site [active] 1104325002612 catalytic site [active] 1104325002613 putative metal binding site [ion binding]; other site 1104325002614 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1104325002615 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1104325002616 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1104325002617 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1104325002618 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 1104325002619 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 1104325002620 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104325002621 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104325002622 WHG domain; Region: WHG; pfam13305 1104325002623 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1104325002624 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1104325002625 active site 1104325002626 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1104325002627 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 1104325002628 active site 1104325002629 dimer interface [polypeptide binding]; other site 1104325002630 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 1104325002631 Ligand Binding Site [chemical binding]; other site 1104325002632 Molecular Tunnel; other site 1104325002633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 1104325002634 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1104325002635 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1104325002636 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 1104325002637 folate binding site [chemical binding]; other site 1104325002638 NADP+ binding site [chemical binding]; other site 1104325002639 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1104325002640 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 1104325002641 intersubunit interface [polypeptide binding]; other site 1104325002642 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1104325002643 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1104325002644 Walker A/P-loop; other site 1104325002645 ATP binding site [chemical binding]; other site 1104325002646 Q-loop/lid; other site 1104325002647 ABC transporter signature motif; other site 1104325002648 Walker B; other site 1104325002649 D-loop; other site 1104325002650 H-loop/switch region; other site 1104325002651 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1104325002652 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1104325002653 ABC-ATPase subunit interface; other site 1104325002654 dimer interface [polypeptide binding]; other site 1104325002655 putative PBP binding regions; other site 1104325002656 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1104325002657 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1104325002658 ABC-ATPase subunit interface; other site 1104325002659 dimer interface [polypeptide binding]; other site 1104325002660 putative PBP binding regions; other site 1104325002661 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1104325002662 Rhomboid family; Region: Rhomboid; pfam01694 1104325002663 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1104325002664 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1104325002665 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104325002666 nucleotide binding site [chemical binding]; other site 1104325002667 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 1104325002668 active site residue [active] 1104325002669 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1104325002670 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1104325002671 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 1104325002672 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1104325002673 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1104325002674 NAD binding site [chemical binding]; other site 1104325002675 homodimer interface [polypeptide binding]; other site 1104325002676 active site 1104325002677 substrate binding site [chemical binding]; other site 1104325002678 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1104325002679 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1104325002680 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1104325002681 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325002682 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325002683 DNA binding site [nucleotide binding] 1104325002684 domain linker motif; other site 1104325002685 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1104325002686 putative dimerization interface [polypeptide binding]; other site 1104325002687 putative ligand binding site [chemical binding]; other site 1104325002688 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1104325002689 Glycoprotease family; Region: Peptidase_M22; pfam00814 1104325002690 UGMP family protein; Validated; Region: PRK09604 1104325002691 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1104325002692 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104325002693 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 1104325002694 ligand binding site [chemical binding]; other site 1104325002695 flexible hinge region; other site 1104325002696 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1104325002697 arginine deiminase; Provisional; Region: PRK01388 1104325002698 ornithine carbamoyltransferase; Validated; Region: PRK02102 1104325002699 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104325002700 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104325002701 carbamate kinase; Reviewed; Region: PRK12686 1104325002702 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1104325002703 putative substrate binding site [chemical binding]; other site 1104325002704 nucleotide binding site [chemical binding]; other site 1104325002705 nucleotide binding site [chemical binding]; other site 1104325002706 homodimer interface [polypeptide binding]; other site 1104325002707 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1104325002708 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1104325002709 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1104325002710 active site 1104325002711 HIGH motif; other site 1104325002712 KMSK motif region; other site 1104325002713 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1104325002714 tRNA binding surface [nucleotide binding]; other site 1104325002715 anticodon binding site; other site 1104325002716 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1104325002717 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 1104325002718 motif II; other site 1104325002719 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 1104325002720 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104325002721 catalytic residue [active] 1104325002722 Arginine repressor [Transcription]; Region: ArgR; COG1438 1104325002723 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1104325002724 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1104325002725 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 1104325002726 rRNA interaction site [nucleotide binding]; other site 1104325002727 S8 interaction site; other site 1104325002728 putative laminin-1 binding site; other site 1104325002729 elongation factor Ts; Provisional; Region: tsf; PRK09377 1104325002730 UBA/TS-N domain; Region: UBA; pfam00627 1104325002731 Elongation factor TS; Region: EF_TS; pfam00889 1104325002732 Elongation factor TS; Region: EF_TS; pfam00889 1104325002733 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 1104325002734 putative nucleotide binding site [chemical binding]; other site 1104325002735 uridine monophosphate binding site [chemical binding]; other site 1104325002736 homohexameric interface [polypeptide binding]; other site 1104325002737 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1104325002738 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 1104325002739 hinge region; other site 1104325002740 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1104325002741 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 1104325002742 catalytic residue [active] 1104325002743 putative FPP diphosphate binding site; other site 1104325002744 putative FPP binding hydrophobic cleft; other site 1104325002745 dimer interface [polypeptide binding]; other site 1104325002746 putative IPP diphosphate binding site; other site 1104325002747 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1104325002748 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1104325002749 RIP metalloprotease RseP; Region: TIGR00054 1104325002750 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1104325002751 active site 1104325002752 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 1104325002753 protein binding site [polypeptide binding]; other site 1104325002754 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1104325002755 putative substrate binding region [chemical binding]; other site 1104325002756 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1104325002757 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 1104325002758 dimer interface [polypeptide binding]; other site 1104325002759 motif 1; other site 1104325002760 active site 1104325002761 motif 2; other site 1104325002762 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 1104325002763 putative deacylase active site [active] 1104325002764 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 1104325002765 active site 1104325002766 motif 3; other site 1104325002767 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 1104325002768 anticodon binding site; other site 1104325002769 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1104325002770 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1104325002771 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 1104325002772 generic binding surface II; other site 1104325002773 generic binding surface I; other site 1104325002774 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1104325002775 active site 1104325002776 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104325002777 active site 1104325002778 catalytic site [active] 1104325002779 substrate binding site [chemical binding]; other site 1104325002780 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1104325002781 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1104325002782 Sm and related proteins; Region: Sm_like; cl00259 1104325002783 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1104325002784 putative oligomer interface [polypeptide binding]; other site 1104325002785 putative RNA binding site [nucleotide binding]; other site 1104325002786 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1104325002787 NusA N-terminal domain; Region: NusA_N; pfam08529 1104325002788 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 1104325002789 RNA binding site [nucleotide binding]; other site 1104325002790 homodimer interface [polypeptide binding]; other site 1104325002791 NusA-like KH domain; Region: KH_5; pfam13184 1104325002792 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 1104325002793 G-X-X-G motif; other site 1104325002794 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 1104325002795 putative RNA binding cleft [nucleotide binding]; other site 1104325002796 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1104325002797 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1104325002798 translation initiation factor IF-2; Region: IF-2; TIGR00487 1104325002799 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1104325002800 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1104325002801 G1 box; other site 1104325002802 putative GEF interaction site [polypeptide binding]; other site 1104325002803 GTP/Mg2+ binding site [chemical binding]; other site 1104325002804 Switch I region; other site 1104325002805 G2 box; other site 1104325002806 G3 box; other site 1104325002807 Switch II region; other site 1104325002808 G4 box; other site 1104325002809 G5 box; other site 1104325002810 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 1104325002811 Translation-initiation factor 2; Region: IF-2; pfam11987 1104325002812 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 1104325002813 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1104325002814 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; cl00427 1104325002815 putative phosphoketolase; Provisional; Region: PRK05261 1104325002816 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1104325002817 TPP-binding site; other site 1104325002818 XFP C-terminal domain; Region: XFP_C; pfam09363 1104325002819 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 1104325002820 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1104325002821 RNA binding site [nucleotide binding]; other site 1104325002822 active site 1104325002823 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1104325002824 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1104325002825 active site 1104325002826 Riboflavin kinase; Region: Flavokinase; pfam01687 1104325002827 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1104325002828 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 1104325002829 NAD binding site [chemical binding]; other site 1104325002830 homodimer interface [polypeptide binding]; other site 1104325002831 active site 1104325002832 Sugar transport protein; Region: Sugar_transport; pfam06800 1104325002833 Helix-turn-helix domain; Region: HTH_17; pfam12728 1104325002834 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104325002835 Domain of unknown function (DU1801); Region: DUF1801; cl17490 1104325002836 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 1104325002837 putative deacylase active site [active] 1104325002838 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1104325002839 putative dimer interface [polypeptide binding]; other site 1104325002840 catalytic triad [active] 1104325002841 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 1104325002842 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1104325002843 conserved cys residue [active] 1104325002844 Zeta toxin; Region: Zeta_toxin; pfam06414 1104325002845 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1104325002846 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 1104325002847 active site 1104325002848 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1104325002849 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1104325002850 FeS/SAM binding site; other site 1104325002851 HemN C-terminal domain; Region: HemN_C; pfam06969 1104325002852 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1104325002853 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1104325002854 heat shock protein GrpE; Provisional; Region: PRK14140 1104325002855 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 1104325002856 dimer interface [polypeptide binding]; other site 1104325002857 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1104325002858 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1104325002859 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1104325002860 nucleotide binding site [chemical binding]; other site 1104325002861 NEF interaction site [polypeptide binding]; other site 1104325002862 SBD interface [polypeptide binding]; other site 1104325002863 chaperone protein DnaJ; Provisional; Region: PRK14276 1104325002864 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 1104325002865 HSP70 interaction site [polypeptide binding]; other site 1104325002866 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1104325002867 substrate binding site [polypeptide binding]; other site 1104325002868 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1104325002869 Zn binding sites [ion binding]; other site 1104325002870 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1104325002871 substrate binding site [polypeptide binding]; other site 1104325002872 dimer interface [polypeptide binding]; other site 1104325002873 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104325002874 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104325002875 Walker A/P-loop; other site 1104325002876 ATP binding site [chemical binding]; other site 1104325002877 Q-loop/lid; other site 1104325002878 ABC transporter signature motif; other site 1104325002879 Walker B; other site 1104325002880 D-loop; other site 1104325002881 H-loop/switch region; other site 1104325002882 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 1104325002883 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104325002884 substrate binding pocket [chemical binding]; other site 1104325002885 membrane-bound complex binding site; other site 1104325002886 hinge residues; other site 1104325002887 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 1104325002888 dimer interface [polypeptide binding]; other site 1104325002889 conserved gate region; other site 1104325002890 ABC-ATPase subunit interface; other site 1104325002891 excinuclease ABC subunit B; Provisional; Region: PRK05298 1104325002892 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 1104325002893 ATP binding site [chemical binding]; other site 1104325002894 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 1104325002895 nucleotide binding region [chemical binding]; other site 1104325002896 ATP-binding site [chemical binding]; other site 1104325002897 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1104325002898 UvrB/uvrC motif; Region: UVR; pfam02151 1104325002899 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1104325002900 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1104325002901 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1104325002902 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1104325002903 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 1104325002904 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1104325002905 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1104325002906 aspartate racemase; Region: asp_race; TIGR00035 1104325002907 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1104325002908 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1104325002909 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1104325002910 phosphate binding site [ion binding]; other site 1104325002911 putative substrate binding pocket [chemical binding]; other site 1104325002912 dimer interface [polypeptide binding]; other site 1104325002913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1104325002914 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1104325002915 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1104325002916 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1104325002917 catalytic residues [active] 1104325002918 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1104325002919 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1104325002920 dimer interface [polypeptide binding]; other site 1104325002921 PYR/PP interface [polypeptide binding]; other site 1104325002922 TPP binding site [chemical binding]; other site 1104325002923 substrate binding site [chemical binding]; other site 1104325002924 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1104325002925 Domain of unknown function; Region: EKR; pfam10371 1104325002926 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1104325002927 4Fe-4S binding domain; Region: Fer4; pfam00037 1104325002928 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1104325002929 TPP-binding site [chemical binding]; other site 1104325002930 dimer interface [polypeptide binding]; other site 1104325002931 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1104325002932 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1104325002933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1104325002934 YbbR-like protein; Region: YbbR; pfam07949 1104325002935 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1104325002936 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 1104325002937 active site 1104325002938 substrate binding site [chemical binding]; other site 1104325002939 metal binding site [ion binding]; metal-binding site 1104325002940 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1104325002941 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 1104325002942 glutaminase active site [active] 1104325002943 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 1104325002944 dimer interface [polypeptide binding]; other site 1104325002945 active site 1104325002946 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 1104325002947 dimer interface [polypeptide binding]; other site 1104325002948 active site 1104325002949 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1104325002950 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1104325002951 tandem repeat interface [polypeptide binding]; other site 1104325002952 oligomer interface [polypeptide binding]; other site 1104325002953 active site residues [active] 1104325002954 RDD family; Region: RDD; pfam06271 1104325002955 trigger factor; Provisional; Region: tig; PRK01490 1104325002956 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1104325002957 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1104325002958 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1104325002959 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1104325002960 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 1104325002961 Walker A motif; other site 1104325002962 ATP binding site [chemical binding]; other site 1104325002963 Walker B motif; other site 1104325002964 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1104325002965 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1104325002966 G1 box; other site 1104325002967 GTP/Mg2+ binding site [chemical binding]; other site 1104325002968 Switch I region; other site 1104325002969 G2 box; other site 1104325002970 G3 box; other site 1104325002971 Switch II region; other site 1104325002972 G4 box; other site 1104325002973 G5 box; other site 1104325002974 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104325002975 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1104325002976 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104325002977 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1104325002978 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 1104325002979 putative substrate binding site [chemical binding]; other site 1104325002980 putative ATP binding site [chemical binding]; other site 1104325002981 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1104325002982 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 1104325002983 active site 1104325002984 phosphorylation site [posttranslational modification] 1104325002985 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 1104325002986 active site 1104325002987 P-loop; other site 1104325002988 phosphorylation site [posttranslational modification] 1104325002989 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1104325002990 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1104325002991 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 1104325002992 Cl- selectivity filter; other site 1104325002993 Cl- binding residues [ion binding]; other site 1104325002994 pore gating glutamate residue; other site 1104325002995 dimer interface [polypeptide binding]; other site 1104325002996 H+/Cl- coupling transport residue; other site 1104325002997 TrkA-C domain; Region: TrkA_C; pfam02080 1104325002998 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1104325002999 Part of AAA domain; Region: AAA_19; pfam13245 1104325003000 Family description; Region: UvrD_C_2; pfam13538 1104325003001 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1104325003002 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 1104325003003 nucleotide binding pocket [chemical binding]; other site 1104325003004 K-X-D-G motif; other site 1104325003005 catalytic site [active] 1104325003006 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1104325003007 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1104325003008 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 1104325003009 Dimer interface [polypeptide binding]; other site 1104325003010 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1104325003011 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1104325003012 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1104325003013 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1104325003014 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1104325003015 GatB domain; Region: GatB_Yqey; smart00845 1104325003016 putative lipid kinase; Reviewed; Region: PRK13055 1104325003017 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1104325003018 TRAM domain; Region: TRAM; cl01282 1104325003019 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1104325003020 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 1104325003021 S-adenosylmethionine binding site [chemical binding]; other site 1104325003022 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 1104325003023 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1104325003024 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325003025 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325003026 DNA binding site [nucleotide binding] 1104325003027 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104325003028 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1104325003029 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1104325003030 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1104325003031 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1104325003032 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1104325003033 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1104325003034 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1104325003035 active site 1104325003036 dimer interface [polypeptide binding]; other site 1104325003037 metal binding site [ion binding]; metal-binding site 1104325003038 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1104325003039 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1104325003040 Tetramer interface [polypeptide binding]; other site 1104325003041 active site 1104325003042 FMN-binding site [chemical binding]; other site 1104325003043 prephenate dehydrogenase; Validated; Region: PRK06545 1104325003044 prephenate dehydrogenase; Validated; Region: PRK08507 1104325003045 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 1104325003046 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1104325003047 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1104325003048 hinge; other site 1104325003049 active site 1104325003050 shikimate kinase; Reviewed; Region: aroK; PRK00131 1104325003051 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 1104325003052 ADP binding site [chemical binding]; other site 1104325003053 magnesium binding site [ion binding]; other site 1104325003054 putative shikimate binding site; other site 1104325003055 prephenate dehydratase; Provisional; Region: PRK11898 1104325003056 Prephenate dehydratase; Region: PDT; pfam00800 1104325003057 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1104325003058 putative L-Phe binding site [chemical binding]; other site 1104325003059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325003060 Histidine kinase; Region: His_kinase; pfam06580 1104325003061 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 1104325003062 ATP binding site [chemical binding]; other site 1104325003063 Mg2+ binding site [ion binding]; other site 1104325003064 G-X-G motif; other site 1104325003065 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1104325003066 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 1104325003067 active site 1104325003068 phosphorylation site [posttranslational modification] 1104325003069 intermolecular recognition site; other site 1104325003070 dimerization interface [polypeptide binding]; other site 1104325003071 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104325003072 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104325003073 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104325003074 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104325003075 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 1104325003076 dimer interface [polypeptide binding]; other site 1104325003077 conserved gate region; other site 1104325003078 putative PBP binding loops; other site 1104325003079 ABC-ATPase subunit interface; other site 1104325003080 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104325003081 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 1104325003082 dimer interface [polypeptide binding]; other site 1104325003083 conserved gate region; other site 1104325003084 putative PBP binding loops; other site 1104325003085 ABC-ATPase subunit interface; other site 1104325003086 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 1104325003087 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 1104325003088 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1104325003089 Transcription elongation factor Elf1 like; Region: Elf1; cl02038 1104325003090 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 1104325003091 catalytic core [active] 1104325003092 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 1104325003093 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1104325003094 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 1104325003095 motif II; other site 1104325003096 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 1104325003097 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1104325003098 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1104325003099 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1104325003100 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104325003101 active site 1104325003102 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1104325003103 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1104325003104 active site residue [active] 1104325003105 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1104325003106 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1104325003107 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 1104325003108 active site 1104325003109 metal binding site [ion binding]; metal-binding site 1104325003110 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1104325003111 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1104325003112 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1104325003113 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1104325003114 RNA binding site [nucleotide binding]; other site 1104325003115 hypothetical protein; Provisional; Region: PRK04351 1104325003116 SprT homologues; Region: SprT; cl01182 1104325003117 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1104325003118 putative active site [active] 1104325003119 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1104325003120 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104325003121 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104325003122 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104325003123 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1104325003124 active site 2 [active] 1104325003125 active site 1 [active] 1104325003126 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1104325003127 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1104325003128 DNA polymerase I; Provisional; Region: PRK05755 1104325003129 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1104325003130 active site 1104325003131 metal binding site 1 [ion binding]; metal-binding site 1104325003132 putative 5' ssDNA interaction site; other site 1104325003133 metal binding site 3; metal-binding site 1104325003134 metal binding site 2 [ion binding]; metal-binding site 1104325003135 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1104325003136 putative DNA binding site [nucleotide binding]; other site 1104325003137 putative metal binding site [ion binding]; other site 1104325003138 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 1104325003139 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1104325003140 active site 1104325003141 DNA binding site [nucleotide binding] 1104325003142 catalytic site [active] 1104325003143 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1104325003144 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1104325003145 DNA binding site [nucleotide binding] 1104325003146 catalytic residue [active] 1104325003147 H2TH interface [polypeptide binding]; other site 1104325003148 putative catalytic residues [active] 1104325003149 turnover-facilitating residue; other site 1104325003150 intercalation triad [nucleotide binding]; other site 1104325003151 8OG recognition residue [nucleotide binding]; other site 1104325003152 putative reading head residues; other site 1104325003153 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1104325003154 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1104325003155 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1104325003156 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 1104325003157 CoA-binding site [chemical binding]; other site 1104325003158 ATP-binding [chemical binding]; other site 1104325003159 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1104325003160 ATP cone domain; Region: ATP-cone; pfam03477 1104325003161 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1104325003162 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1104325003163 primosomal protein DnaI; Reviewed; Region: PRK08939 1104325003164 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1104325003165 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 1104325003166 Walker A motif; other site 1104325003167 ATP binding site [chemical binding]; other site 1104325003168 Walker B motif; other site 1104325003169 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104325003170 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1104325003171 Family of unknown function (DUF633); Region: DUF633; pfam04816 1104325003172 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1104325003173 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1104325003174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1104325003175 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1104325003176 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1104325003177 peptidase T; Region: peptidase-T; TIGR01882 1104325003178 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1104325003179 metal binding site [ion binding]; metal-binding site 1104325003180 dimer interface [polypeptide binding]; other site 1104325003181 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1104325003182 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1104325003183 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1104325003184 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1104325003185 Transposase domain (DUF772); Region: DUF772; pfam05598 1104325003186 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104325003187 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1104325003188 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1104325003189 Clp amino terminal domain; Region: Clp_N; pfam02861 1104325003190 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 1104325003191 Walker A motif; other site 1104325003192 ATP binding site [chemical binding]; other site 1104325003193 Walker B motif; other site 1104325003194 arginine finger; other site 1104325003195 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 1104325003196 Walker A motif; other site 1104325003197 ATP binding site [chemical binding]; other site 1104325003198 Walker B motif; other site 1104325003199 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104325003200 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 1104325003201 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1104325003202 Sterol carrier protein domain; Region: SCP2_2; pfam13530 1104325003203 GTP-binding protein LepA; Provisional; Region: PRK05433 1104325003204 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1104325003205 G1 box; other site 1104325003206 putative GEF interaction site [polypeptide binding]; other site 1104325003207 GTP/Mg2+ binding site [chemical binding]; other site 1104325003208 Switch I region; other site 1104325003209 G2 box; other site 1104325003210 G3 box; other site 1104325003211 Switch II region; other site 1104325003212 G4 box; other site 1104325003213 G5 box; other site 1104325003214 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 1104325003215 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 1104325003216 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1104325003217 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1104325003218 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 1104325003219 Int/Topo IB signature motif; other site 1104325003220 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1104325003221 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1104325003222 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104325003223 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 1104325003224 non-specific DNA binding site [nucleotide binding]; other site 1104325003225 salt bridge; other site 1104325003226 sequence-specific DNA binding site [nucleotide binding]; other site 1104325003227 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 1104325003228 non-specific DNA binding site [nucleotide binding]; other site 1104325003229 salt bridge; other site 1104325003230 sequence-specific DNA binding site [nucleotide binding]; other site 1104325003231 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 1104325003232 RecT family; Region: RecT; cl04285 1104325003233 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1104325003234 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 1104325003235 Protein of unknown function (DUF1140); Region: DUF1140; pfam06600 1104325003236 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1104325003237 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1104325003238 ParB-like nuclease domain; Region: ParBc; pfam02195 1104325003239 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1104325003240 DNA methylase; Region: N6_N4_Mtase; pfam01555 1104325003241 Uncharacterized conserved protein [Function unknown]; Region: COG5484 1104325003242 Phage terminase small subunit; Region: Phage_terminase; pfam10668 1104325003243 Phage terminase large subunit; Region: Terminase_3; cl12054 1104325003244 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 1104325003245 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1104325003246 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 1104325003247 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1104325003248 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 1104325003249 Minor capsid protein; Region: Minor_capsid_1; pfam10665 1104325003250 Minor capsid protein; Region: Minor_capsid_2; pfam11114 1104325003251 Minor capsid protein from bacteriophage; Region: Minor_capsid_3; pfam12691 1104325003252 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 1104325003253 tape measure domain; Region: tape_meas_nterm; TIGR02675 1104325003254 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104325003255 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104325003256 catalytic residue [active] 1104325003257 Phage tail protein; Region: Sipho_tail; pfam05709 1104325003258 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 1104325003259 putative pectinesterase; Region: PLN02432; cl01911 1104325003260 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 1104325003261 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; pfam09693 1104325003262 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 1104325003263 amidase catalytic site [active] 1104325003264 Zn binding residues [ion binding]; other site 1104325003265 substrate binding site [chemical binding]; other site 1104325003266 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 1104325003267 active site 1104325003268 Int/Topo IB signature motif; other site 1104325003269 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1104325003270 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1104325003271 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104325003272 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104325003273 WHG domain; Region: WHG; pfam13305 1104325003274 flavodoxin; Validated; Region: PRK07308 1104325003275 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 1104325003276 active site 1104325003277 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1104325003278 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1104325003279 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 1104325003280 Mg++ binding site [ion binding]; other site 1104325003281 putative catalytic motif [active] 1104325003282 substrate binding site [chemical binding]; other site 1104325003283 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1104325003284 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1104325003285 Probable Catalytic site; other site 1104325003286 metal-binding site 1104325003287 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 1104325003288 active site 1104325003289 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104325003290 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1104325003291 Probable Catalytic site; other site 1104325003292 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1104325003293 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1104325003294 substrate binding site; other site 1104325003295 tetramer interface; other site 1104325003296 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1104325003297 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1104325003298 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1104325003299 NAD binding site [chemical binding]; other site 1104325003300 substrate binding site [chemical binding]; other site 1104325003301 homodimer interface [polypeptide binding]; other site 1104325003302 active site 1104325003303 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1104325003304 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1104325003305 NADP binding site [chemical binding]; other site 1104325003306 active site 1104325003307 putative substrate binding site [chemical binding]; other site 1104325003308 MULE transposase domain; Region: MULE; pfam10551 1104325003309 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1104325003310 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1104325003311 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1104325003312 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1104325003313 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1104325003314 Walker A/P-loop; other site 1104325003315 ATP binding site [chemical binding]; other site 1104325003316 Q-loop/lid; other site 1104325003317 ABC transporter signature motif; other site 1104325003318 Walker B; other site 1104325003319 D-loop; other site 1104325003320 H-loop/switch region; other site 1104325003321 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1104325003322 putative carbohydrate binding site [chemical binding]; other site 1104325003323 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1104325003324 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 1104325003325 S-adenosylmethionine binding site [chemical binding]; other site 1104325003326 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1104325003327 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104325003328 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 1104325003329 Probable Catalytic site; other site 1104325003330 metal-binding site 1104325003331 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1104325003332 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1104325003333 Probable Catalytic site; other site 1104325003334 metal-binding site 1104325003335 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1104325003336 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1104325003337 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 1104325003338 active site 1104325003339 LicD family; Region: LicD; cl01378 1104325003340 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1104325003341 substrate binding site; other site 1104325003342 dimer interface; other site 1104325003343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104325003344 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1104325003345 NAD(P) binding site [chemical binding]; other site 1104325003346 active site 1104325003347 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104325003348 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 1104325003349 active site 1104325003350 O-Antigen ligase; Region: Wzy_C; pfam04932 1104325003351 LicD family; Region: LicD; cl01378 1104325003352 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1104325003353 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104325003354 Probable Catalytic site; other site 1104325003355 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1104325003356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104325003357 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104325003358 NAD(P) binding site [chemical binding]; other site 1104325003359 active site 1104325003360 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1104325003361 Beta-lactamase; Region: Beta-lactamase; pfam00144 1104325003362 YceG-like family; Region: YceG; pfam02618 1104325003363 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1104325003364 dimerization interface [polypeptide binding]; other site 1104325003365 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1104325003366 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1104325003367 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1104325003368 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1104325003369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1104325003370 Histidine kinase; Region: HisKA_3; pfam07730 1104325003371 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 1104325003372 ATP binding site [chemical binding]; other site 1104325003373 Mg2+ binding site [ion binding]; other site 1104325003374 G-X-G motif; other site 1104325003375 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104325003376 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 1104325003377 active site 1104325003378 phosphorylation site [posttranslational modification] 1104325003379 intermolecular recognition site; other site 1104325003380 dimerization interface [polypeptide binding]; other site 1104325003381 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1104325003382 DNA binding residues [nucleotide binding] 1104325003383 dimerization interface [polypeptide binding]; other site 1104325003384 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1104325003385 TrkA-N domain; Region: TrkA_N; pfam02254 1104325003386 TrkA-C domain; Region: TrkA_C; pfam02080 1104325003387 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1104325003388 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1104325003389 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 1104325003390 putative ligand binding site [chemical binding]; other site 1104325003391 NAD binding site [chemical binding]; other site 1104325003392 catalytic site [active] 1104325003393 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 1104325003394 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1104325003395 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1104325003396 Predicted membrane protein [Function unknown]; Region: COG2246 1104325003397 GtrA-like protein; Region: GtrA; pfam04138 1104325003398 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1104325003399 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1104325003400 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1104325003401 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 1104325003402 DNA-binding site [nucleotide binding]; DNA binding site 1104325003403 RNA-binding motif; other site 1104325003404 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1104325003405 TspO/MBR family; Region: TspO_MBR; pfam03073 1104325003406 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1104325003407 TRAM domain; Region: TRAM; pfam01938 1104325003408 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1104325003409 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 1104325003410 S-adenosylmethionine binding site [chemical binding]; other site 1104325003411 recombination regulator RecX; Provisional; Region: recX; PRK14135 1104325003412 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1104325003413 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104325003414 minor groove reading motif; other site 1104325003415 helix-hairpin-helix signature motif; other site 1104325003416 substrate binding pocket [chemical binding]; other site 1104325003417 active site 1104325003418 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1104325003419 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1104325003420 DNA binding and oxoG recognition site [nucleotide binding] 1104325003421 hypothetical protein; Provisional; Region: PRK13662 1104325003422 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1104325003423 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325003424 Coenzyme A binding pocket [chemical binding]; other site 1104325003425 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104325003426 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104325003427 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1104325003428 Domain of unknown function DUF21; Region: DUF21; pfam01595 1104325003429 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 1104325003430 Transporter associated domain; Region: CorC_HlyC; pfam03471 1104325003431 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1104325003432 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1104325003433 G1 box; other site 1104325003434 putative GEF interaction site [polypeptide binding]; other site 1104325003435 GTP/Mg2+ binding site [chemical binding]; other site 1104325003436 Switch I region; other site 1104325003437 G2 box; other site 1104325003438 G3 box; other site 1104325003439 Switch II region; other site 1104325003440 G4 box; other site 1104325003441 G5 box; other site 1104325003442 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1104325003443 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 1104325003444 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 1104325003445 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1104325003446 Walker A motif; other site 1104325003447 ATP binding site [chemical binding]; other site 1104325003448 Walker B motif; other site 1104325003449 arginine finger; other site 1104325003450 UvrB/uvrC motif; Region: UVR; pfam02151 1104325003451 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 1104325003452 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1104325003453 Walker A motif; other site 1104325003454 ATP binding site [chemical binding]; other site 1104325003455 Walker B motif; other site 1104325003456 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104325003457 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 1104325003458 dimerization domain swap beta strand [polypeptide binding]; other site 1104325003459 regulatory protein interface [polypeptide binding]; other site 1104325003460 active site 1104325003461 regulatory phosphorylation site [posttranslational modification]; other site 1104325003462 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1104325003463 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1104325003464 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1104325003465 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1104325003466 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104325003467 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 1104325003468 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104325003469 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 1104325003470 putative ADP-binding pocket [chemical binding]; other site 1104325003471 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1104325003472 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104325003473 Protein of unknown function (DUF1797); Region: DUF1797; pfam08796 1104325003474 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 1104325003475 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1104325003476 GIY-YIG motif/motif A; other site 1104325003477 active site 1104325003478 catalytic site [active] 1104325003479 putative DNA binding site [nucleotide binding]; other site 1104325003480 metal binding site [ion binding]; metal-binding site 1104325003481 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104325003482 MarR family; Region: MarR_2; pfam12802 1104325003483 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1104325003484 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 1104325003485 dimer interface [polypeptide binding]; other site 1104325003486 active site 1104325003487 CoA binding pocket [chemical binding]; other site 1104325003488 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1104325003489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104325003490 NAD(P) binding site [chemical binding]; other site 1104325003491 active site 1104325003492 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1104325003493 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 1104325003494 dimer interface [polypeptide binding]; other site 1104325003495 active site 1104325003496 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1104325003497 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 1104325003498 carboxyltransferase (CT) interaction site; other site 1104325003499 biotinylation site [posttranslational modification]; other site 1104325003500 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 1104325003501 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1104325003502 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104325003503 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104325003504 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104325003505 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1104325003506 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1104325003507 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1104325003508 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1104325003509 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1104325003510 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 1104325003511 active site 1104325003512 motif I; other site 1104325003513 motif II; other site 1104325003514 GTPase YqeH; Provisional; Region: PRK13796 1104325003515 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1104325003516 GTP/Mg2+ binding site [chemical binding]; other site 1104325003517 G4 box; other site 1104325003518 G5 box; other site 1104325003519 G1 box; other site 1104325003520 Switch I region; other site 1104325003521 G2 box; other site 1104325003522 G3 box; other site 1104325003523 Switch II region; other site 1104325003524 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1104325003525 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1104325003526 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1104325003527 active site 1104325003528 (T/H)XGH motif; other site 1104325003529 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104325003530 Zn2+ binding site [ion binding]; other site 1104325003531 Mg2+ binding site [ion binding]; other site 1104325003532 Oligomerisation domain; Region: Oligomerisation; cl00519 1104325003533 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 1104325003534 S-adenosylmethionine binding site [chemical binding]; other site 1104325003535 hypothetical protein; Provisional; Region: PRK13670 1104325003536 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1104325003537 hypothetical protein; Provisional; Region: PRK12378 1104325003538 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1104325003539 Part of AAA domain; Region: AAA_19; pfam13245 1104325003540 Family description; Region: UvrD_C_2; pfam13538 1104325003541 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1104325003542 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325003543 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 1104325003544 active site 1 [active] 1104325003545 dimer interface [polypeptide binding]; other site 1104325003546 hexamer interface [polypeptide binding]; other site 1104325003547 active site 2 [active] 1104325003548 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1104325003549 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 1104325003550 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1104325003551 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 1104325003552 active site 1104325003553 dimer interface [polypeptide binding]; other site 1104325003554 motif 1; other site 1104325003555 motif 2; other site 1104325003556 motif 3; other site 1104325003557 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 1104325003558 anticodon binding site; other site 1104325003559 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104325003560 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104325003561 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104325003562 putative active site [active] 1104325003563 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1104325003564 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1104325003565 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104325003566 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 1104325003567 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104325003568 active site 1104325003569 motif I; other site 1104325003570 motif II; other site 1104325003571 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104325003572 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1104325003573 drug efflux system protein MdtG; Provisional; Region: PRK09874 1104325003574 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 1104325003575 putative substrate translocation pore; other site 1104325003576 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 1104325003577 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 1104325003578 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1104325003579 active site 1104325003580 PHP Thumb interface [polypeptide binding]; other site 1104325003581 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1104325003582 generic binding surface I; other site 1104325003583 generic binding surface II; other site 1104325003584 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 1104325003585 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1104325003586 active site 1104325003587 ADP/pyrophosphate binding site [chemical binding]; other site 1104325003588 dimerization interface [polypeptide binding]; other site 1104325003589 allosteric effector site; other site 1104325003590 fructose-1,6-bisphosphate binding site; other site 1104325003591 pyruvate kinase; Provisional; Region: PRK06354 1104325003592 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1104325003593 domain interfaces; other site 1104325003594 active site 1104325003595 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 1104325003596 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104325003597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104325003598 The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold; Region: PBP2_MleR; cd08437 1104325003599 putative dimerization interface [polypeptide binding]; other site 1104325003600 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1104325003601 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1104325003602 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104325003603 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1104325003604 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1104325003605 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325003606 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 1104325003607 active site 1104325003608 phosphorylation site [posttranslational modification] 1104325003609 intermolecular recognition site; other site 1104325003610 dimerization interface [polypeptide binding]; other site 1104325003611 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 1104325003612 DNA binding site [nucleotide binding] 1104325003613 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325003614 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1104325003615 dimerization interface [polypeptide binding]; other site 1104325003616 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 1104325003617 dimer interface [polypeptide binding]; other site 1104325003618 phosphorylation site [posttranslational modification] 1104325003619 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 1104325003620 ATP binding site [chemical binding]; other site 1104325003621 Mg2+ binding site [ion binding]; other site 1104325003622 G-X-G motif; other site 1104325003623 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1104325003624 CAT RNA binding domain; Region: CAT_RBD; smart01061 1104325003625 PRD domain; Region: PRD; pfam00874 1104325003626 PRD domain; Region: PRD; pfam00874 1104325003627 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 1104325003628 putative active site [active] 1104325003629 YdjC motif; other site 1104325003630 Mg binding site [ion binding]; other site 1104325003631 putative homodimer interface [polypeptide binding]; other site 1104325003632 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1104325003633 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325003634 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325003635 active site turn [active] 1104325003636 phosphorylation site [posttranslational modification] 1104325003637 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1104325003638 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1104325003639 NAD(P) binding site [chemical binding]; other site 1104325003640 LDH/MDH dimer interface [polypeptide binding]; other site 1104325003641 substrate binding site [chemical binding]; other site 1104325003642 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104325003643 HPr interaction site; other site 1104325003644 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325003645 active site 1104325003646 phosphorylation site [posttranslational modification] 1104325003647 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1104325003648 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 1104325003649 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104325003650 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 1104325003651 non-specific DNA binding site [nucleotide binding]; other site 1104325003652 salt bridge; other site 1104325003653 sequence-specific DNA binding site [nucleotide binding]; other site 1104325003654 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 1104325003655 binding surface 1104325003656 TPR motif; other site 1104325003657 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1104325003658 TPR repeat; Region: TPR_11; pfam13414 1104325003659 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104325003660 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1104325003661 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104325003662 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1104325003663 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1104325003664 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 1104325003665 active site 1104325003666 phosphorylation site [posttranslational modification] 1104325003667 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1104325003668 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1104325003669 active site 1104325003670 P-loop; other site 1104325003671 phosphorylation site [posttranslational modification] 1104325003672 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1104325003673 active site 1104325003674 magnesium binding site [ion binding]; other site 1104325003675 dimer interface [polypeptide binding]; other site 1104325003676 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1104325003677 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1104325003678 AP (apurinic/apyrimidinic) site pocket; other site 1104325003679 DNA interaction; other site 1104325003680 Metal-binding active site; metal-binding site 1104325003681 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1104325003682 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1104325003683 intersubunit interface [polypeptide binding]; other site 1104325003684 active site 1104325003685 Zn2+ binding site [ion binding]; other site 1104325003686 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325003687 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1104325003688 Coenzyme A binding pocket [chemical binding]; other site 1104325003689 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1104325003690 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1104325003691 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104325003692 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1104325003693 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104325003694 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1104325003695 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 1104325003696 substrate binding site [chemical binding]; other site 1104325003697 hexamer interface [polypeptide binding]; other site 1104325003698 metal binding site [ion binding]; metal-binding site 1104325003699 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104325003700 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 1104325003701 tetramer interface [polypeptide binding]; other site 1104325003702 active site 1104325003703 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1104325003704 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1104325003705 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1104325003706 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 1104325003707 active site 1104325003708 phosphorylation site [posttranslational modification] 1104325003709 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 1104325003710 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1104325003711 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1104325003712 active site 1104325003713 P-loop; other site 1104325003714 phosphorylation site [posttranslational modification] 1104325003715 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1104325003716 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 1104325003717 catalytic triad [active] 1104325003718 catalytic triad [active] 1104325003719 oxyanion hole [active] 1104325003720 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325003721 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1104325003722 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1104325003723 HflK protein; Region: hflK; TIGR01933 1104325003724 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104325003725 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325003726 DNA-binding site [nucleotide binding]; DNA binding site 1104325003727 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 1104325003728 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 1104325003729 active site 1104325003730 tetramer interface [polypeptide binding]; other site 1104325003731 CAAX protease self-immunity; Region: Abi; pfam02517 1104325003732 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104325003733 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325003734 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1104325003735 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 1104325003736 putative substrate translocation pore; other site 1104325003737 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1104325003738 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 1104325003739 active site 1104325003740 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1104325003741 Helix-turn-helix domain; Region: HTH_38; pfam13936 1104325003742 Integrase core domain; Region: rve; pfam00665 1104325003743 Integrase core domain; Region: rve_3; cl15866 1104325003744 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1104325003745 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1104325003746 glycerate kinase; Region: TIGR00045 1104325003747 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1104325003748 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1104325003749 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1104325003750 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 1104325003751 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1104325003752 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 1104325003753 CAT RNA binding domain; Region: CAT_RBD; pfam03123 1104325003754 PRD domain; Region: PRD; pfam00874 1104325003755 PRD domain; Region: PRD; pfam00874 1104325003756 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1104325003757 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325003758 active site turn [active] 1104325003759 phosphorylation site [posttranslational modification] 1104325003760 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325003761 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104325003762 HPr interaction site; other site 1104325003763 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325003764 active site 1104325003765 phosphorylation site [posttranslational modification] 1104325003766 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1104325003767 Helix-turn-helix domain; Region: HTH_38; pfam13936 1104325003768 Integrase core domain; Region: rve; pfam00665 1104325003769 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104325003770 HTH domain; Region: HTH_11; pfam08279 1104325003771 HTH domain; Region: HTH_11; cl17392 1104325003772 PRD domain; Region: PRD; pfam00874 1104325003773 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1104325003774 active site 1104325003775 P-loop; other site 1104325003776 phosphorylation site [posttranslational modification] 1104325003777 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 1104325003778 Glycine-rich SFCGS; Region: Gly_rich_SFCGS; cl11916 1104325003779 conserved hypothetical protein EF_0831/AHA_3912; Region: EF_0831; TIGR03578 1104325003780 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 1104325003781 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_B; cd01307 1104325003782 active site 1104325003783 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 1104325003784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104325003785 catalytic residue [active] 1104325003786 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 1104325003787 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1104325003788 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 1104325003789 active site 1104325003790 P-loop; other site 1104325003791 phosphorylation site [posttranslational modification] 1104325003792 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1104325003793 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 1104325003794 active site 1104325003795 phosphorylation site [posttranslational modification] 1104325003796 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104325003797 HTH domain; Region: HTH_11; pfam08279 1104325003798 PRD domain; Region: PRD; pfam00874 1104325003799 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1104325003800 active site 1104325003801 P-loop; other site 1104325003802 phosphorylation site [posttranslational modification] 1104325003803 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 1104325003804 active site 1104325003805 phosphorylation site [posttranslational modification] 1104325003806 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1104325003807 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1104325003808 active site 1104325003809 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1104325003810 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1104325003811 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104325003812 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1104325003813 DNA binding residues [nucleotide binding] 1104325003814 putative dimer interface [polypeptide binding]; other site 1104325003815 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1104325003816 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1104325003817 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 1104325003818 putative substrate binding site [chemical binding]; other site 1104325003819 putative ATP binding site [chemical binding]; other site 1104325003820 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104325003821 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1104325003822 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104325003823 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 1104325003824 active site 1104325003825 phosphorylation site [posttranslational modification] 1104325003826 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 1104325003827 active site 1104325003828 P-loop; other site 1104325003829 phosphorylation site [posttranslational modification] 1104325003830 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1104325003831 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1104325003832 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1104325003833 active site 1104325003834 intersubunit interface [polypeptide binding]; other site 1104325003835 Zn2+ binding site [ion binding]; other site 1104325003836 Predicted esterase [General function prediction only]; Region: COG0400 1104325003837 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1104325003838 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104325003839 Zn binding site [ion binding]; other site 1104325003840 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1104325003841 Zn binding site [ion binding]; other site 1104325003842 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104325003843 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325003844 DNA-binding site [nucleotide binding]; DNA binding site 1104325003845 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1104325003846 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104325003847 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1104325003848 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104325003849 beta-galactosidase; Region: BGL; TIGR03356 1104325003850 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 1104325003851 Ligand Binding Site [chemical binding]; other site 1104325003852 Predicted transcriptional regulators [Transcription]; Region: COG1695 1104325003853 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1104325003854 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 1104325003855 putative catalytic residues [active] 1104325003856 thiol/disulfide switch; other site 1104325003857 ArsC family; Region: ArsC; pfam03960 1104325003858 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1104325003859 dimer interface [polypeptide binding]; other site 1104325003860 substrate binding site [chemical binding]; other site 1104325003861 ATP binding site [chemical binding]; other site 1104325003862 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1104325003863 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1104325003864 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1104325003865 putative active site [active] 1104325003866 catalytic site [active] 1104325003867 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1104325003868 putative active site [active] 1104325003869 catalytic site [active] 1104325003870 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1104325003871 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104325003872 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325003873 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1104325003874 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1104325003875 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1104325003876 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 1104325003877 S-adenosylmethionine binding site [chemical binding]; other site 1104325003878 "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 1104325003879 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1104325003880 dimer interface [polypeptide binding]; other site 1104325003881 active site 1104325003882 putative acyltransferase; Provisional; Region: PRK05790 1104325003883 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 1104325003884 dimer interface [polypeptide binding]; other site 1104325003885 active site 1104325003886 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1104325003887 homodimer interface [polypeptide binding]; other site 1104325003888 catalytic residues [active] 1104325003889 NAD binding site [chemical binding]; other site 1104325003890 substrate binding pocket [chemical binding]; other site 1104325003891 flexible flap; other site 1104325003892 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 1104325003893 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104325003894 active site 1104325003895 catalytic tetrad [active] 1104325003896 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1104325003897 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 1104325003898 elongation factor Tu; Reviewed; Region: PRK00049 1104325003899 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1104325003900 G1 box; other site 1104325003901 GEF interaction site [polypeptide binding]; other site 1104325003902 GTP/Mg2+ binding site [chemical binding]; other site 1104325003903 Switch I region; other site 1104325003904 G2 box; other site 1104325003905 G3 box; other site 1104325003906 Switch II region; other site 1104325003907 G4 box; other site 1104325003908 G5 box; other site 1104325003909 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 1104325003910 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 1104325003911 Antibiotic Binding Site [chemical binding]; other site 1104325003912 Predicted integral membrane protein [Function unknown]; Region: COG0392 1104325003913 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1104325003914 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1104325003915 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1104325003916 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104325003917 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104325003918 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104325003919 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104325003920 catalytic residue [active] 1104325003921 Domain of unknown function (DUF368); Region: DUF368; cl00893 1104325003922 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104325003923 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325003924 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 1104325003925 motif II; other site 1104325003926 DNA primase; Validated; Region: dnaG; PRK05667 1104325003927 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1104325003928 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1104325003929 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 1104325003930 active site 1104325003931 metal binding site [ion binding]; metal-binding site 1104325003932 interdomain interaction site; other site 1104325003933 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1104325003934 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1104325003935 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1104325003936 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1104325003937 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104325003938 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1104325003939 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 1104325003940 DNA binding residues [nucleotide binding] 1104325003941 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1104325003942 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1104325003943 S1 domain; Region: S1_2; pfam13509 1104325003944 ferric uptake regulator; Provisional; Region: fur; PRK09462 1104325003945 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104325003946 metal binding site 2 [ion binding]; metal-binding site 1104325003947 putative DNA binding helix; other site 1104325003948 metal binding site 1 [ion binding]; metal-binding site 1104325003949 dimer interface [polypeptide binding]; other site 1104325003950 structural Zn2+ binding site [ion binding]; other site 1104325003951 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 1104325003952 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1104325003953 active site 1104325003954 Int/Topo IB signature motif; other site 1104325003955 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1104325003956 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1104325003957 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1104325003958 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 1104325003959 RNA binding surface [nucleotide binding]; other site 1104325003960 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1104325003961 active site 1104325003962 Predicted membrane protein [Function unknown]; Region: COG3601 1104325003963 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1104325003964 Predicted membrane protein [Function unknown]; Region: COG1288 1104325003965 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1104325003966 hypothetical protein; Provisional; Region: PRK07205 1104325003967 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1104325003968 active site 1104325003969 metal binding site [ion binding]; metal-binding site 1104325003970 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1104325003971 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 1104325003972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 1104325003973 ATP-dependent DNA helicase, RecQ family; Region: recQ_fam; TIGR00614 1104325003974 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 1104325003975 ATP binding site [chemical binding]; other site 1104325003976 putative Mg++ binding site [ion binding]; other site 1104325003977 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 1104325003978 nucleotide binding region [chemical binding]; other site 1104325003979 ATP-binding site [chemical binding]; other site 1104325003980 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325003981 cytidylate kinase; Provisional; Region: cmk; PRK00023 1104325003982 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 1104325003983 CMP-binding site; other site 1104325003984 The sites determining sugar specificity; other site 1104325003985 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1104325003986 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 1104325003987 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 1104325003988 RNA binding site [nucleotide binding]; other site 1104325003989 S1_RPS1_repeat_hs4: 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_hs4; cd05692 1104325003990 RNA binding site [nucleotide binding]; other site 1104325003991 GTP-binding protein Der; Reviewed; Region: PRK00093 1104325003992 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1104325003993 G1 box; other site 1104325003994 GTP/Mg2+ binding site [chemical binding]; other site 1104325003995 Switch I region; other site 1104325003996 G2 box; other site 1104325003997 Switch II region; other site 1104325003998 G3 box; other site 1104325003999 G4 box; other site 1104325004000 G5 box; other site 1104325004001 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1104325004002 G1 box; other site 1104325004003 GTP/Mg2+ binding site [chemical binding]; other site 1104325004004 Switch I region; other site 1104325004005 G2 box; other site 1104325004006 G3 box; other site 1104325004007 Switch II region; other site 1104325004008 G4 box; other site 1104325004009 G5 box; other site 1104325004010 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 1104325004011 IHF dimer interface [polypeptide binding]; other site 1104325004012 IHF - DNA interface [nucleotide binding]; other site 1104325004013 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 1104325004014 TPR motif; other site 1104325004015 binding surface 1104325004016 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 1104325004017 binding surface 1104325004018 TPR motif; other site 1104325004019 hypothetical protein; Provisional; Region: PRK03636 1104325004020 UPF0302 domain; Region: UPF0302; pfam08864 1104325004021 IDEAL domain; Region: IDEAL; pfam08858 1104325004022 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104325004023 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104325004024 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1104325004025 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 1104325004026 homodimer interface [polypeptide binding]; other site 1104325004027 metal binding site [ion binding]; metal-binding site 1104325004028 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1104325004029 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1104325004030 active site 1104325004031 NTP binding site [chemical binding]; other site 1104325004032 metal binding triad [ion binding]; metal-binding site 1104325004033 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1104325004034 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1104325004035 acyl-CoA synthetase; Provisional; Region: PTZ00216 1104325004036 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1104325004037 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104325004038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325004039 Walker A/P-loop; other site 1104325004040 ATP binding site [chemical binding]; other site 1104325004041 Q-loop/lid; other site 1104325004042 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325004043 ABC transporter signature motif; other site 1104325004044 Walker B; other site 1104325004045 D-loop; other site 1104325004046 ABC transporter; Region: ABC_tran_2; pfam12848 1104325004047 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325004048 thymidylate synthase; Region: thym_sym; TIGR03284 1104325004049 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 1104325004050 dimerization interface [polypeptide binding]; other site 1104325004051 active site 1104325004052 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1104325004053 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 1104325004054 folate binding site [chemical binding]; other site 1104325004055 NADP+ binding site [chemical binding]; other site 1104325004056 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1104325004057 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1104325004058 EDD domain protein, DegV family; Region: DegV; TIGR00762 1104325004059 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1104325004060 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 1104325004061 active site 1104325004062 catalytic triad [active] 1104325004063 oxyanion hole [active] 1104325004064 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 1104325004065 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1104325004066 hypothetical protein; Provisional; Region: PRK13672 1104325004067 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1104325004068 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 1104325004069 Catalytic site [active] 1104325004070 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1104325004071 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1104325004072 Helix-turn-helix domain; Region: HTH_38; pfam13936 1104325004073 Integrase core domain; Region: rve; pfam00665 1104325004074 Integrase core domain; Region: rve_3; cl15866 1104325004075 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1104325004076 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 1104325004077 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104325004078 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1104325004079 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1104325004080 GTP/Mg2+ binding site [chemical binding]; other site 1104325004081 G4 box; other site 1104325004082 G5 box; other site 1104325004083 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1104325004084 G1 box; other site 1104325004085 G1 box; other site 1104325004086 GTP/Mg2+ binding site [chemical binding]; other site 1104325004087 Switch I region; other site 1104325004088 G2 box; other site 1104325004089 G2 box; other site 1104325004090 G3 box; other site 1104325004091 G3 box; other site 1104325004092 Switch II region; other site 1104325004093 Switch II region; other site 1104325004094 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1104325004095 RNA/DNA hybrid binding site [nucleotide binding]; other site 1104325004096 active site 1104325004097 DNA protecting protein DprA; Region: dprA; TIGR00732 1104325004098 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1104325004099 DNA topoisomerase I; Validated; Region: PRK05582 1104325004100 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 1104325004101 active site 1104325004102 interdomain interaction site; other site 1104325004103 putative metal-binding site [ion binding]; other site 1104325004104 nucleotide binding site [chemical binding]; other site 1104325004105 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 1104325004106 domain I; other site 1104325004107 DNA binding groove [nucleotide binding] 1104325004108 phosphate binding site [ion binding]; other site 1104325004109 domain II; other site 1104325004110 domain III; other site 1104325004111 nucleotide binding site [chemical binding]; other site 1104325004112 catalytic site [active] 1104325004113 domain IV; other site 1104325004114 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1104325004115 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1104325004116 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1104325004117 Glucose inhibited division protein A; Region: GIDA; pfam01134 1104325004118 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1104325004119 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 1104325004120 active site 1104325004121 Int/Topo IB signature motif; other site 1104325004122 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1104325004123 active site 1104325004124 HslU subunit interaction site [polypeptide binding]; other site 1104325004125 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1104325004126 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1104325004127 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 1104325004128 Walker A motif; other site 1104325004129 ATP binding site [chemical binding]; other site 1104325004130 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1104325004131 Walker B motif; other site 1104325004132 arginine finger; other site 1104325004133 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1104325004134 transcriptional repressor CodY; Validated; Region: PRK04158 1104325004135 CodY GAF-like domain; Region: CodY; pfam06018 1104325004136 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 1104325004137 putative DNA binding site [nucleotide binding]; other site 1104325004138 putative Zn2+ binding site [ion binding]; other site 1104325004139 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1104325004140 active site 1104325004141 catalytic residues [active] 1104325004142 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1104325004143 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1104325004144 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1104325004145 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 1104325004146 ATP binding site [chemical binding]; other site 1104325004147 Mg2+ binding site [ion binding]; other site 1104325004148 G-X-G motif; other site 1104325004149 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 1104325004150 anchoring element; other site 1104325004151 dimer interface [polypeptide binding]; other site 1104325004152 ATP binding site [chemical binding]; other site 1104325004153 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 1104325004154 active site 1104325004155 putative metal-binding site [ion binding]; other site 1104325004156 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1104325004157 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1104325004158 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 1104325004159 CAP-like domain; other site 1104325004160 active site 1104325004161 primary dimer interface [polypeptide binding]; other site 1104325004162 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104325004163 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104325004164 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1104325004165 DHH family; Region: DHH; pfam01368 1104325004166 DHHA2 domain; Region: DHHA2; pfam02833 1104325004167 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1104325004168 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1104325004169 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1104325004170 hypothetical protein; Provisional; Region: PRK04164 1104325004171 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1104325004172 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104325004173 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325004174 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325004175 DNA binding site [nucleotide binding] 1104325004176 domain linker motif; other site 1104325004177 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1104325004178 dimerization interface [polypeptide binding]; other site 1104325004179 ligand binding site [chemical binding]; other site 1104325004180 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104325004181 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104325004182 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 1104325004183 dimer interface [polypeptide binding]; other site 1104325004184 conserved gate region; other site 1104325004185 ABC-ATPase subunit interface; other site 1104325004186 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1104325004187 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1104325004188 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1104325004189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325004190 Walker A/P-loop; other site 1104325004191 ATP binding site [chemical binding]; other site 1104325004192 Q-loop/lid; other site 1104325004193 ABC transporter signature motif; other site 1104325004194 Walker B; other site 1104325004195 D-loop; other site 1104325004196 H-loop/switch region; other site 1104325004197 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1104325004198 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104325004199 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325004200 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104325004201 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104325004202 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 1104325004203 dimer interface [polypeptide binding]; other site 1104325004204 conserved gate region; other site 1104325004205 putative PBP binding loops; other site 1104325004206 ABC-ATPase subunit interface; other site 1104325004207 NMT1/THI5 like; Region: NMT1; pfam09084 1104325004208 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1104325004209 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1104325004210 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1104325004211 Walker A/P-loop; other site 1104325004212 ATP binding site [chemical binding]; other site 1104325004213 Q-loop/lid; other site 1104325004214 ABC transporter signature motif; other site 1104325004215 Walker B; other site 1104325004216 D-loop; other site 1104325004217 H-loop/switch region; other site 1104325004218 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1104325004219 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 1104325004220 active site 1104325004221 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325004222 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1104325004223 aminotransferase AlaT; Validated; Region: PRK09265 1104325004224 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 1104325004225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325004226 homodimer interface [polypeptide binding]; other site 1104325004227 catalytic residue [active] 1104325004228 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 1104325004229 non-specific DNA binding site [nucleotide binding]; other site 1104325004230 salt bridge; other site 1104325004231 sequence-specific DNA binding site [nucleotide binding]; other site 1104325004232 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1104325004233 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1104325004234 active site 1104325004235 dimer interface [polypeptide binding]; other site 1104325004236 Membrane transport protein; Region: Mem_trans; cl09117 1104325004237 (R)-2-Hydroxyglutarate Dehydrogenase and related dehydrogenases, NAD-binding and catalytic domains; Region: HGDH_like; cd12184 1104325004238 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1104325004239 putative homodimer interface [polypeptide binding]; other site 1104325004240 putative ligand binding site [chemical binding]; other site 1104325004241 putative NAD binding site [chemical binding]; other site 1104325004242 catalytic site [active] 1104325004243 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1104325004244 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 1104325004245 active site 1104325004246 phosphorylation site [posttranslational modification] 1104325004247 intermolecular recognition site; other site 1104325004248 dimerization interface [polypeptide binding]; other site 1104325004249 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1104325004250 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 1104325004251 ATP binding site [chemical binding]; other site 1104325004252 Mg2+ binding site [ion binding]; other site 1104325004253 G-X-G motif; other site 1104325004254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1104325004255 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1104325004256 prohibitin homologues; Region: PHB; smart00244 1104325004257 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1104325004258 Predicted membrane protein [Function unknown]; Region: COG4129 1104325004259 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1104325004260 Predicted membrane protein [Function unknown]; Region: COG4129 1104325004261 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1104325004262 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 1104325004263 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104325004264 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104325004265 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104325004266 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1104325004267 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1104325004268 Class I aldolases; Region: Aldolase_Class_I; cl17187 1104325004269 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 1104325004270 phosphate binding site [ion binding]; other site 1104325004271 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104325004272 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104325004273 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104325004274 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104325004275 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104325004276 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325004277 active site 1104325004278 xanthine permease; Region: pbuX; TIGR03173 1104325004279 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1104325004280 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1104325004281 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1104325004282 NAD binding site [chemical binding]; other site 1104325004283 ATP-grasp domain; Region: ATP-grasp; pfam02222 1104325004284 adenylosuccinate lyase; Provisional; Region: PRK07492 1104325004285 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1104325004286 tetramer interface [polypeptide binding]; other site 1104325004287 active site 1104325004288 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1104325004289 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1104325004290 ATP binding site [chemical binding]; other site 1104325004291 active site 1104325004292 substrate binding site [chemical binding]; other site 1104325004293 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 1104325004294 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1104325004295 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1104325004296 putative active site [active] 1104325004297 catalytic triad [active] 1104325004298 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1104325004299 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 1104325004300 active site 1104325004301 tetramer interface [polypeptide binding]; other site 1104325004302 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325004303 active site 1104325004304 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1104325004305 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 1104325004306 dimerization interface [polypeptide binding]; other site 1104325004307 putative ATP binding site [chemical binding]; other site 1104325004308 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1104325004309 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1104325004310 active site 1104325004311 substrate binding site [chemical binding]; other site 1104325004312 cosubstrate binding site; other site 1104325004313 catalytic site [active] 1104325004314 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1104325004315 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 1104325004316 purine monophosphate binding site [chemical binding]; other site 1104325004317 dimer interface [polypeptide binding]; other site 1104325004318 putative catalytic residues [active] 1104325004319 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1104325004320 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1104325004321 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1104325004322 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1104325004323 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1104325004324 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 1104325004325 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104325004326 active site 1104325004327 catalytic tetrad [active] 1104325004328 Response regulator receiver domain; Region: Response_reg; pfam00072 1104325004329 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 1104325004330 active site 1104325004331 phosphorylation site [posttranslational modification] 1104325004332 intermolecular recognition site; other site 1104325004333 dimerization interface [polypeptide binding]; other site 1104325004334 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1104325004335 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104325004336 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325004337 Histidine kinase; Region: His_kinase; pfam06580 1104325004338 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 1104325004339 ATP binding site [chemical binding]; other site 1104325004340 Mg2+ binding site [ion binding]; other site 1104325004341 G-X-G motif; other site 1104325004342 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1104325004343 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1104325004344 putative ligand binding site [chemical binding]; other site 1104325004345 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1104325004346 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1104325004347 putative ligand binding site [chemical binding]; other site 1104325004348 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104325004349 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104325004350 Walker A/P-loop; other site 1104325004351 ATP binding site [chemical binding]; other site 1104325004352 Q-loop/lid; other site 1104325004353 ABC transporter signature motif; other site 1104325004354 Walker B; other site 1104325004355 D-loop; other site 1104325004356 H-loop/switch region; other site 1104325004357 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104325004358 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104325004359 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104325004360 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104325004361 TM-ABC transporter signature motif; other site 1104325004362 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1104325004363 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 1104325004364 active site 1104325004365 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1104325004366 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325004367 DNA-binding site [nucleotide binding]; DNA binding site 1104325004368 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 1104325004369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325004370 homodimer interface [polypeptide binding]; other site 1104325004371 catalytic residue [active] 1104325004372 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1104325004373 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1104325004374 tetramer interface [polypeptide binding]; other site 1104325004375 TPP-binding site [chemical binding]; other site 1104325004376 heterodimer interface [polypeptide binding]; other site 1104325004377 phosphorylation loop region [posttranslational modification] 1104325004378 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1104325004379 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1104325004380 alpha subunit interface [polypeptide binding]; other site 1104325004381 TPP binding site [chemical binding]; other site 1104325004382 heterodimer interface [polypeptide binding]; other site 1104325004383 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104325004384 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1104325004385 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1104325004386 E3 interaction surface; other site 1104325004387 lipoyl attachment site [posttranslational modification]; other site 1104325004388 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1104325004389 E3 interaction surface; other site 1104325004390 lipoyl attachment site [posttranslational modification]; other site 1104325004391 e3 binding domain; Region: E3_binding; pfam02817 1104325004392 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104325004393 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1104325004394 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1104325004395 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325004396 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104325004397 hypothetical protein; Provisional; Region: PRK04387 1104325004398 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104325004399 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1104325004400 active site 1104325004401 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1104325004402 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1104325004403 G1 box; other site 1104325004404 putative GEF interaction site [polypeptide binding]; other site 1104325004405 GTP/Mg2+ binding site [chemical binding]; other site 1104325004406 Switch I region; other site 1104325004407 G2 box; other site 1104325004408 G3 box; other site 1104325004409 Switch II region; other site 1104325004410 G4 box; other site 1104325004411 G5 box; other site 1104325004412 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 1104325004413 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 1104325004414 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1104325004415 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 1104325004416 ATP binding site [chemical binding]; other site 1104325004417 putative Mg++ binding site [ion binding]; other site 1104325004418 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 1104325004419 nucleotide binding region [chemical binding]; other site 1104325004420 ATP-binding site [chemical binding]; other site 1104325004421 RQC domain; Region: RQC; pfam09382 1104325004422 HRDC domain; Region: HRDC; pfam00570 1104325004423 Protein of unknown function (DUF1507); Region: DUF1507; pfam07408 1104325004424 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1104325004425 pyruvate carboxylase; Reviewed; Region: PRK12999 1104325004426 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104325004427 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1104325004428 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104325004429 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1104325004430 active site 1104325004431 catalytic residues [active] 1104325004432 metal binding site [ion binding]; metal-binding site 1104325004433 homodimer binding site [polypeptide binding]; other site 1104325004434 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 1104325004435 carboxyltransferase (CT) interaction site; other site 1104325004436 biotinylation site [posttranslational modification]; other site 1104325004437 Protein of unknown function (DUF964); Region: DUF964; pfam06133 1104325004438 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 1104325004439 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1104325004440 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 1104325004441 S-adenosylmethionine binding site [chemical binding]; other site 1104325004442 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1104325004443 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1104325004444 active site 1104325004445 (T/H)XGH motif; other site 1104325004446 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1104325004447 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1104325004448 protein binding site [polypeptide binding]; other site 1104325004449 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1104325004450 SLBB domain; Region: SLBB; pfam10531 1104325004451 comEA protein; Region: comE; TIGR01259 1104325004452 Helix-hairpin-helix motif; Region: HHH; pfam00633 1104325004453 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1104325004454 active site 1104325004455 oxyanion hole [active] 1104325004456 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1104325004457 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 1104325004458 catalytic motif [active] 1104325004459 Zn binding site [ion binding]; other site 1104325004460 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1104325004461 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1104325004462 Competence protein; Region: Competence; pfam03772 1104325004463 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1104325004464 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1104325004465 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1104325004466 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1104325004467 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1104325004468 Protein of unknown function (DUF441); Region: DUF441; pfam04284 1104325004469 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1104325004470 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104325004471 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104325004472 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1104325004473 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 1104325004474 catalytic core [active] 1104325004475 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1104325004476 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1104325004477 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1104325004478 DEAD_2; Region: DEAD_2; pfam06733 1104325004479 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1104325004480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1104325004481 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1104325004482 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104325004483 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104325004484 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104325004485 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1104325004486 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1104325004487 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 1104325004488 active site 1104325004489 DNA binding site [nucleotide binding] 1104325004490 Int/Topo IB signature motif; other site 1104325004491 SIR2-like domain; Region: SIR2_2; pfam13289 1104325004492 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 1104325004493 active site 1104325004494 DNA binding site [nucleotide binding] 1104325004495 Int/Topo IB signature motif; other site 1104325004496 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1104325004497 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1104325004498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325004499 Coenzyme A binding pocket [chemical binding]; other site 1104325004500 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325004501 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 1104325004502 Ligand Binding Site [chemical binding]; other site 1104325004503 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 1104325004504 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 1104325004505 putative active site [active] 1104325004506 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 1104325004507 dimer interface [polypeptide binding]; other site 1104325004508 FMN binding site [chemical binding]; other site 1104325004509 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1104325004510 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 1104325004511 putative substrate translocation pore; other site 1104325004512 POT family; Region: PTR2; cl17359 1104325004513 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1104325004514 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1104325004515 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1104325004516 Part of AAA domain; Region: AAA_19; pfam13245 1104325004517 Family description; Region: UvrD_C_2; pfam13538 1104325004518 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1104325004519 Predicted transcriptional regulators [Transcription]; Region: COG1733 1104325004520 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1104325004521 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1104325004522 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1104325004523 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 1104325004524 dimer interface [polypeptide binding]; other site 1104325004525 motif 1; other site 1104325004526 active site 1104325004527 motif 2; other site 1104325004528 motif 3; other site 1104325004529 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1104325004530 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 1104325004531 putative tRNA-binding site [nucleotide binding]; other site 1104325004532 B3/4 domain; Region: B3_4; pfam03483 1104325004533 tRNA synthetase B5 domain; Region: B5; smart00874 1104325004534 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 1104325004535 dimer interface [polypeptide binding]; other site 1104325004536 motif 1; other site 1104325004537 motif 3; other site 1104325004538 motif 2; other site 1104325004539 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1104325004540 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1104325004541 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1104325004542 active site 1104325004543 HIGH motif; other site 1104325004544 dimer interface [polypeptide binding]; other site 1104325004545 KMSKS motif; other site 1104325004546 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104325004547 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104325004548 Walker A/P-loop; other site 1104325004549 ATP binding site [chemical binding]; other site 1104325004550 Q-loop/lid; other site 1104325004551 ABC transporter signature motif; other site 1104325004552 Walker B; other site 1104325004553 D-loop; other site 1104325004554 H-loop/switch region; other site 1104325004555 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104325004556 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 1104325004557 substrate binding pocket [chemical binding]; other site 1104325004558 membrane-bound complex binding site; other site 1104325004559 hinge residues; other site 1104325004560 glutamate racemase; Provisional; Region: PRK00865 1104325004561 ribonuclease PH; Reviewed; Region: rph; PRK00173 1104325004562 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1104325004563 hexamer interface [polypeptide binding]; other site 1104325004564 active site 1104325004565 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 1104325004566 active site 1104325004567 dimerization interface [polypeptide binding]; other site 1104325004568 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1104325004569 active site 1104325004570 metal binding site [ion binding]; metal-binding site 1104325004571 homotetramer interface [polypeptide binding]; other site 1104325004572 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 1104325004573 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1104325004574 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1104325004575 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1104325004576 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 1104325004577 homodimer interface [polypeptide binding]; other site 1104325004578 substrate-cofactor binding pocket; other site 1104325004579 catalytic residue [active] 1104325004580 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 1104325004581 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1104325004582 NAD binding site [chemical binding]; other site 1104325004583 homotetramer interface [polypeptide binding]; other site 1104325004584 homodimer interface [polypeptide binding]; other site 1104325004585 substrate binding site [chemical binding]; other site 1104325004586 active site 1104325004587 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 1104325004588 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 1104325004589 active site 1104325004590 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1104325004591 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1104325004592 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104325004593 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1104325004594 Eukaryotic protein of unknown function (DUF829); Region: DUF829; pfam05705 1104325004595 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1104325004596 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1104325004597 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1104325004598 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1104325004599 GTP1/OBG; Region: GTP1_OBG; pfam01018 1104325004600 Obg GTPase; Region: Obg; cd01898 1104325004601 G1 box; other site 1104325004602 GTP/Mg2+ binding site [chemical binding]; other site 1104325004603 Switch I region; other site 1104325004604 G2 box; other site 1104325004605 G3 box; other site 1104325004606 Switch II region; other site 1104325004607 G4 box; other site 1104325004608 G5 box; other site 1104325004609 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1104325004610 ribonuclease Z; Region: RNase_Z; TIGR02651 1104325004611 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1104325004612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104325004613 NAD(P) binding site [chemical binding]; other site 1104325004614 active site 1104325004615 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1104325004616 LexA repressor; Validated; Region: PRK00215 1104325004617 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 1104325004618 putative DNA binding site [nucleotide binding]; other site 1104325004619 putative Zn2+ binding site [ion binding]; other site 1104325004620 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 1104325004621 Catalytic site [active] 1104325004622 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 1104325004623 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1104325004624 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1104325004625 TPP-binding site [chemical binding]; other site 1104325004626 dimer interface [polypeptide binding]; other site 1104325004627 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1104325004628 PYR/PP interface [polypeptide binding]; other site 1104325004629 dimer interface [polypeptide binding]; other site 1104325004630 TPP binding site [chemical binding]; other site 1104325004631 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104325004632 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1104325004633 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325004634 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1104325004635 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 1104325004636 dimer interface [polypeptide binding]; other site 1104325004637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325004638 catalytic residue [active] 1104325004639 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104325004640 metal binding site 2 [ion binding]; metal-binding site 1104325004641 putative DNA binding helix; other site 1104325004642 metal binding site 1 [ion binding]; metal-binding site 1104325004643 dimer interface [polypeptide binding]; other site 1104325004644 structural Zn2+ binding site [ion binding]; other site 1104325004645 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1104325004646 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325004647 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104325004648 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104325004649 MarR family; Region: MarR; pfam01047 1104325004650 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 1104325004651 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104325004652 putative substrate translocation pore; other site 1104325004653 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1104325004654 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1104325004655 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1104325004656 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104325004657 minor groove reading motif; other site 1104325004658 helix-hairpin-helix signature motif; other site 1104325004659 substrate binding pocket [chemical binding]; other site 1104325004660 active site 1104325004661 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1104325004662 Transglycosylase; Region: Transgly; pfam00912 1104325004663 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1104325004664 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1104325004665 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1104325004666 hypothetical protein; Provisional; Region: PRK13660 1104325004667 cell division protein GpsB; Provisional; Region: PRK14127 1104325004668 DivIVA domain; Region: DivI1A_domain; TIGR03544 1104325004669 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1104325004670 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1104325004671 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 1104325004672 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1104325004673 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1104325004674 active site 1104325004675 Zn binding site [ion binding]; other site 1104325004676 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1104325004677 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104325004678 Zn2+ binding site [ion binding]; other site 1104325004679 Mg2+ binding site [ion binding]; other site 1104325004680 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1104325004681 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1104325004682 substrate-cofactor binding pocket; other site 1104325004683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325004684 catalytic residue [active] 1104325004685 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 1104325004686 VanZ like family; Region: VanZ; pfam04892 1104325004687 RDD family; Region: RDD; pfam06271 1104325004688 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1104325004689 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 1104325004690 ATP binding site [chemical binding]; other site 1104325004691 Mg++ binding site [ion binding]; other site 1104325004692 motif III; other site 1104325004693 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 1104325004694 nucleotide binding region [chemical binding]; other site 1104325004695 ATP-binding site [chemical binding]; other site 1104325004696 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104325004697 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325004698 Coenzyme A binding pocket [chemical binding]; other site 1104325004699 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1104325004700 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 1104325004701 motif 1; other site 1104325004702 active site 1104325004703 motif 2; other site 1104325004704 motif 3; other site 1104325004705 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1104325004706 DHHA1 domain; Region: DHHA1; pfam02272 1104325004707 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1104325004708 Predicted membrane protein [Function unknown]; Region: COG4684 1104325004709 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1104325004710 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1104325004711 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 1104325004712 RNA/DNA hybrid binding site [nucleotide binding]; other site 1104325004713 active site 1104325004714 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 1104325004715 DNA-binding site [nucleotide binding]; DNA binding site 1104325004716 RNA-binding motif; other site 1104325004717 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1104325004718 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 1104325004719 Potassium binding sites [ion binding]; other site 1104325004720 Cesium cation binding sites [ion binding]; other site 1104325004721 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 1104325004722 lipoprotein signal peptidase; Provisional; Region: PRK14797 1104325004723 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1104325004724 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 1104325004725 RNA binding surface [nucleotide binding]; other site 1104325004726 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104325004727 active site 1104325004728 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1104325004729 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325004730 active site 1104325004731 uracil transporter; Provisional; Region: PRK10720 1104325004732 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1104325004733 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104325004734 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104325004735 dihydroorotase; Validated; Region: pyrC; PRK09357 1104325004736 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 1104325004737 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 1104325004738 active site 1104325004739 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1104325004740 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1104325004741 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1104325004742 catalytic site [active] 1104325004743 subunit interface [polypeptide binding]; other site 1104325004744 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1104325004745 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104325004746 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1104325004747 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1104325004748 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104325004749 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104325004750 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 1104325004751 IMP binding site; other site 1104325004752 dimer interface [polypeptide binding]; other site 1104325004753 interdomain contacts; other site 1104325004754 partial ornithine binding site; other site 1104325004755 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1104325004756 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1104325004757 FAD binding pocket [chemical binding]; other site 1104325004758 FAD binding motif [chemical binding]; other site 1104325004759 phosphate binding motif [ion binding]; other site 1104325004760 beta-alpha-beta structure motif; other site 1104325004761 NAD binding pocket [chemical binding]; other site 1104325004762 Iron coordination center [ion binding]; other site 1104325004763 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1104325004764 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 1104325004765 heterodimer interface [polypeptide binding]; other site 1104325004766 active site 1104325004767 FMN binding site [chemical binding]; other site 1104325004768 homodimer interface [polypeptide binding]; other site 1104325004769 substrate binding site [chemical binding]; other site 1104325004770 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 1104325004771 active site 1104325004772 dimer interface [polypeptide binding]; other site 1104325004773 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325004774 active site 1104325004775 HD domain; Region: HD_3; cl17350 1104325004776 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 1104325004777 active site 1104325004778 zinc binding site [ion binding]; other site 1104325004779 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104325004780 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104325004781 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 1104325004782 dimerization interface [polypeptide binding]; other site 1104325004783 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1104325004784 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1104325004785 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1104325004786 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 1104325004787 zinc binding site [ion binding]; other site 1104325004788 putative ligand binding site [chemical binding]; other site 1104325004789 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104325004790 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1104325004791 TM-ABC transporter signature motif; other site 1104325004792 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1104325004793 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325004794 Walker A/P-loop; other site 1104325004795 ATP binding site [chemical binding]; other site 1104325004796 Q-loop/lid; other site 1104325004797 ABC transporter signature motif; other site 1104325004798 Walker B; other site 1104325004799 D-loop; other site 1104325004800 H-loop/switch region; other site 1104325004801 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1104325004802 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1104325004803 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1104325004804 shikimate binding site; other site 1104325004805 NAD(P) binding site [chemical binding]; other site 1104325004806 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 1104325004807 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1104325004808 dimer interface [polypeptide binding]; other site 1104325004809 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104325004810 DNA topoisomerase III; Provisional; Region: PRK07726 1104325004811 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 1104325004812 active site 1104325004813 putative interdomain interaction site [polypeptide binding]; other site 1104325004814 putative metal-binding site [ion binding]; other site 1104325004815 putative nucleotide binding site [chemical binding]; other site 1104325004816 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 1104325004817 domain I; other site 1104325004818 DNA binding groove [nucleotide binding] 1104325004819 phosphate binding site [ion binding]; other site 1104325004820 domain II; other site 1104325004821 domain III; other site 1104325004822 nucleotide binding site [chemical binding]; other site 1104325004823 catalytic site [active] 1104325004824 domain IV; other site 1104325004825 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1104325004826 putative addiction module antidote; Region: doc_partner; TIGR02609 1104325004827 Fic/DOC family; Region: Fic; cl00960 1104325004828 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1104325004829 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1104325004830 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104325004831 NAD binding site [chemical binding]; other site 1104325004832 dimer interface [polypeptide binding]; other site 1104325004833 substrate binding site [chemical binding]; other site 1104325004834 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 1104325004835 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104325004836 putative substrate translocation pore; other site 1104325004837 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 1104325004838 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1104325004839 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1104325004840 active site 1104325004841 P-loop; other site 1104325004842 phosphorylation site [posttranslational modification] 1104325004843 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104325004844 PRD domain; Region: PRD; pfam00874 1104325004845 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1104325004846 active site 1104325004847 P-loop; other site 1104325004848 phosphorylation site [posttranslational modification] 1104325004849 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 1104325004850 active site 1104325004851 phosphorylation site [posttranslational modification] 1104325004852 putative oxidoreductase; Provisional; Region: PRK10206 1104325004853 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104325004854 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104325004855 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104325004856 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104325004857 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104325004858 putative active site [active] 1104325004859 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1104325004860 active site 1104325004861 catalytic site [active] 1104325004862 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104325004863 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1104325004864 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325004865 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 1104325004866 active site 1104325004867 phosphorylation site [posttranslational modification] 1104325004868 intermolecular recognition site; other site 1104325004869 dimerization interface [polypeptide binding]; other site 1104325004870 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 1104325004871 DNA binding site [nucleotide binding] 1104325004872 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325004873 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 1104325004874 dimer interface [polypeptide binding]; other site 1104325004875 phosphorylation site [posttranslational modification] 1104325004876 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 1104325004877 ATP binding site [chemical binding]; other site 1104325004878 Mg2+ binding site [ion binding]; other site 1104325004879 G-X-G motif; other site 1104325004880 Heat induced stress protein YflT; Region: YflT; pfam11181 1104325004881 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 1104325004882 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 1104325004883 active site 1104325004884 Int/Topo IB signature motif; other site 1104325004885 DNA binding site [nucleotide binding] 1104325004886 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1104325004887 dimer interface [polypeptide binding]; other site 1104325004888 substrate binding site [chemical binding]; other site 1104325004889 ATP binding site [chemical binding]; other site 1104325004890 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 1104325004891 Protein of unknown function (DUF436); Region: DUF436; pfam04260 1104325004892 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1104325004893 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1104325004894 Ca binding site [ion binding]; other site 1104325004895 active site 1104325004896 catalytic site [active] 1104325004897 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 1104325004898 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1104325004899 metal ion-dependent adhesion site (MIDAS); other site 1104325004900 EDD domain protein, DegV family; Region: DegV; TIGR00762 1104325004901 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1104325004902 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1104325004903 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1104325004904 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1104325004905 AzlC protein; Region: AzlC; pfam03591 1104325004906 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1104325004907 Cation efflux family; Region: Cation_efflux; pfam01545 1104325004908 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1104325004909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 1104325004910 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 1104325004911 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1104325004912 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1104325004913 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1104325004914 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1104325004915 Guanylate kinase; Region: Guanylate_kin; pfam00625 1104325004916 active site 1104325004917 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325004918 Coenzyme A binding pocket [chemical binding]; other site 1104325004919 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; cl00427 1104325004920 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 1104325004921 putative PBP binding loops; other site 1104325004922 dimer interface [polypeptide binding]; other site 1104325004923 ABC-ATPase subunit interface; other site 1104325004924 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104325004925 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 1104325004926 substrate binding pocket [chemical binding]; other site 1104325004927 membrane-bound complex binding site; other site 1104325004928 hinge residues; other site 1104325004929 amidase; Provisional; Region: PRK06529 1104325004930 Amidase; Region: Amidase; cl11426 1104325004931 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1104325004932 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1A_like; cd04741 1104325004933 active site 1104325004934 FMN binding site [chemical binding]; other site 1104325004935 substrate binding site [chemical binding]; other site 1104325004936 catalytic residues [active] 1104325004937 homodimer interface [polypeptide binding]; other site 1104325004938 Predicted membrane protein [Function unknown]; Region: COG3212 1104325004939 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1104325004940 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1104325004941 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1104325004942 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 1104325004943 S-adenosylmethionine binding site [chemical binding]; other site 1104325004944 Predicted integral membrane protein [Function unknown]; Region: COG5521 1104325004945 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104325004946 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 1104325004947 dimer interface [polypeptide binding]; other site 1104325004948 conserved gate region; other site 1104325004949 putative PBP binding loops; other site 1104325004950 ABC-ATPase subunit interface; other site 1104325004951 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 1104325004952 dimer interface [polypeptide binding]; other site 1104325004953 conserved gate region; other site 1104325004954 putative PBP binding loops; other site 1104325004955 ABC-ATPase subunit interface; other site 1104325004956 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1104325004957 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104325004958 maltodextrin glucosidase; Provisional; Region: PRK10785 1104325004959 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1104325004960 homodimer interface [polypeptide binding]; other site 1104325004961 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1104325004962 active site 1104325004963 homodimer interface [polypeptide binding]; other site 1104325004964 catalytic site [active] 1104325004965 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104325004966 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104325004967 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1104325004968 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1104325004969 active site 1104325004970 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1104325004971 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104325004972 MarR family; Region: MarR; pfam01047 1104325004973 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104325004974 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104325004975 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1104325004976 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325004977 mannonate dehydratase; Provisional; Region: PRK03906 1104325004978 mannonate dehydratase; Region: uxuA; TIGR00695 1104325004979 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1104325004980 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1104325004981 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1104325004982 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1104325004983 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325004984 DNA-binding site [nucleotide binding]; DNA binding site 1104325004985 FCD domain; Region: FCD; pfam07729 1104325004986 peroxiredoxin; Region: AhpC; TIGR03137 1104325004987 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1104325004988 dimer interface [polypeptide binding]; other site 1104325004989 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1104325004990 catalytic triad [active] 1104325004991 peroxidatic and resolving cysteines [active] 1104325004992 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1104325004993 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1104325004994 catalytic residue [active] 1104325004995 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1104325004996 catalytic residues [active] 1104325004997 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104325004998 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325004999 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 1104325005000 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1104325005001 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1104325005002 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 1104325005003 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1104325005004 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1104325005005 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104325005006 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1104325005007 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 1104325005008 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1104325005009 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1104325005010 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1104325005011 putative active site cavity [active] 1104325005012 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 1104325005013 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 1104325005014 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1104325005015 TPP-binding site; other site 1104325005016 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1104325005017 PYR/PP interface [polypeptide binding]; other site 1104325005018 dimer interface [polypeptide binding]; other site 1104325005019 TPP binding site [chemical binding]; other site 1104325005020 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104325005021 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1104325005022 glutaminase A; Region: Gln_ase; TIGR03814 1104325005023 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 1104325005024 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1104325005025 Predicted membrane protein [Function unknown]; Region: COG2261 1104325005026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1104325005027 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 1104325005028 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 1104325005029 sequence-specific DNA binding site [nucleotide binding]; other site 1104325005030 salt bridge; other site 1104325005031 Predicted membrane protein [Function unknown]; Region: COG2261 1104325005032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1104325005033 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 1104325005034 oxidoreductase; Provisional; Region: PRK07985 1104325005035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104325005036 NAD(P) binding site [chemical binding]; other site 1104325005037 active site 1104325005038 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1104325005039 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1104325005040 Cl binding site [ion binding]; other site 1104325005041 oligomer interface [polypeptide binding]; other site 1104325005042 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 1104325005043 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104325005044 active site 1104325005045 motif I; other site 1104325005046 motif II; other site 1104325005047 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 1104325005048 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 1104325005049 catalytic triad [active] 1104325005050 conserved cis-peptide bond; other site 1104325005051 conserved hypothetical protein; Region: TIGR02328 1104325005052 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1104325005053 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 1104325005054 DNA-binding site [nucleotide binding]; DNA binding site 1104325005055 RNA-binding motif; other site 1104325005056 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1104325005057 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 1104325005058 motif II; other site 1104325005059 mannonate dehydratase; Provisional; Region: PRK03906 1104325005060 mannonate dehydratase; Region: uxuA; TIGR00695 1104325005061 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 1104325005062 active pocket/dimerization site; other site 1104325005063 active site 1104325005064 phosphorylation site [posttranslational modification] 1104325005065 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1104325005066 active site 1104325005067 phosphorylation site [posttranslational modification] 1104325005068 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1104325005069 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1104325005070 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1104325005071 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 1104325005072 putative active site [active] 1104325005073 metal binding site [ion binding]; metal-binding site 1104325005074 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_12; cd12177 1104325005075 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1104325005076 putative ligand binding site [chemical binding]; other site 1104325005077 putative NAD binding site [chemical binding]; other site 1104325005078 catalytic site [active] 1104325005079 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1104325005080 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104325005081 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104325005082 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104325005083 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104325005084 putative active site [active] 1104325005085 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 1104325005086 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104325005087 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104325005088 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1104325005089 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1104325005090 Isochorismatase family; Region: Isochorismatase; pfam00857 1104325005091 catalytic triad [active] 1104325005092 conserved cis-peptide bond; other site 1104325005093 CAAX protease self-immunity; Region: Abi; pfam02517 1104325005094 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1104325005095 active site 1104325005096 intersubunit interactions; other site 1104325005097 catalytic residue [active] 1104325005098 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 1104325005099 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 1104325005100 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 1104325005101 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 1104325005102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104325005103 NAD(P) binding site [chemical binding]; other site 1104325005104 active site 1104325005105 Domain of unknown function (DUF378); Region: DUF378; pfam04070 1104325005106 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1104325005107 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 1104325005108 putative dimer interface [polypeptide binding]; other site 1104325005109 TraX protein; Region: TraX; cl05434 1104325005110 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1104325005111 dimer interface [polypeptide binding]; other site 1104325005112 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1104325005113 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1104325005114 potential catalytic triad [active] 1104325005115 conserved cys residue [active] 1104325005116 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 1104325005117 dimerization interface [polypeptide binding]; other site 1104325005118 putative DNA binding site [nucleotide binding]; other site 1104325005119 putative Zn2+ binding site [ion binding]; other site 1104325005120 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 1104325005121 DNA-binding site [nucleotide binding]; DNA binding site 1104325005122 RNA-binding motif; other site 1104325005123 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 1104325005124 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 1104325005125 DNA-binding site [nucleotide binding]; DNA binding site 1104325005126 RNA-binding motif; other site 1104325005127 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 1104325005128 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 1104325005129 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 1104325005130 amidase catalytic site [active] 1104325005131 Zn binding residues [ion binding]; other site 1104325005132 substrate binding site [chemical binding]; other site 1104325005133 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; pfam09693 1104325005134 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 1104325005135 putative pectinesterase; Region: PLN02432; cl01911 1104325005136 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 1104325005137 Phage tail protein; Region: Sipho_tail; pfam05709 1104325005138 tape measure domain; Region: tape_meas_nterm; TIGR02675 1104325005139 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104325005140 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104325005141 catalytic residue [active] 1104325005142 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 1104325005143 Minor capsid protein; Region: Minor_capsid_1; pfam10665 1104325005144 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 1104325005145 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1104325005146 Phage terminase large subunit; Region: Terminase_3; cl12054 1104325005147 Uncharacterized conserved protein [Function unknown]; Region: COG5484 1104325005148 Phage terminase small subunit; Region: Phage_terminase; pfam10668 1104325005149 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1104325005150 ParB-like nuclease domain; Region: ParBc; pfam02195 1104325005151 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1104325005152 Protein of unknown function (DUF1140); Region: DUF1140; pfam06600 1104325005153 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 1104325005154 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 1104325005155 Walker A motif; other site 1104325005156 ATP binding site [chemical binding]; other site 1104325005157 Walker B motif; other site 1104325005158 arginine finger; other site 1104325005159 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 1104325005160 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1104325005161 ORF6C domain; Region: ORF6C; pfam10552 1104325005162 Domain of unknown function (DUF771); Region: DUF771; pfam05595 1104325005163 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1104325005164 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 1104325005165 Int/Topo IB signature motif; other site 1104325005166 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1104325005167 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 1104325005168 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 1104325005169 Protein of unknown function (DUF3188); Region: DUF3188; pfam11384 1104325005170 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104325005171 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1104325005172 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1104325005173 active site 1104325005174 methionine cluster; other site 1104325005175 phosphorylation site [posttranslational modification] 1104325005176 metal binding site [ion binding]; metal-binding site 1104325005177 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1104325005178 active site 1104325005179 P-loop; other site 1104325005180 phosphorylation site [posttranslational modification] 1104325005181 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 1104325005182 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1104325005183 putative DNA binding site [nucleotide binding]; other site 1104325005184 putative Zn2+ binding site [ion binding]; other site 1104325005185 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 1104325005186 Walker A motif; other site 1104325005187 ATP binding site [chemical binding]; other site 1104325005188 Walker B motif; other site 1104325005189 Transcriptional antiterminator [Transcription]; Region: COG3933 1104325005190 PRD domain; Region: PRD; pfam00874 1104325005191 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; cl00025 1104325005192 active pocket/dimerization site; other site 1104325005193 active site 1104325005194 phosphorylation site [posttranslational modification] 1104325005195 PRD domain; Region: PRD; pfam00874 1104325005196 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 1104325005197 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1104325005198 ATP binding site [chemical binding]; other site 1104325005199 putative Mg++ binding site [ion binding]; other site 1104325005200 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 1104325005201 nucleotide binding region [chemical binding]; other site 1104325005202 ATP-binding site [chemical binding]; other site 1104325005203 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104325005204 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104325005205 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1104325005206 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1104325005207 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1104325005208 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1104325005209 FeoA domain; Region: FeoA; pfam04023 1104325005210 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1104325005211 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1104325005212 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1104325005213 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1104325005214 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104325005215 active site 1104325005216 HIGH motif; other site 1104325005217 nucleotide binding site [chemical binding]; other site 1104325005218 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1104325005219 active site 1104325005220 KMSKS motif; other site 1104325005221 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1104325005222 tRNA binding surface [nucleotide binding]; other site 1104325005223 anticodon binding site; other site 1104325005224 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1104325005225 DivIVA protein; Region: DivIVA; pfam05103 1104325005226 DivIVA domain; Region: DivI1A_domain; TIGR03544 1104325005227 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1104325005228 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1104325005229 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 1104325005230 RNA binding surface [nucleotide binding]; other site 1104325005231 YGGT family; Region: YGGT; pfam02325 1104325005232 Protein of unknown function (DUF552); Region: DUF552; pfam04472 1104325005233 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1104325005234 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104325005235 catalytic residue [active] 1104325005236 cell division protein FtsZ; Validated; Region: PRK09330 1104325005237 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 1104325005238 nucleotide binding site [chemical binding]; other site 1104325005239 SulA interaction site; other site 1104325005240 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1104325005241 Cell division protein FtsA; Region: FtsA; smart00842 1104325005242 Cell division protein FtsA; Region: FtsA; pfam14450 1104325005243 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1104325005244 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1104325005245 Cell division protein FtsQ; Region: FtsQ; pfam03799 1104325005246 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1104325005247 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 1104325005248 active site 1104325005249 homodimer interface [polypeptide binding]; other site 1104325005250 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1104325005251 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1104325005252 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104325005253 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104325005254 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1104325005255 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 1104325005256 Mg++ binding site [ion binding]; other site 1104325005257 putative catalytic motif [active] 1104325005258 putative substrate binding site [chemical binding]; other site 1104325005259 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1104325005260 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1104325005261 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104325005262 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 1104325005263 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 1104325005264 Cell division protein FtsL; Region: FtsL; cl11433 1104325005265 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1104325005266 MraW methylase family; Region: Methyltransf_5; pfam01795 1104325005267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1104325005268 MraZ protein; Region: MraZ; pfam02381 1104325005269 MraZ protein; Region: MraZ; pfam02381 1104325005270 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1104325005271 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1104325005272 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1104325005273 Cl binding site [ion binding]; other site 1104325005274 oligomer interface [polypeptide binding]; other site 1104325005275 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 1104325005276 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1104325005277 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1104325005278 Walker A/P-loop; other site 1104325005279 ATP binding site [chemical binding]; other site 1104325005280 Q-loop/lid; other site 1104325005281 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1104325005282 ABC transporter signature motif; other site 1104325005283 Walker B; other site 1104325005284 D-loop; other site 1104325005285 H-loop/switch region; other site 1104325005286 Arginine repressor [Transcription]; Region: ArgR; COG1438 1104325005287 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1104325005288 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1104325005289 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1104325005290 S4 RNA-binding domain; Region: S4; smart00363 1104325005291 RNA binding surface [nucleotide binding]; other site 1104325005292 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1104325005293 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1104325005294 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1104325005295 substrate binding pocket [chemical binding]; other site 1104325005296 chain length determination region; other site 1104325005297 substrate-Mg2+ binding site; other site 1104325005298 catalytic residues [active] 1104325005299 aspartate-rich region 1; other site 1104325005300 active site lid residues [active] 1104325005301 aspartate-rich region 2; other site 1104325005302 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1104325005303 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1104325005304 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 1104325005305 generic binding surface II; other site 1104325005306 generic binding surface I; other site 1104325005307 Site-specific recombinase; Region: SpecificRecomb; cl15411 1104325005308 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1104325005309 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1104325005310 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1104325005311 homodimer interface [polypeptide binding]; other site 1104325005312 NADP binding site [chemical binding]; other site 1104325005313 substrate binding site [chemical binding]; other site 1104325005314 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1104325005315 putative RNA binding site [nucleotide binding]; other site 1104325005316 Asp23 family; Region: Asp23; pfam03780 1104325005317 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104325005318 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104325005319 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 1104325005320 active site 1104325005321 Predicted membrane protein [Function unknown]; Region: COG2261 1104325005322 Domain of unknown function (DUF956); Region: DUF956; pfam06115 1104325005323 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1104325005324 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1104325005325 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1104325005326 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 1104325005327 Walker A motif; other site 1104325005328 ATP binding site [chemical binding]; other site 1104325005329 Walker B motif; other site 1104325005330 arginine finger; other site 1104325005331 Transcriptional antiterminator [Transcription]; Region: COG3933 1104325005332 PRD domain; Region: PRD; pfam00874 1104325005333 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 1104325005334 active pocket/dimerization site; other site 1104325005335 active site 1104325005336 phosphorylation site [posttranslational modification] 1104325005337 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1104325005338 Protein of unknown function (DUF464); Region: DUF464; pfam04327 1104325005339 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1104325005340 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1104325005341 Fe-S cluster binding site [ion binding]; other site 1104325005342 active site 1104325005343 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1104325005344 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1104325005345 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1104325005346 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1104325005347 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1104325005348 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 1104325005349 S-adenosylmethionine binding site [chemical binding]; other site 1104325005350 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 1104325005351 Catalytic site [active] 1104325005352 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1104325005353 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1104325005354 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1104325005355 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1104325005356 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1104325005357 Protein of unknown function (DUF975); Region: DUF975; cl10504 1104325005358 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1104325005359 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1104325005360 oligomer interface [polypeptide binding]; other site 1104325005361 active site 1104325005362 metal binding site [ion binding]; metal-binding site 1104325005363 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 1104325005364 DltD N-terminal region; Region: DltD_N; pfam04915 1104325005365 DltD central region; Region: DltD_M; pfam04918 1104325005366 DltD C-terminal region; Region: DltD_C; pfam04914 1104325005367 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1104325005368 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1104325005369 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1104325005370 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1104325005371 acyl-activating enzyme (AAE) consensus motif; other site 1104325005372 AMP binding site [chemical binding]; other site 1104325005373 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 1104325005374 FtsX-like permease family; Region: FtsX; pfam02687 1104325005375 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104325005376 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104325005377 Walker A/P-loop; other site 1104325005378 ATP binding site [chemical binding]; other site 1104325005379 Q-loop/lid; other site 1104325005380 ABC transporter signature motif; other site 1104325005381 Walker B; other site 1104325005382 D-loop; other site 1104325005383 H-loop/switch region; other site 1104325005384 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1104325005385 ATP cone domain; Region: ATP-cone; pfam03477 1104325005386 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1104325005387 effector binding site; other site 1104325005388 active site 1104325005389 Zn binding site [ion binding]; other site 1104325005390 glycine loop; other site 1104325005391 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1104325005392 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1104325005393 FeS/SAM binding site; other site 1104325005394 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1104325005395 active site 1104325005396 DNA polymerase IV; Validated; Region: PRK02406 1104325005397 DNA binding site [nucleotide binding] 1104325005398 Predicted methyltransferases [General function prediction only]; Region: COG0313 1104325005399 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1104325005400 putative SAM binding site [chemical binding]; other site 1104325005401 putative homodimer interface [polypeptide binding]; other site 1104325005402 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1104325005403 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 1104325005404 DNA polymerase III subunit delta'; Validated; Region: PRK08058 1104325005405 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1104325005406 Protein of unknown function (DUF970); Region: DUF970; cl17525 1104325005407 thymidylate kinase; Validated; Region: tmk; PRK00698 1104325005408 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 1104325005409 TMP-binding site; other site 1104325005410 ATP-binding site [chemical binding]; other site 1104325005411 recombination protein RecR; Reviewed; Region: recR; PRK00076 1104325005412 RecR protein; Region: RecR; pfam02132 1104325005413 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 1104325005414 putative active site [active] 1104325005415 putative metal-binding site [ion binding]; other site 1104325005416 tetramer interface [polypeptide binding]; other site 1104325005417 hypothetical protein; Validated; Region: PRK00153 1104325005418 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1104325005419 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 1104325005420 Walker A motif; other site 1104325005421 ATP binding site [chemical binding]; other site 1104325005422 Walker B motif; other site 1104325005423 arginine finger; other site 1104325005424 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1104325005425 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 1104325005426 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 1104325005427 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1104325005428 YycH protein; Region: YycI; cl02015 1104325005429 Repair protein; Region: Repair_PSII; pfam04536 1104325005430 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104325005431 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 1104325005432 ligand binding site [chemical binding]; other site 1104325005433 flexible hinge region; other site 1104325005434 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 1104325005435 non-specific DNA interactions [nucleotide binding]; other site 1104325005436 DNA binding site [nucleotide binding] 1104325005437 sequence specific DNA binding site [nucleotide binding]; other site 1104325005438 putative cAMP binding site [chemical binding]; other site 1104325005439 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 1104325005440 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104325005441 putative substrate translocation pore; other site 1104325005442 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 1104325005443 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104325005444 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1104325005445 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104325005446 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 1104325005447 intersubunit interface [polypeptide binding]; other site 1104325005448 active site 1104325005449 zinc binding site [ion binding]; other site 1104325005450 Na+ binding site [ion binding]; other site 1104325005451 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1104325005452 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 1104325005453 active site 1104325005454 P-loop; other site 1104325005455 phosphorylation site [posttranslational modification] 1104325005456 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1104325005457 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 1104325005458 active site 1104325005459 phosphorylation site [posttranslational modification] 1104325005460 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1104325005461 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1104325005462 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1104325005463 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1104325005464 RNA binding site [nucleotide binding]; other site 1104325005465 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 1104325005466 Walker A motif; other site 1104325005467 ATP binding site [chemical binding]; other site 1104325005468 Walker B motif; other site 1104325005469 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1104325005470 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 1104325005471 hinge; other site 1104325005472 active site 1104325005473 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1104325005474 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 1104325005475 intersubunit interface [polypeptide binding]; other site 1104325005476 active site 1104325005477 zinc binding site [ion binding]; other site 1104325005478 Na+ binding site [ion binding]; other site 1104325005479 CTP synthetase; Validated; Region: pyrG; PRK05380 1104325005480 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 1104325005481 Catalytic site [active] 1104325005482 active site 1104325005483 UTP binding site [chemical binding]; other site 1104325005484 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1104325005485 active site 1104325005486 putative oxyanion hole; other site 1104325005487 catalytic triad [active] 1104325005488 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1104325005489 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1104325005490 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1104325005491 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1104325005492 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104325005493 DNA binding residues [nucleotide binding] 1104325005494 putative dimer interface [polypeptide binding]; other site 1104325005495 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1104325005496 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1104325005497 HflX GTPase family; Region: HflX; cd01878 1104325005498 G1 box; other site 1104325005499 GTP/Mg2+ binding site [chemical binding]; other site 1104325005500 Switch I region; other site 1104325005501 G2 box; other site 1104325005502 G3 box; other site 1104325005503 Switch II region; other site 1104325005504 G4 box; other site 1104325005505 G5 box; other site 1104325005506 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1104325005507 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1104325005508 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1104325005509 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 1104325005510 active site 1104325005511 catalytic site [active] 1104325005512 metal binding site [ion binding]; metal-binding site 1104325005513 dimer interface [polypeptide binding]; other site 1104325005514 Clp protease; Region: CLP_protease; pfam00574 1104325005515 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1104325005516 oligomer interface [polypeptide binding]; other site 1104325005517 active site residues [active] 1104325005518 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 1104325005519 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1104325005520 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1104325005521 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1104325005522 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 1104325005523 DNA-binding site [nucleotide binding]; DNA binding site 1104325005524 RNA-binding motif; other site 1104325005525 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1104325005526 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1104325005527 MPN+ (JAMM) motif; other site 1104325005528 Zinc-binding site [ion binding]; other site 1104325005529 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1104325005530 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 1104325005531 motif II; other site 1104325005532 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1104325005533 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104325005534 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104325005535 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1104325005536 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104325005537 active site 1104325005538 HIGH motif; other site 1104325005539 nucleotide binding site [chemical binding]; other site 1104325005540 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1104325005541 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1104325005542 active site 1104325005543 KMSKS motif; other site 1104325005544 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1104325005545 tRNA binding surface [nucleotide binding]; other site 1104325005546 anticodon binding site; other site 1104325005547 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1104325005548 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1104325005549 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1104325005550 CoA binding domain; Region: CoA_binding; pfam02629 1104325005551 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1104325005552 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1104325005553 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 1104325005554 Ligand Binding Site [chemical binding]; other site 1104325005555 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1104325005556 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1104325005557 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104325005558 catalytic residue [active] 1104325005559 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 1104325005560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 1104325005561 metal binding site [ion binding]; metal-binding site 1104325005562 Protein of unknown function DUF72; Region: DUF72; pfam01904 1104325005563 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1104325005564 active site 1104325005565 homotetramer interface [polypeptide binding]; other site 1104325005566 homodimer interface [polypeptide binding]; other site 1104325005567 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1104325005568 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 1104325005569 active site 1104325005570 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1104325005571 active site 2 [active] 1104325005572 Phosphotransferase enzyme family; Region: APH; pfam01636 1104325005573 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1104325005574 active site 1104325005575 ATP binding site [chemical binding]; other site 1104325005576 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1104325005577 substrate binding site [chemical binding]; other site 1104325005578 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 1104325005579 trimer interface [polypeptide binding]; other site 1104325005580 active site 1104325005581 G bulge; other site 1104325005582 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104325005583 Serine hydrolase; Region: Ser_hydrolase; cl17834 1104325005584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 1104325005585 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1104325005586 beta-galactosidase; Region: BGL; TIGR03356 1104325005587 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1104325005588 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325005589 active site turn [active] 1104325005590 phosphorylation site [posttranslational modification] 1104325005591 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325005592 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104325005593 HPr interaction site; other site 1104325005594 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325005595 active site 1104325005596 phosphorylation site [posttranslational modification] 1104325005597 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1104325005598 CAT RNA binding domain; Region: CAT_RBD; pfam03123 1104325005599 PRD domain; Region: PRD; pfam00874 1104325005600 PRD domain; Region: PRD; pfam00874 1104325005601 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 1104325005602 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104325005603 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104325005604 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104325005605 putative active site [active] 1104325005606 agmatine deiminase; Provisional; Region: PRK13551 1104325005607 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1104325005608 carbamate kinase; Reviewed; Region: PRK12686 1104325005609 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1104325005610 putative substrate binding site [chemical binding]; other site 1104325005611 nucleotide binding site [chemical binding]; other site 1104325005612 nucleotide binding site [chemical binding]; other site 1104325005613 homodimer interface [polypeptide binding]; other site 1104325005614 agmatine deiminase; Provisional; Region: PRK13551 1104325005615 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1104325005616 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1104325005617 putrescine carbamoyltransferase; Provisional; Region: PRK02255 1104325005618 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104325005619 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104325005620 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1104325005621 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 1104325005622 RNA binding site [nucleotide binding]; other site 1104325005623 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1104325005624 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 1104325005625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104325005626 homodimer interface [polypeptide binding]; other site 1104325005627 catalytic residue [active] 1104325005628 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1104325005629 active site 1104325005630 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1104325005631 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104325005632 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1104325005633 tetramer interfaces [polypeptide binding]; other site 1104325005634 binuclear metal-binding site [ion binding]; other site 1104325005635 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 1104325005636 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1104325005637 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 1104325005638 active site 1104325005639 motif I; other site 1104325005640 motif II; other site 1104325005641 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 1104325005642 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 1104325005643 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1104325005644 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1104325005645 active site 1104325005646 metal binding site [ion binding]; metal-binding site 1104325005647 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1104325005648 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 1104325005649 nucleoside/Zn binding site; other site 1104325005650 dimer interface [polypeptide binding]; other site 1104325005651 catalytic motif [active] 1104325005652 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1104325005653 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1104325005654 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 1104325005655 S-adenosylmethionine binding site [chemical binding]; other site 1104325005656 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1104325005657 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104325005658 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325005659 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1104325005660 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1104325005661 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1104325005662 PhnA protein; Region: PhnA; pfam03831 1104325005663 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1104325005664 DHH family; Region: DHH; pfam01368 1104325005665 DHHA1 domain; Region: DHHA1; pfam02272 1104325005666 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1104325005667 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325005668 DNA-binding site [nucleotide binding]; DNA binding site 1104325005669 DRTGG domain; Region: DRTGG; pfam07085 1104325005670 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 1104325005671 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1104325005672 active site 2 [active] 1104325005673 active site 1 [active] 1104325005674 metal-dependent hydrolase; Provisional; Region: PRK00685 1104325005675 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1104325005676 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 1104325005677 putative deacylase active site [active] 1104325005678 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1104325005679 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1104325005680 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1104325005681 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104325005682 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1104325005683 FtsX-like permease family; Region: FtsX; pfam02687 1104325005684 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104325005685 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1104325005686 Walker A/P-loop; other site 1104325005687 ATP binding site [chemical binding]; other site 1104325005688 Q-loop/lid; other site 1104325005689 ABC transporter signature motif; other site 1104325005690 Walker B; other site 1104325005691 D-loop; other site 1104325005692 H-loop/switch region; other site 1104325005693 CsbD-like; Region: CsbD; cl17424 1104325005694 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 1104325005695 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1104325005696 dimer interface [polypeptide binding]; other site 1104325005697 active site 1104325005698 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1104325005699 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1104325005700 hypothetical protein; Provisional; Region: PRK11588 1104325005701 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104325005702 putative active site [active] 1104325005703 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1104325005704 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1104325005705 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1104325005706 active site 1104325005707 tetramer interface; other site 1104325005708 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1104325005709 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1104325005710 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1104325005711 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1104325005712 A subgroup of the 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_1; cd05710 1104325005713 putative active site [active] 1104325005714 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 1104325005715 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1104325005716 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 1104325005717 dimer interface [polypeptide binding]; other site 1104325005718 active site 1104325005719 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 1104325005720 dimer interface [polypeptide binding]; other site 1104325005721 active site 1104325005722 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1104325005723 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1104325005724 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 1104325005725 active site 1104325005726 phosphorylation site [posttranslational modification] 1104325005727 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 1104325005728 active pocket/dimerization site; other site 1104325005729 active site 1104325005730 phosphorylation site [posttranslational modification] 1104325005731 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104325005732 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104325005733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325005734 Walker A/P-loop; other site 1104325005735 ATP binding site [chemical binding]; other site 1104325005736 Q-loop/lid; other site 1104325005737 ABC transporter signature motif; other site 1104325005738 Walker B; other site 1104325005739 D-loop; other site 1104325005740 H-loop/switch region; other site 1104325005741 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104325005742 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104325005743 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1104325005744 Walker A/P-loop; other site 1104325005745 ATP binding site [chemical binding]; other site 1104325005746 Q-loop/lid; other site 1104325005747 ABC transporter signature motif; other site 1104325005748 Walker B; other site 1104325005749 D-loop; other site 1104325005750 H-loop/switch region; other site 1104325005751 hypothetical protein; Provisional; Region: PRK09609 1104325005752 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1104325005753 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1104325005754 active site 1104325005755 dimer interfaces [polypeptide binding]; other site 1104325005756 catalytic residues [active] 1104325005757 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1104325005758 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104325005759 Walker A/P-loop; other site 1104325005760 ATP binding site [chemical binding]; other site 1104325005761 Q-loop/lid; other site 1104325005762 ABC transporter signature motif; other site 1104325005763 Walker B; other site 1104325005764 D-loop; other site 1104325005765 H-loop/switch region; other site 1104325005766 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1104325005767 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 1104325005768 S-adenosylmethionine binding site [chemical binding]; other site 1104325005769 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1104325005770 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 1104325005771 putative active site [active] 1104325005772 putative metal binding site [ion binding]; other site 1104325005773 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1104325005774 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1104325005775 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1104325005776 active site 1104325005777 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1104325005778 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1104325005779 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1104325005780 active site 1104325005781 HIGH motif; other site 1104325005782 KMSKS motif; other site 1104325005783 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1104325005784 tRNA binding surface [nucleotide binding]; other site 1104325005785 anticodon binding site; other site 1104325005786 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 1104325005787 dimer interface [polypeptide binding]; other site 1104325005788 putative tRNA-binding site [nucleotide binding]; other site 1104325005789 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1104325005790 nudix motif; other site 1104325005791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1104325005792 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1104325005793 Probable transposase; Region: OrfB_IS605; pfam01385 1104325005794 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104325005795 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104325005796 Walker A/P-loop; other site 1104325005797 ATP binding site [chemical binding]; other site 1104325005798 Q-loop/lid; other site 1104325005799 ABC transporter signature motif; other site 1104325005800 Walker B; other site 1104325005801 D-loop; other site 1104325005802 H-loop/switch region; other site 1104325005803 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104325005804 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104325005805 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104325005806 Walker A/P-loop; other site 1104325005807 ATP binding site [chemical binding]; other site 1104325005808 Q-loop/lid; other site 1104325005809 ABC transporter signature motif; other site 1104325005810 Walker B; other site 1104325005811 D-loop; other site 1104325005812 H-loop/switch region; other site 1104325005813 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104325005814 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1104325005815 dipeptide transporter; Provisional; Region: PRK10913 1104325005816 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 1104325005817 dimer interface [polypeptide binding]; other site 1104325005818 conserved gate region; other site 1104325005819 putative PBP binding loops; other site 1104325005820 ABC-ATPase subunit interface; other site 1104325005821 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104325005822 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 1104325005823 dimer interface [polypeptide binding]; other site 1104325005824 conserved gate region; other site 1104325005825 putative PBP binding loops; other site 1104325005826 ABC-ATPase subunit interface; other site 1104325005827 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 1104325005828 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1104325005829 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104325005830 peptide binding site [polypeptide binding]; other site 1104325005831 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325005832 Coenzyme A binding pocket [chemical binding]; other site 1104325005833 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 1104325005834 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1104325005835 putative active site [active] 1104325005836 metal binding site [ion binding]; metal-binding site 1104325005837 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1104325005838 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1104325005839 FeS/SAM binding site; other site 1104325005840 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1104325005841 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104325005842 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1104325005843 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104325005844 beta-galactosidase; Region: BGL; TIGR03356 1104325005845 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104325005846 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 1104325005847 substrate binding pocket [chemical binding]; other site 1104325005848 membrane-bound complex binding site; other site 1104325005849 hinge residues; other site 1104325005850 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104325005851 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325005852 Walker A/P-loop; other site 1104325005853 ATP binding site [chemical binding]; other site 1104325005854 Q-loop/lid; other site 1104325005855 ABC transporter signature motif; other site 1104325005856 Walker B; other site 1104325005857 D-loop; other site 1104325005858 H-loop/switch region; other site 1104325005859 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 1104325005860 dimer interface [polypeptide binding]; other site 1104325005861 conserved gate region; other site 1104325005862 putative PBP binding loops; other site 1104325005863 ABC-ATPase subunit interface; other site 1104325005864 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 1104325005865 putative deacylase active site [active] 1104325005866 Collagen binding domain; Region: Collagen_bind; pfam05737 1104325005867 Cna protein B-type domain; Region: Cna_B; pfam05738 1104325005868 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1104325005869 domain interaction interfaces [polypeptide binding]; other site 1104325005870 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1104325005871 domain interaction interfaces [polypeptide binding]; other site 1104325005872 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1104325005873 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1104325005874 Helix-turn-helix domain; Region: HTH_38; pfam13936 1104325005875 Integrase core domain; Region: rve; pfam00665 1104325005876 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1104325005877 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1104325005878 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1104325005879 CAAX protease self-immunity; Region: Abi; cl00558 1104325005880 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325005881 active site 1104325005882 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1104325005883 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1104325005884 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1104325005885 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 1104325005886 dimer interface [polypeptide binding]; other site 1104325005887 active site 1104325005888 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1104325005889 folate binding site [chemical binding]; other site 1104325005890 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1104325005891 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1104325005892 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1104325005893 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 1104325005894 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1104325005895 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1104325005896 RF-1 domain; Region: RF-1; pfam00472 1104325005897 thymidine kinase; Provisional; Region: PRK04296 1104325005898 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 1104325005899 ATP binding site [chemical binding]; other site 1104325005900 Walker A motif; other site 1104325005901 Walker B motif; other site 1104325005902 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1104325005903 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 1104325005904 S-adenosylmethionine binding site [chemical binding]; other site 1104325005905 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1104325005906 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 1104325005907 Catalytic site [active] 1104325005908 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 1104325005909 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 1104325005910 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1104325005911 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1104325005912 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1104325005913 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104325005914 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1104325005915 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1104325005916 catalytic triad [active] 1104325005917 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1104325005918 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1104325005919 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1104325005920 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 1104325005921 active site 1104325005922 phosphorylation site [posttranslational modification] 1104325005923 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 1104325005924 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1104325005925 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1104325005926 active site 1104325005927 P-loop; other site 1104325005928 phosphorylation site [posttranslational modification] 1104325005929 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1104325005930 active site 1104325005931 P-loop; other site 1104325005932 phosphorylation site [posttranslational modification] 1104325005933 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1104325005934 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104325005935 Walker A/P-loop; other site 1104325005936 ATP binding site [chemical binding]; other site 1104325005937 Q-loop/lid; other site 1104325005938 ABC transporter signature motif; other site 1104325005939 Walker B; other site 1104325005940 D-loop; other site 1104325005941 H-loop/switch region; other site 1104325005942 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 1104325005943 active site 1104325005944 phosphorylation site [posttranslational modification] 1104325005945 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104325005946 HTH domain; Region: HTH_11; pfam08279 1104325005947 HTH domain; Region: HTH_11; pfam08279 1104325005948 PRD domain; Region: PRD; pfam00874 1104325005949 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1104325005950 P-loop; other site 1104325005951 active site 1104325005952 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; cl00163 1104325005953 active site 1104325005954 phosphorylation site [posttranslational modification] 1104325005955 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 1104325005956 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1104325005957 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1104325005958 active site 1104325005959 P-loop; other site 1104325005960 phosphorylation site [posttranslational modification] 1104325005961 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 1104325005962 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1104325005963 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1104325005964 Beta-lactamase; Region: Beta-lactamase; pfam00144 1104325005965 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1104325005966 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1104325005967 active site 1104325005968 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1104325005969 active site 1104325005970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104325005971 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104325005972 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 1104325005973 active site residue [active] 1104325005974 azoreductase; Reviewed; Region: PRK00170 1104325005975 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104325005976 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104325005977 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1104325005978 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1104325005979 Sulfatase; Region: Sulfatase; pfam00884 1104325005980 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1104325005981 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1104325005982 putative ligand binding site [chemical binding]; other site 1104325005983 putative NAD binding site [chemical binding]; other site 1104325005984 putative catalytic site [active] 1104325005985 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1104325005986 L-arabinose isomerase; Provisional; Region: PRK02929 1104325005987 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1104325005988 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1104325005989 trimer interface [polypeptide binding]; other site 1104325005990 substrate binding site [chemical binding]; other site 1104325005991 Mn binding site [ion binding]; other site 1104325005992 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1104325005993 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1104325005994 intersubunit interface [polypeptide binding]; other site 1104325005995 active site 1104325005996 Zn2+ binding site [ion binding]; other site 1104325005997 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1104325005998 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1104325005999 putative N- and C-terminal domain interface [polypeptide binding]; other site 1104325006000 putative active site [active] 1104325006001 MgATP binding site [chemical binding]; other site 1104325006002 catalytic site [active] 1104325006003 metal binding site [ion binding]; metal-binding site 1104325006004 putative carbohydrate binding site [chemical binding]; other site 1104325006005 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1104325006006 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 1104325006007 putative substrate translocation pore; other site 1104325006008 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 1104325006009 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104325006010 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325006011 DNA-binding site [nucleotide binding]; DNA binding site 1104325006012 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1104325006013 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 1104325006014 putative dimerization interface [polypeptide binding]; other site 1104325006015 putative ligand binding site [chemical binding]; other site 1104325006016 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 1104325006017 active site 1104325006018 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1104325006019 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; smart00813 1104325006020 Protein of unknown function, DUF624; Region: DUF624; pfam04854 1104325006021 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104325006022 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 1104325006023 dimer interface [polypeptide binding]; other site 1104325006024 conserved gate region; other site 1104325006025 putative PBP binding loops; other site 1104325006026 ABC-ATPase subunit interface; other site 1104325006027 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 1104325006028 dimer interface [polypeptide binding]; other site 1104325006029 conserved gate region; other site 1104325006030 putative PBP binding loops; other site 1104325006031 ABC-ATPase subunit interface; other site 1104325006032 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104325006033 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104325006034 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1104325006035 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 1104325006036 Predicted transcriptional regulator [Transcription]; Region: COG4189 1104325006037 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 1104325006038 putative DNA binding site [nucleotide binding]; other site 1104325006039 dimerization interface [polypeptide binding]; other site 1104325006040 putative Zn2+ binding site [ion binding]; other site 1104325006041 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1104325006042 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 1104325006043 homodimer interface [polypeptide binding]; other site 1104325006044 NAD binding pocket [chemical binding]; other site 1104325006045 ATP binding pocket [chemical binding]; other site 1104325006046 Mg binding site [ion binding]; other site 1104325006047 active-site loop [active] 1104325006048 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1104325006049 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 1104325006050 active site 1104325006051 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1104325006052 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104325006053 DNA binding residues [nucleotide binding] 1104325006054 dimer interface [polypeptide binding]; other site 1104325006055 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1104325006056 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325006057 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325006058 DNA binding site [nucleotide binding] 1104325006059 domain linker motif; other site 1104325006060 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 1104325006061 putative ligand binding site [chemical binding]; other site 1104325006062 putative dimerization interface [polypeptide binding]; other site 1104325006063 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1104325006064 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 1104325006065 ring oligomerisation interface [polypeptide binding]; other site 1104325006066 ATP/Mg binding site [chemical binding]; other site 1104325006067 stacking interactions; other site 1104325006068 hinge regions; other site 1104325006069 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 1104325006070 oligomerisation interface [polypeptide binding]; other site 1104325006071 mobile loop; other site 1104325006072 roof hairpin; other site 1104325006073 CAAX protease self-immunity; Region: Abi; pfam02517 1104325006074 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104325006075 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1104325006076 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1104325006077 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1104325006078 NAD binding site [chemical binding]; other site 1104325006079 substrate binding site [chemical binding]; other site 1104325006080 putative active site [active] 1104325006081 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1104325006082 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1104325006083 YycH protein; Region: YycI; pfam09648 1104325006084 YycH protein; Region: YycH; pfam07435 1104325006085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 1104325006086 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1104325006087 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 1104325006088 dimerization interface [polypeptide binding]; other site 1104325006089 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 1104325006090 putative active site [active] 1104325006091 heme pocket [chemical binding]; other site 1104325006092 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 1104325006093 dimer interface [polypeptide binding]; other site 1104325006094 phosphorylation site [posttranslational modification] 1104325006095 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 1104325006096 ATP binding site [chemical binding]; other site 1104325006097 Mg2+ binding site [ion binding]; other site 1104325006098 G-X-G motif; other site 1104325006099 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325006100 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 1104325006101 active site 1104325006102 phosphorylation site [posttranslational modification] 1104325006103 intermolecular recognition site; other site 1104325006104 dimerization interface [polypeptide binding]; other site 1104325006105 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 1104325006106 DNA binding site [nucleotide binding] 1104325006107 EDD domain protein, DegV family; Region: DegV; TIGR00762 1104325006108 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1104325006109 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1104325006110 RDD family; Region: RDD; pfam06271 1104325006111 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1104325006112 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1104325006113 tandem repeat interface [polypeptide binding]; other site 1104325006114 oligomer interface [polypeptide binding]; other site 1104325006115 active site residues [active] 1104325006116 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 1104325006117 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104325006118 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 1104325006119 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 1104325006120 putative active site [active] 1104325006121 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104325006122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325006123 Walker A/P-loop; other site 1104325006124 ATP binding site [chemical binding]; other site 1104325006125 Q-loop/lid; other site 1104325006126 ABC transporter signature motif; other site 1104325006127 Walker B; other site 1104325006128 D-loop; other site 1104325006129 H-loop/switch region; other site 1104325006130 Response regulator receiver domain; Region: Response_reg; pfam00072 1104325006131 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 1104325006132 active site 1104325006133 phosphorylation site [posttranslational modification] 1104325006134 intermolecular recognition site; other site 1104325006135 dimerization interface [polypeptide binding]; other site 1104325006136 LytTr DNA-binding domain; Region: LytTR; pfam04397 1104325006137 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1104325006138 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1104325006139 ATP binding site [chemical binding]; other site 1104325006140 Mg2+ binding site [ion binding]; other site 1104325006141 G-X-G motif; other site 1104325006142 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1104325006143 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104325006144 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 1104325006145 dimer interface [polypeptide binding]; other site 1104325006146 conserved gate region; other site 1104325006147 putative PBP binding loops; other site 1104325006148 ABC-ATPase subunit interface; other site 1104325006149 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1104325006150 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1104325006151 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1104325006152 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1104325006153 Walker A/P-loop; other site 1104325006154 ATP binding site [chemical binding]; other site 1104325006155 Q-loop/lid; other site 1104325006156 ABC transporter signature motif; other site 1104325006157 Walker B; other site 1104325006158 D-loop; other site 1104325006159 H-loop/switch region; other site 1104325006160 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1104325006161 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104325006162 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325006163 DNA-binding site [nucleotide binding]; DNA binding site 1104325006164 TrkA-C domain; Region: TrkA_C; pfam02080 1104325006165 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1104325006166 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1104325006167 G1 box; other site 1104325006168 GTP/Mg2+ binding site [chemical binding]; other site 1104325006169 Switch I region; other site 1104325006170 G2 box; other site 1104325006171 G3 box; other site 1104325006172 Switch II region; other site 1104325006173 G4 box; other site 1104325006174 G5 box; other site 1104325006175 Nucleoside recognition; Region: Gate; pfam07670 1104325006176 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1104325006177 Nucleoside recognition; Region: Gate; pfam07670 1104325006178 FeoA domain; Region: FeoA; pfam04023 1104325006179 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1104325006180 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1104325006181 catalytic residues [active] 1104325006182 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1104325006183 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1104325006184 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1104325006185 active site 1104325006186 dimer interface [polypeptide binding]; other site 1104325006187 catalytic residues [active] 1104325006188 effector binding site; other site 1104325006189 R2 peptide binding site; other site 1104325006190 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1104325006191 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1104325006192 dimer interface [polypeptide binding]; other site 1104325006193 putative radical transfer pathway; other site 1104325006194 diiron center [ion binding]; other site 1104325006195 tyrosyl radical; other site 1104325006196 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104325006197 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104325006198 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1104325006199 MgtC family; Region: MgtC; pfam02308 1104325006200 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1104325006201 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 1104325006202 active site 1104325006203 trimer interface [polypeptide binding]; other site 1104325006204 allosteric site; other site 1104325006205 active site lid [active] 1104325006206 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1104325006207 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104325006208 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325006209 Walker A/P-loop; other site 1104325006210 ATP binding site [chemical binding]; other site 1104325006211 Q-loop/lid; other site 1104325006212 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325006213 ABC transporter signature motif; other site 1104325006214 Walker B; other site 1104325006215 D-loop; other site 1104325006216 ABC transporter; Region: ABC_tran_2; pfam12848 1104325006217 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325006218 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1104325006219 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 1104325006220 putative substrate translocation pore; other site 1104325006221 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1104325006222 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1104325006223 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 1104325006224 core dimer interface [polypeptide binding]; other site 1104325006225 peripheral dimer interface [polypeptide binding]; other site 1104325006226 L10 interface [polypeptide binding]; other site 1104325006227 L11 interface [polypeptide binding]; other site 1104325006228 putative EF-Tu interaction site [polypeptide binding]; other site 1104325006229 putative EF-G interaction site [polypeptide binding]; other site 1104325006230 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 1104325006231 23S rRNA interface [nucleotide binding]; other site 1104325006232 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1104325006233 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 1104325006234 mRNA/rRNA interface [nucleotide binding]; other site 1104325006235 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1104325006236 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 1104325006237 23S rRNA interface [nucleotide binding]; other site 1104325006238 L7/L12 interface [polypeptide binding]; other site 1104325006239 putative thiostrepton binding site; other site 1104325006240 L25 interface [polypeptide binding]; other site 1104325006241 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1104325006242 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1104325006243 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1104325006244 putative L-serine binding site [chemical binding]; other site 1104325006245 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1104325006246 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1104325006247 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1104325006248 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 1104325006249 active site 1104325006250 teramer interface [polypeptide binding]; other site 1104325006251 FMN binding site [chemical binding]; other site 1104325006252 catalytic residues [active] 1104325006253 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 1104325006254 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104325006255 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1104325006256 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1104325006257 putative homodimer interface [polypeptide binding]; other site 1104325006258 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1104325006259 heterodimer interface [polypeptide binding]; other site 1104325006260 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1104325006261 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1104325006262 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 1104325006263 QueT transporter; Region: QueT; pfam06177 1104325006264 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1104325006265 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1104325006266 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104325006267 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104325006268 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104325006269 Walker A/P-loop; other site 1104325006270 ATP binding site [chemical binding]; other site 1104325006271 Q-loop/lid; other site 1104325006272 ABC transporter signature motif; other site 1104325006273 Walker B; other site 1104325006274 D-loop; other site 1104325006275 H-loop/switch region; other site 1104325006276 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1104325006277 Histidine kinase; Region: HisKA_3; pfam07730 1104325006278 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1104325006279 ATP binding site [chemical binding]; other site 1104325006280 Mg2+ binding site [ion binding]; other site 1104325006281 G-X-G motif; other site 1104325006282 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104325006283 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 1104325006284 active site 1104325006285 phosphorylation site [posttranslational modification] 1104325006286 intermolecular recognition site; other site 1104325006287 dimerization interface [polypeptide binding]; other site 1104325006288 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1104325006289 DNA binding residues [nucleotide binding] 1104325006290 dimerization interface [polypeptide binding]; other site 1104325006291 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1104325006292 AAA domain; Region: AAA_30; pfam13604 1104325006293 Family description; Region: UvrD_C_2; pfam13538 1104325006294 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 1104325006295 catalytic core [active] 1104325006296 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1104325006297 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1104325006298 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 1104325006299 S-adenosylmethionine binding site [chemical binding]; other site 1104325006300 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1104325006301 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1104325006302 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1104325006303 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1104325006304 Divalent cation transporter; Region: MgtE; pfam01769 1104325006305 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1104325006306 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104325006307 active site 1104325006308 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1104325006309 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1104325006310 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1104325006311 synthetase active site [active] 1104325006312 NTP binding site [chemical binding]; other site 1104325006313 metal binding site [ion binding]; metal-binding site 1104325006314 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1104325006315 putative active site [active] 1104325006316 putative metal binding residues [ion binding]; other site 1104325006317 signature motif; other site 1104325006318 putative triphosphate binding site [ion binding]; other site 1104325006319 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1104325006320 catalytic residues [active] 1104325006321 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1104325006322 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1104325006323 active site 1104325006324 Zn binding site [ion binding]; other site 1104325006325 Competence protein CoiA-like family; Region: CoiA; cl11541 1104325006326 Negative regulator of genetic competence (MecA); Region: MecA; pfam05389 1104325006327 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 1104325006328 ArsC family; Region: ArsC; pfam03960 1104325006329 putative catalytic residues [active] 1104325006330 thiol/disulfide switch; other site 1104325006331 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1104325006332 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 1104325006333 active site 1104325006334 motif I; other site 1104325006335 motif II; other site 1104325006336 SWIM zinc finger; Region: SWIM; pfam04434 1104325006337 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1104325006338 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1104325006339 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 1104325006340 ATP binding site [chemical binding]; other site 1104325006341 putative Mg++ binding site [ion binding]; other site 1104325006342 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 1104325006343 nucleotide binding region [chemical binding]; other site 1104325006344 ATP-binding site [chemical binding]; other site 1104325006345 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1104325006346 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1104325006347 Walker A/P-loop; other site 1104325006348 ATP binding site [chemical binding]; other site 1104325006349 Q-loop/lid; other site 1104325006350 ABC transporter signature motif; other site 1104325006351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325006352 ABC transporter signature motif; other site 1104325006353 Walker B; other site 1104325006354 D-loop; other site 1104325006355 H-loop/switch region; other site 1104325006356 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1104325006357 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1104325006358 active site 1104325006359 metal binding site [ion binding]; metal-binding site 1104325006360 DNA binding site [nucleotide binding] 1104325006361 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1104325006362 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1104325006363 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1104325006364 putative acyl-acceptor binding pocket; other site 1104325006365 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1104325006366 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 1104325006367 S-adenosylmethionine binding site [chemical binding]; other site 1104325006368 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1104325006369 catalytic site [active] 1104325006370 metal binding site [ion binding]; metal-binding site 1104325006371 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1104325006372 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 1104325006373 catalytic triad [active] 1104325006374 catalytic triad [active] 1104325006375 oxyanion hole [active] 1104325006376 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104325006377 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104325006378 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104325006379 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1104325006380 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1104325006381 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 1104325006382 dimer interface [polypeptide binding]; other site 1104325006383 anticodon binding site; other site 1104325006384 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 1104325006385 homodimer interface [polypeptide binding]; other site 1104325006386 motif 1; other site 1104325006387 active site 1104325006388 motif 2; other site 1104325006389 GAD domain; Region: GAD; pfam02938 1104325006390 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 1104325006391 motif 3; other site 1104325006392 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1104325006393 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 1104325006394 dimer interface [polypeptide binding]; other site 1104325006395 motif 1; other site 1104325006396 active site 1104325006397 motif 2; other site 1104325006398 motif 3; other site 1104325006399 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 1104325006400 anticodon binding site; other site 1104325006401 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 1104325006402 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104325006403 active site 1104325006404 catalytic tetrad [active] 1104325006405 Cytochrome P450; Region: p450; cl12078 1104325006406 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1104325006407 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 1104325006408 putative active site [active] 1104325006409 dimerization interface [polypeptide binding]; other site 1104325006410 putative tRNAtyr binding site [nucleotide binding]; other site 1104325006411 RNA methyltransferase, RsmE family; Region: TIGR00046 1104325006412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1104325006413 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1104325006414 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 1104325006415 S-adenosylmethionine binding site [chemical binding]; other site 1104325006416 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1104325006417 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1104325006418 active site 1104325006419 DNA binding site [nucleotide binding] 1104325006420 recombination factor protein RarA; Reviewed; Region: PRK13342 1104325006421 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 1104325006422 Walker A motif; other site 1104325006423 ATP binding site [chemical binding]; other site 1104325006424 Walker B motif; other site 1104325006425 arginine finger; other site 1104325006426 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1104325006427 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 1104325006428 Ligand Binding Site [chemical binding]; other site 1104325006429 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104325006430 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325006431 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325006432 ABC transporter; Region: ABC_tran_2; pfam12848 1104325006433 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325006434 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104325006435 propionate/acetate kinase; Provisional; Region: PRK12379 1104325006436 nucleotide binding site [chemical binding]; other site 1104325006437 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1104325006438 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 1104325006439 S-adenosylmethionine binding site [chemical binding]; other site 1104325006440 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1104325006441 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1104325006442 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1104325006443 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1104325006444 Type II/IV secretion system protein; Region: T2SE; pfam00437 1104325006445 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 1104325006446 Walker A motif; other site 1104325006447 ATP binding site [chemical binding]; other site 1104325006448 Walker B motif; other site 1104325006449 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1104325006450 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 1104325006451 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1104325006452 active site 1104325006453 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1104325006454 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 1104325006455 S-adenosylmethionine binding site [chemical binding]; other site 1104325006456 Phosphotransferase enzyme family; Region: APH; pfam01636 1104325006457 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1104325006458 active site 1104325006459 substrate binding site [chemical binding]; other site 1104325006460 ATP binding site [chemical binding]; other site 1104325006461 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 1104325006462 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104325006463 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1104325006464 Walker A/P-loop; other site 1104325006465 ATP binding site [chemical binding]; other site 1104325006466 Q-loop/lid; other site 1104325006467 ABC transporter signature motif; other site 1104325006468 Walker B; other site 1104325006469 D-loop; other site 1104325006470 H-loop/switch region; other site 1104325006471 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 1104325006472 HIT family signature motif; other site 1104325006473 catalytic residue [active] 1104325006474 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1104325006475 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 1104325006476 generic binding surface II; other site 1104325006477 generic binding surface I; other site 1104325006478 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1104325006479 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104325006480 Zn2+ binding site [ion binding]; other site 1104325006481 Mg2+ binding site [ion binding]; other site 1104325006482 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325006483 Walker A/P-loop; other site 1104325006484 ATP binding site [chemical binding]; other site 1104325006485 Dot/Icm secretion system protein (dot_icm_IcmQ); Region: Dot_icm_IcmQ; cl09711 1104325006486 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1104325006487 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1104325006488 active site 1104325006489 metal binding site [ion binding]; metal-binding site 1104325006490 DNA binding site [nucleotide binding] 1104325006491 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1104325006492 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 1104325006493 active site 1104325006494 motif I; other site 1104325006495 motif II; other site 1104325006496 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104325006497 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1104325006498 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1104325006499 MFS/sugar transport protein; Region: MFS_2; pfam13347 1104325006500 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1104325006501 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1104325006502 inhibitor binding site; inhibition site 1104325006503 active site 1104325006504 putative pectinesterase; Region: PLN02432; cl01911 1104325006505 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104325006506 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 1104325006507 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1104325006508 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 1104325006509 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104325006510 Predicted integral membrane protein [Function unknown]; Region: COG5578 1104325006511 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1104325006512 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 1104325006513 dimer interface [polypeptide binding]; other site 1104325006514 conserved gate region; other site 1104325006515 ABC-ATPase subunit interface; other site 1104325006516 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104325006517 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 1104325006518 dimer interface [polypeptide binding]; other site 1104325006519 conserved gate region; other site 1104325006520 putative PBP binding loops; other site 1104325006521 ABC-ATPase subunit interface; other site 1104325006522 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1104325006523 metal binding site [ion binding]; metal-binding site 1104325006524 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104325006525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104325006526 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325006527 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325006528 DNA binding site [nucleotide binding] 1104325006529 domain linker motif; other site 1104325006530 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1104325006531 dimerization interface [polypeptide binding]; other site 1104325006532 ligand binding site [chemical binding]; other site 1104325006533 altronate oxidoreductase; Provisional; Region: PRK03643 1104325006534 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1104325006535 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1104325006536 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1104325006537 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1104325006538 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1104325006539 Glucuronate isomerase; Region: UxaC; pfam02614 1104325006540 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 1104325006541 active site 1104325006542 catalytic triad [active] 1104325006543 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1104325006544 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1104325006545 Metal-binding active site; metal-binding site 1104325006546 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104325006547 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104325006548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325006549 Walker A/P-loop; other site 1104325006550 ATP binding site [chemical binding]; other site 1104325006551 Q-loop/lid; other site 1104325006552 ABC transporter signature motif; other site 1104325006553 Walker B; other site 1104325006554 D-loop; other site 1104325006555 H-loop/switch region; other site 1104325006556 hypothetical protein; Provisional; Region: PRK13676 1104325006557 Transglycosylase; Region: Transgly; pfam00912 1104325006558 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1104325006559 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104325006560 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1104325006561 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104325006562 active site 1104325006563 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1104325006564 ROK family; Region: ROK; pfam00480 1104325006565 nucleotide binding site [chemical binding]; other site 1104325006566 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1104325006567 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 1104325006568 active site 1104325006569 metal binding site [ion binding]; metal-binding site 1104325006570 homodimer interface [polypeptide binding]; other site 1104325006571 catalytic site [active] 1104325006572 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1104325006573 Uncharacterized conserved protein [Function unknown]; Region: COG3538 1104325006574 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 1104325006575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104325006576 DNA-binding site [nucleotide binding]; DNA binding site 1104325006577 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325006578 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1104325006579 ligand binding site [chemical binding]; other site 1104325006580 dimerization interface [polypeptide binding]; other site 1104325006581 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1104325006582 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1104325006583 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1104325006584 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 1104325006585 active site 1104325006586 phosphorylation site [posttranslational modification] 1104325006587 intermolecular recognition site; other site 1104325006588 dimerization interface [polypeptide binding]; other site 1104325006589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104325006590 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104325006591 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1104325006592 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1104325006593 dimerization interface [polypeptide binding]; other site 1104325006594 Histidine kinase; Region: His_kinase; pfam06580 1104325006595 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 1104325006596 ATP binding site [chemical binding]; other site 1104325006597 Mg2+ binding site [ion binding]; other site 1104325006598 G-X-G motif; other site 1104325006599 Protein of unknown function, DUF624; Region: DUF624; cl02369 1104325006600 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104325006601 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104325006602 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 1104325006603 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104325006604 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 1104325006605 dimer interface [polypeptide binding]; other site 1104325006606 conserved gate region; other site 1104325006607 putative PBP binding loops; other site 1104325006608 ABC-ATPase subunit interface; other site 1104325006609 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1104325006610 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 1104325006611 dimer interface [polypeptide binding]; other site 1104325006612 conserved gate region; other site 1104325006613 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; cl00427 1104325006614 ABC-ATPase subunit interface; other site 1104325006615 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1104325006616 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 1104325006617 RNA binding surface [nucleotide binding]; other site 1104325006618 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1104325006619 active site 1104325006620 uracil binding [chemical binding]; other site 1104325006621 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1104325006622 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1104325006623 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104325006624 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 1104325006625 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104325006626 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104325006627 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104325006628 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104325006629 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1104325006630 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1104325006631 methionine cluster; other site 1104325006632 active site 1104325006633 phosphorylation site [posttranslational modification] 1104325006634 metal binding site [ion binding]; metal-binding site 1104325006635 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104325006636 HTH domain; Region: HTH_11; pfam08279 1104325006637 Mga helix-turn-helix domain; Region: Mga; pfam05043 1104325006638 PRD domain; Region: PRD; pfam00874 1104325006639 PRD domain; Region: PRD; pfam00874 1104325006640 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1104325006641 active site 1104325006642 P-loop; other site 1104325006643 phosphorylation site [posttranslational modification] 1104325006644 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; cl00163 1104325006645 active site 1104325006646 phosphorylation site [posttranslational modification] 1104325006647 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 1104325006648 active site 1104325006649 P-loop; other site 1104325006650 phosphorylation site [posttranslational modification] 1104325006651 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1104325006652 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1104325006653 Cna protein B-type domain; Region: Cna_B; pfam05738 1104325006654 Cna protein B-type domain; Region: Cna_B; pfam05738 1104325006655 Cna protein B-type domain; Region: Cna_B; pfam05738 1104325006656 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1104325006657 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104325006658 DNA binding residues [nucleotide binding] 1104325006659 BNR repeat-like domain; Region: BNR_2; pfam13088 1104325006660 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1104325006661 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1104325006662 HIGH motif; other site 1104325006663 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1104325006664 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104325006665 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1104325006666 active site 1104325006667 KMSKS motif; other site 1104325006668 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1104325006669 tRNA binding surface [nucleotide binding]; other site 1104325006670 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1104325006671 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325006672 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325006673 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325006674 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325006675 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1104325006676 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325006677 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104325006678 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1104325006679 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 1104325006680 active site 1104325006681 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1104325006682 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 1104325006683 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1104325006684 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104325006685 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1104325006686 Putative esterase; Region: Esterase; pfam00756 1104325006687 S-formylglutathione hydrolase; Region: PLN02442 1104325006688 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 1104325006689 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104325006690 putative substrate translocation pore; other site 1104325006691 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 1104325006692 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1104325006693 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1104325006694 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1104325006695 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1104325006696 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1104325006697 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1104325006698 dimer interface [polypeptide binding]; other site 1104325006699 putative anticodon binding site; other site 1104325006700 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1104325006701 motif 1; other site 1104325006702 active site 1104325006703 motif 2; other site 1104325006704 motif 3; other site 1104325006705 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1104325006706 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 1104325006707 FMN binding site [chemical binding]; other site 1104325006708 active site 1104325006709 catalytic residues [active] 1104325006710 substrate binding site [chemical binding]; other site 1104325006711 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1104325006712 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 1104325006713 dimerization interface [polypeptide binding]; other site 1104325006714 domain crossover interface; other site 1104325006715 redox-dependent activation switch; other site 1104325006716 FtsH Extracellular; Region: FtsH_ext; pfam06480 1104325006717 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1104325006718 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 1104325006719 Walker A motif; other site 1104325006720 ATP binding site [chemical binding]; other site 1104325006721 Walker B motif; other site 1104325006722 arginine finger; other site 1104325006723 Peptidase family M41; Region: Peptidase_M41; pfam01434 1104325006724 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325006725 active site 1104325006726 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1104325006727 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 1104325006728 Ligand Binding Site [chemical binding]; other site 1104325006729 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1104325006730 hypothetical protein; Provisional; Region: PRK08582 1104325006731 S1_RPS1_repeat_hs4: 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_hs4; cd05692 1104325006732 RNA binding site [nucleotide binding]; other site 1104325006733 Septum formation initiator; Region: DivIC; pfam04977 1104325006734 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1104325006735 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 1104325006736 RNA binding surface [nucleotide binding]; other site 1104325006737 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1104325006738 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1104325006739 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 1104325006740 ATP binding site [chemical binding]; other site 1104325006741 putative Mg++ binding site [ion binding]; other site 1104325006742 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 1104325006743 nucleotide binding region [chemical binding]; other site 1104325006744 ATP-binding site [chemical binding]; other site 1104325006745 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1104325006746 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 1104325006747 putative active site [active] 1104325006748 catalytic residue [active] 1104325006749 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1104325006750 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1104325006751 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104325006752 NAD binding site [chemical binding]; other site 1104325006753 dimer interface [polypeptide binding]; other site 1104325006754 substrate binding site [chemical binding]; other site 1104325006755 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1104325006756 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1104325006757 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104325006758 hypothetical protein; Validated; Region: PRK00110 1104325006759 Predicted integral membrane protein [Function unknown]; Region: COG5652 1104325006760 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1104325006761 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 1104325006762 active site 1104325006763 Zn binding site [ion binding]; other site 1104325006764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1104325006765 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104325006766 NlpC/P60 family; Region: NLPC_P60; pfam00877 1104325006767 rod shape-determining protein MreD; Region: MreD; pfam04093 1104325006768 rod shape-determining protein MreC; Provisional; Region: PRK13922 1104325006769 rod shape-determining protein MreC; Region: MreC; pfam04085 1104325006770 Thiamine pyrophosphokinase; Region: TPK; cd07995 1104325006771 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1104325006772 active site 1104325006773 dimerization interface [polypeptide binding]; other site 1104325006774 thiamine binding site [chemical binding]; other site 1104325006775 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1104325006776 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 1104325006777 substrate binding site [chemical binding]; other site 1104325006778 hexamer interface [polypeptide binding]; other site 1104325006779 metal binding site [ion binding]; metal-binding site 1104325006780 GTPase RsgA; Reviewed; Region: PRK00098 1104325006781 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 1104325006782 RNA binding site [nucleotide binding]; other site 1104325006783 homodimer interface [polypeptide binding]; other site 1104325006784 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1104325006785 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1104325006786 GTP/Mg2+ binding site [chemical binding]; other site 1104325006787 G4 box; other site 1104325006788 G5 box; other site 1104325006789 G1 box; other site 1104325006790 Switch I region; other site 1104325006791 G2 box; other site 1104325006792 G3 box; other site 1104325006793 Switch II region; other site 1104325006794 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1104325006795 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1104325006796 active site 1104325006797 ATP binding site [chemical binding]; other site 1104325006798 substrate binding site [chemical binding]; other site 1104325006799 activation loop (A-loop); other site 1104325006800 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1104325006801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1104325006802 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 1104325006803 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 1104325006804 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 1104325006805 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 1104325006806 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 1104325006807 active site 1104325006808 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1104325006809 NusB family; Region: NusB; pfam01029 1104325006810 putative RNA binding site [nucleotide binding]; other site 1104325006811 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 1104325006812 S-adenosylmethionine binding site [chemical binding]; other site 1104325006813 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1104325006814 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1104325006815 putative active site [active] 1104325006816 substrate binding site [chemical binding]; other site 1104325006817 putative cosubstrate binding site; other site 1104325006818 catalytic site [active] 1104325006819 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1104325006820 substrate binding site [chemical binding]; other site 1104325006821 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 1104325006822 active site 1104325006823 catalytic residues [active] 1104325006824 metal binding site [ion binding]; metal-binding site 1104325006825 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1104325006826 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 1104325006827 ATP binding site [chemical binding]; other site 1104325006828 putative Mg++ binding site [ion binding]; other site 1104325006829 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 1104325006830 nucleotide binding region [chemical binding]; other site 1104325006831 ATP-binding site [chemical binding]; other site 1104325006832 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1104325006833 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1104325006834 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 1104325006835 catalytic site [active] 1104325006836 G-X2-G-X-G-K; other site 1104325006837 hypothetical protein; Provisional; Region: PRK11820 1104325006838 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1104325006839 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1104325006840 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 1104325006841 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1104325006842 active site 1104325006843 nucleophile elbow; other site 1104325006844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1104325006845 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1104325006846 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 1104325006847 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1104325006848 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1104325006849 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325006850 active site 1104325006851 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1104325006852 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1104325006853 Substrate binding site; other site 1104325006854 Mg++ binding site; other site 1104325006855 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 1104325006856 active site 1104325006857 substrate binding site [chemical binding]; other site 1104325006858 CoA binding site [chemical binding]; other site 1104325006859 pur operon repressor; Provisional; Region: PRK09213 1104325006860 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1104325006861 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104325006862 active site 1104325006863 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1104325006864 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1104325006865 ABC-ATPase subunit interface; other site 1104325006866 dimer interface [polypeptide binding]; other site 1104325006867 putative PBP binding regions; other site 1104325006868 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104325006869 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1104325006870 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1104325006871 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1104325006872 metal binding site [ion binding]; metal-binding site 1104325006873 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1104325006874 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1104325006875 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1104325006876 Predicted integral membrane protein [Function unknown]; Region: COG0392 1104325006877 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1104325006878 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1104325006879 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1104325006880 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1104325006881 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 1104325006882 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 1104325006883 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1104325006884 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104325006885 Zn2+ binding site [ion binding]; other site 1104325006886 Mg2+ binding site [ion binding]; other site 1104325006887 recombinase A; Provisional; Region: recA; PRK09354 1104325006888 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 1104325006889 hexamer interface [polypeptide binding]; other site 1104325006890 Walker A motif; other site 1104325006891 ATP binding site [chemical binding]; other site 1104325006892 Walker B motif; other site 1104325006893 competence damage-inducible protein A; Provisional; Region: PRK00549 1104325006894 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1104325006895 putative MPT binding site; other site 1104325006896 Y-family of DNA polymerases; Region: PolY; cl12025 1104325006897 Competence-damaged protein; Region: CinA; pfam02464 1104325006898 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1104325006899 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1104325006900 Helix-turn-helix domain; Region: HTH_25; pfam13413 1104325006901 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104325006902 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1104325006903 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104325006904 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104325006905 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104325006906 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1104325006907 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1104325006908 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1104325006909 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 1104325006910 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1104325006911 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104325006912 YacP-like NYN domain; Region: NYN_YacP; pfam05991 1104325006913 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1104325006914 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1104325006915 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104325006916 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 1104325006917 active site 1104325006918 metal binding site [ion binding]; metal-binding site 1104325006919 dimerization interface [polypeptide binding]; other site 1104325006920 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1104325006921 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1104325006922 active site 1104325006923 HIGH motif; other site 1104325006924 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1104325006925 KMSKS motif; other site 1104325006926 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1104325006927 tRNA binding surface [nucleotide binding]; other site 1104325006928 anticodon binding site; other site 1104325006929 serine O-acetyltransferase; Region: cysE; TIGR01172 1104325006930 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 1104325006931 trimer interface [polypeptide binding]; other site 1104325006932 active site 1104325006933 substrate binding site [chemical binding]; other site 1104325006934 CoA binding site [chemical binding]; other site 1104325006935 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1104325006936 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1104325006937 HIGH motif; other site 1104325006938 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1104325006939 active site 1104325006940 KMSKS motif; other site 1104325006941 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1104325006942 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1104325006943 putative active site [active] 1104325006944 DNA repair protein RadA; Provisional; Region: PRK11823 1104325006945 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 1104325006946 Walker A motif/ATP binding site; other site 1104325006947 ATP binding site [chemical binding]; other site 1104325006948 Walker B motif; other site 1104325006949 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1104325006950 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1104325006951 trimer interface [polypeptide binding]; other site 1104325006952 active site 1104325006953 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 1104325006954 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 1104325006955 nucleotide binding site [chemical binding]; other site 1104325006956 homotetrameric interface [polypeptide binding]; other site 1104325006957 putative phosphate binding site [ion binding]; other site 1104325006958 putative allosteric binding site; other site 1104325006959 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1104325006960 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1104325006961 putative catalytic cysteine [active] 1104325006962 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 1104325006963 putative substrate translocation pore; other site 1104325006964 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1104325006965 Predicted transcriptional regulators [Transcription]; Region: COG1695 1104325006966 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1104325006967 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1104325006968 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325006969 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104325006970 ABC transporter; Region: ABC_tran_2; pfam12848 1104325006971 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104325006972 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1104325006973 dimer interface [polypeptide binding]; other site 1104325006974 FMN binding site [chemical binding]; other site 1104325006975 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104325006976 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 1104325006977 putative DNA binding site [nucleotide binding]; other site 1104325006978 putative Zn2+ binding site [ion binding]; other site 1104325006979 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1104325006980 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1104325006981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104325006982 NAD(P) binding site [chemical binding]; other site 1104325006983 active site 1104325006984 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 1104325006985 trimer interface [polypeptide binding]; other site 1104325006986 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1104325006987 active site 1104325006988 substrate binding site [chemical binding]; other site 1104325006989 CoA binding site [chemical binding]; other site 1104325006990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104325006991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104325006992 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 1104325006993 dimerization interface [polypeptide binding]; other site 1104325006994 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1104325006995 CAT RNA binding domain; Region: CAT_RBD; smart01061 1104325006996 PRD domain; Region: PRD; pfam00874 1104325006997 PRD domain; Region: PRD; pfam00874 1104325006998 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1104325006999 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104325007000 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104325007001 active site turn [active] 1104325007002 phosphorylation site [posttranslational modification] 1104325007003 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104325007004 HPr interaction site; other site 1104325007005 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104325007006 active site 1104325007007 phosphorylation site [posttranslational modification] 1104325007008 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1104325007009 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1104325007010 NADP binding site [chemical binding]; other site 1104325007011 Predicted transcriptional regulator [Transcription]; Region: COG1959 1104325007012 Transcriptional regulator; Region: Rrf2; pfam02082 1104325007013 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1104325007014 Helix-turn-helix domain; Region: HTH_18; pfam12833 1104325007015 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1104325007016 Uncharacterized conserved protein [Function unknown]; Region: COG4715 1104325007017 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1104325007018 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1104325007019 Predicted membrane protein [Function unknown]; Region: COG4392 1104325007020 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1104325007021 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1104325007022 putative NAD(P) binding site [chemical binding]; other site 1104325007023 dimer interface [polypeptide binding]; other site 1104325007024 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1104325007025 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 1104325007026 FMN binding site [chemical binding]; other site 1104325007027 active site 1104325007028 catalytic residues [active] 1104325007029 substrate binding site [chemical binding]; other site 1104325007030 inner membrane transport permease; Provisional; Region: PRK15066 1104325007031 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104325007032 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104325007033 Walker A/P-loop; other site 1104325007034 ATP binding site [chemical binding]; other site 1104325007035 Q-loop/lid; other site 1104325007036 ABC transporter signature motif; other site 1104325007037 Walker B; other site 1104325007038 D-loop; other site 1104325007039 H-loop/switch region; other site 1104325007040 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325007041 Walker A/P-loop; other site 1104325007042 ATP binding site [chemical binding]; other site 1104325007043 Q-loop/lid; other site 1104325007044 ABC transporter signature motif; other site 1104325007045 Walker B; other site 1104325007046 D-loop; other site 1104325007047 H-loop/switch region; other site 1104325007048 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325007049 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 1104325007050 dimer interface [polypeptide binding]; other site 1104325007051 phosphorylation site [posttranslational modification] 1104325007052 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 1104325007053 ATP binding site [chemical binding]; other site 1104325007054 Mg2+ binding site [ion binding]; other site 1104325007055 G-X-G motif; other site 1104325007056 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325007057 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 1104325007058 active site 1104325007059 phosphorylation site [posttranslational modification] 1104325007060 intermolecular recognition site; other site 1104325007061 dimerization interface [polypeptide binding]; other site 1104325007062 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 1104325007063 DNA binding site [nucleotide binding] 1104325007064 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1104325007065 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104325007066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325007067 Walker A/P-loop; other site 1104325007068 ATP binding site [chemical binding]; other site 1104325007069 Q-loop/lid; other site 1104325007070 ABC transporter signature motif; other site 1104325007071 Walker B; other site 1104325007072 D-loop; other site 1104325007073 H-loop/switch region; other site 1104325007074 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1104325007075 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 1104325007076 23S rRNA interface [nucleotide binding]; other site 1104325007077 L3 interface [polypeptide binding]; other site 1104325007078 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1104325007079 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1104325007080 dimerization interface [polypeptide binding]; other site 1104325007081 DPS ferroxidase diiron center [ion binding]; other site 1104325007082 ion pore; other site 1104325007083 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1104325007084 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1104325007085 N- and C-terminal domain interface [polypeptide binding]; other site 1104325007086 active site 1104325007087 catalytic site [active] 1104325007088 metal binding site [ion binding]; metal-binding site 1104325007089 carbohydrate binding site [chemical binding]; other site 1104325007090 ATP binding site [chemical binding]; other site 1104325007091 hypothetical protein; Region: PHA00727 1104325007092 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1104325007093 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1104325007094 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1104325007095 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1104325007096 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 1104325007097 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1104325007098 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1104325007099 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1104325007100 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1104325007101 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1104325007102 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1104325007103 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104325007104 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 1104325007105 dimer interface [polypeptide binding]; other site 1104325007106 conserved gate region; other site 1104325007107 putative PBP binding loops; other site 1104325007108 ABC-ATPase subunit interface; other site 1104325007109 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 1104325007110 dimer interface [polypeptide binding]; other site 1104325007111 conserved gate region; other site 1104325007112 putative PBP binding loops; other site 1104325007113 ABC-ATPase subunit interface; other site 1104325007114 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104325007115 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104325007116 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 1104325007117 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 1104325007118 active site 1104325007119 homodimer interface [polypeptide binding]; other site 1104325007120 catalytic site [active] 1104325007121 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1104325007122 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104325007123 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104325007124 DNA binding site [nucleotide binding] 1104325007125 domain linker motif; other site 1104325007126 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 1104325007127 putative dimerization interface [polypeptide binding]; other site 1104325007128 putative ligand binding site [chemical binding]; other site 1104325007129 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1104325007130 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1104325007131 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1104325007132 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1104325007133 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1104325007134 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1104325007135 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1104325007136 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1104325007137 DNA binding site [nucleotide binding] 1104325007138 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1104325007139 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 1104325007140 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1104325007141 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1104325007142 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 1104325007143 RPB1 interaction site [polypeptide binding]; other site 1104325007144 RPB10 interaction site [polypeptide binding]; other site 1104325007145 RPB11 interaction site [polypeptide binding]; other site 1104325007146 RPB3 interaction site [polypeptide binding]; other site 1104325007147 RPB12 interaction site [polypeptide binding]; other site 1104325007148 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 1104325007149 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104325007150 zinc binding site [ion binding]; other site 1104325007151 putative ligand binding site [chemical binding]; other site 1104325007152 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104325007153 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1104325007154 TM-ABC transporter signature motif; other site 1104325007155 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1104325007156 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104325007157 Walker A/P-loop; other site 1104325007158 ATP binding site [chemical binding]; other site 1104325007159 Q-loop/lid; other site 1104325007160 ABC transporter signature motif; other site 1104325007161 Walker B; other site 1104325007162 D-loop; other site 1104325007163 H-loop/switch region; other site 1104325007164 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1104325007165 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1104325007166 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1104325007167 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1104325007168 DinB superfamily; Region: DinB_2; pfam12867 1104325007169 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 1104325007170 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1104325007171 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 1104325007172 trimer interface [polypeptide binding]; other site 1104325007173 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1104325007174 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325007175 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 1104325007176 FMN-binding domain; Region: FMN_bind; pfam04205 1104325007177 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1104325007178 ApbE family; Region: ApbE; pfam02424 1104325007179 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK13387 1104325007180 UbiA prenyltransferase family; Region: UbiA; pfam01040 1104325007181 glutathione reductase; Validated; Region: PRK06116 1104325007182 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104325007183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104325007184 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104325007185 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1104325007186 Peptidase family U32; Region: Peptidase_U32; pfam01136 1104325007187 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1104325007188 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 1104325007189 Peptidase family U32; Region: Peptidase_U32; pfam01136 1104325007190 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1104325007191 Clp amino terminal domain; Region: Clp_N; pfam02861 1104325007192 Clp amino terminal domain; Region: Clp_N; pfam02861 1104325007193 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 1104325007194 Walker A motif; other site 1104325007195 ATP binding site [chemical binding]; other site 1104325007196 Walker B motif; other site 1104325007197 arginine finger; other site 1104325007198 UvrB/uvrC motif; Region: UVR; pfam02151 1104325007199 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 1104325007200 Walker A motif; other site 1104325007201 ATP binding site [chemical binding]; other site 1104325007202 Walker B motif; other site 1104325007203 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104325007204 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1104325007205 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325007206 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 1104325007207 active site 1104325007208 phosphorylation site [posttranslational modification] 1104325007209 intermolecular recognition site; other site 1104325007210 dimerization interface [polypeptide binding]; other site 1104325007211 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 1104325007212 DNA binding site [nucleotide binding] 1104325007213 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325007214 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 1104325007215 dimer interface [polypeptide binding]; other site 1104325007216 phosphorylation site [posttranslational modification] 1104325007217 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 1104325007218 ATP binding site [chemical binding]; other site 1104325007219 Mg2+ binding site [ion binding]; other site 1104325007220 G-X-G motif; other site 1104325007221 seryl-tRNA synthetase; Provisional; Region: PRK05431 1104325007222 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1104325007223 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 1104325007224 dimer interface [polypeptide binding]; other site 1104325007225 active site 1104325007226 motif 1; other site 1104325007227 motif 2; other site 1104325007228 motif 3; other site 1104325007229 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1104325007230 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 1104325007231 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1104325007232 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 1104325007233 active site 1104325007234 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 1104325007235 GTP-binding protein YchF; Reviewed; Region: PRK09601 1104325007236 YchF GTPase; Region: YchF; cd01900 1104325007237 G1 box; other site 1104325007238 GTP/Mg2+ binding site [chemical binding]; other site 1104325007239 Switch I region; other site 1104325007240 G2 box; other site 1104325007241 Switch II region; other site 1104325007242 G3 box; other site 1104325007243 G4 box; other site 1104325007244 G5 box; other site 1104325007245 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 1104325007246 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1104325007247 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1104325007248 ParB-like nuclease domain; Region: ParBc; pfam02195 1104325007249 KorB domain; Region: KorB; pfam08535 1104325007250 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1104325007251 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104325007252 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 1104325007253 Magnesium ion binding site [ion binding]; other site 1104325007254 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104325007255 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1104325007256 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1104325007257 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1104325007258 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1104325007259 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1104325007260 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1104325007261 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1104325007262 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1104325007263 G1 box; other site 1104325007264 GTP/Mg2+ binding site [chemical binding]; other site 1104325007265 Switch I region; other site 1104325007266 G2 box; other site 1104325007267 Switch II region; other site 1104325007268 G3 box; other site 1104325007269 G4 box; other site 1104325007270 G5 box; other site 1104325007271 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1104325007272 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 1104325007273 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1104325007274 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1104325007275 G-X-X-G motif; other site 1104325007276 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1104325007277 RxxxH motif; other site 1104325007278 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1104325007279 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1104325007280 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1104325007281 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1104325007282 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1104325007283 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 1104325007284 ATP binding site [chemical binding]; other site 1104325007285 G-X-G motif; other site 1104325007286 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1104325007287 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1104325007288 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1104325007289 Short C-terminal domain; Region: SHOCT; pfam09851 1104325007290 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104325007291 MULE transposase domain; Region: MULE; pfam10551 1104325007292 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1104325007293 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1104325007294 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1104325007295 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1104325007296 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104325007297 HAMP domain; Region: HAMP; pfam00672 1104325007298 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 1104325007299 dimer interface [polypeptide binding]; other site 1104325007300 phosphorylation site [posttranslational modification] 1104325007301 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 1104325007302 ATP binding site [chemical binding]; other site 1104325007303 Mg2+ binding site [ion binding]; other site 1104325007304 G-X-G motif; other site 1104325007305 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104325007306 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 1104325007307 active site 1104325007308 phosphorylation site [posttranslational modification] 1104325007309 intermolecular recognition site; other site 1104325007310 dimerization interface [polypeptide binding]; other site 1104325007311 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 1104325007312 DNA binding site [nucleotide binding] 1104325007313 multicopper oxidase; Provisional; Region: PRK10965 1104325007314 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1104325007315 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1104325007316 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1104325007317 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 1104325007318 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1104325007319 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 1104325007320 trimer interface [polypeptide binding]; other site 1104325007321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1104325007322 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1104325007323 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104325007324 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 1104325007325 active site 1104325007326 DNA binding site [nucleotide binding] 1104325007327 Int/Topo IB signature motif; other site 1104325007328 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 1104325007329 Cadmium resistance transporter; Region: Cad; pfam03596 1104325007330 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 1104325007331 dimerization interface [polypeptide binding]; other site 1104325007332 putative DNA binding site [nucleotide binding]; other site 1104325007333 putative Zn2+ binding site [ion binding]; other site 1104325007334 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 1104325007335 metal-binding site [ion binding] 1104325007336 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1104325007337 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104325007338 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 1104325007339 ligand binding site [chemical binding]; other site 1104325007340 flexible hinge region; other site 1104325007341 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 1104325007342 putative switch regulator; other site 1104325007343 non-specific DNA interactions [nucleotide binding]; other site 1104325007344 DNA binding site [nucleotide binding] 1104325007345 sequence specific DNA binding site [nucleotide binding]; other site 1104325007346 putative cAMP binding site [chemical binding]; other site 1104325007347 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1104325007348 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1104325007349 dimerization interface [polypeptide binding]; other site 1104325007350 DPS ferroxidase diiron center [ion binding]; other site 1104325007351 ion pore; other site 1104325007352 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 1104325007353 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104325007354 active site 1104325007355 motif I; other site 1104325007356 motif II; other site 1104325007357 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 1104325007358 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104325007359 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325007360 Coenzyme A binding pocket [chemical binding]; other site 1104325007361 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 1104325007362 OsmC-like protein; Region: OsmC; pfam02566 1104325007363 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104325007364 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104325007365 Walker A/P-loop; other site 1104325007366 ATP binding site [chemical binding]; other site 1104325007367 Q-loop/lid; other site 1104325007368 ABC transporter signature motif; other site 1104325007369 Walker B; other site 1104325007370 D-loop; other site 1104325007371 H-loop/switch region; other site 1104325007372 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104325007373 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104325007374 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104325007375 ABC transporter signature motif; other site 1104325007376 Walker B; other site 1104325007377 D-loop; other site 1104325007378 H-loop/switch region; other site 1104325007379 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104325007380 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104325007381 Integrase core domain; Region: rve; pfam00665 1104325007382 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1104325007383 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08115 1104325007384 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1104325007385 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1104325007386 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1104325007387 active site 1104325007388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104325007389 Integrase core domain; Region: rve; pfam00665 1104325007390 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1104325007391 Helix-turn-helix domain; Region: HTH_38; pfam13936 1104325007392 Integrase core domain; Region: rve; pfam00665 1104325007393 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104325007394 Integrase core domain; Region: rve; pfam00665 1104325007395 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1104325007396 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1104325007397 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1104325007398 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 1104325007399 active site 1104325007400 catalytic site [active] 1104325007401 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1104325007402 Cna protein B-type domain; Region: Cna_B; pfam05738 1104325007403 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1104325007404 active site 1104325007405 catalytic site [active] 1104325007406 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1104325007407 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1104325007408 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 1104325007409 Walker A motif; other site 1104325007410 ATP binding site [chemical binding]; other site 1104325007411 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1104325007412 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1104325007413 AAA-like domain; Region: AAA_10; pfam12846 1104325007414 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1104325007415 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104325007416 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1104325007417 ATP synthase CF1 alpha subunit; Region: atpA; CHL00059 1104325007418 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1104325007419 Toprim-like; Region: Toprim_2; pfam13155 1104325007420 DNA topoisomerase III; Provisional; Region: PRK07726 1104325007421 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 1104325007422 active site 1104325007423 putative interdomain interaction site [polypeptide binding]; other site 1104325007424 putative metal-binding site [ion binding]; other site 1104325007425 putative nucleotide binding site [chemical binding]; other site 1104325007426 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 1104325007427 domain I; other site 1104325007428 DNA binding groove [nucleotide binding] 1104325007429 phosphate binding site [ion binding]; other site 1104325007430 domain II; other site 1104325007431 domain III; other site 1104325007432 nucleotide binding site [chemical binding]; other site 1104325007433 catalytic site [active] 1104325007434 domain IV; other site 1104325007435 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1104325007436 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1104325007437 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1104325007438 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1104325007439 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 1104325007440 dimer interface [polypeptide binding]; other site 1104325007441 ssDNA binding site [nucleotide binding]; other site 1104325007442 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104325007443 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 1104325007444 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1104325007445 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1104325007446 Cl binding site [ion binding]; other site 1104325007447 oligomer interface [polypeptide binding]; other site 1104325007448 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 1104325007449 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1104325007450 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104325007451 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1104325007452 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104325007453 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 1104325007454 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 1104325007455 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1104325007456 methionine cluster; other site 1104325007457 active site 1104325007458 phosphorylation site [posttranslational modification] 1104325007459 metal binding site [ion binding]; metal-binding site 1104325007460 phosphotransferase system, lactose specific, IIC component; Region: lac_pts_IIC; TIGR00394 1104325007461 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1104325007462 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 1104325007463 active site 1104325007464 P-loop; other site 1104325007465 phosphorylation site [posttranslational modification] 1104325007466 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1104325007467 beta-galactosidase; Region: BGL; TIGR03356 1104325007468 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1104325007469 active site 1104325007470 catalytic residues [active] 1104325007471 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104325007472 active site 1104325007473 catalytic site [active] 1104325007474 substrate binding site [chemical binding]; other site 1104325007475 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 1104325007476 Catalytic site [active] 1104325007477 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 1104325007478 non-specific DNA binding site [nucleotide binding]; other site 1104325007479 salt bridge; other site 1104325007480 sequence-specific DNA binding site [nucleotide binding]; other site 1104325007481 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 1104325007482 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1104325007483 Walker A motif; other site 1104325007484 ATP binding site [chemical binding]; other site 1104325007485 Walker B motif; other site 1104325007486 arginine finger; other site 1104325007487 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 1104325007488 Walker A motif; other site 1104325007489 ATP binding site [chemical binding]; other site 1104325007490 Walker B motif; other site 1104325007491 arginine finger; other site 1104325007492 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1104325007493 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104325007494 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 1104325007495 active site 1104325007496 putative metal-binding site [ion binding]; other site 1104325007497 interdomain interaction site; other site 1104325007498 nucleotide binding site [chemical binding]; other site 1104325007499 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 1104325007500 DNA topoisomerase; Region: Topoisom_bac; pfam01131 1104325007501 domain I; other site 1104325007502 DNA binding groove [nucleotide binding] 1104325007503 phosphate binding site [ion binding]; other site 1104325007504 domain II; other site 1104325007505 domain III; other site 1104325007506 nucleotide binding site [chemical binding]; other site 1104325007507 catalytic site [active] 1104325007508 domain IV; other site 1104325007509 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1104325007510 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1104325007511 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1104325007512 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 1104325007513 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104325007514 Walker A/P-loop; other site 1104325007515 ATP binding site [chemical binding]; other site 1104325007516 Q-loop/lid; other site 1104325007517 ABC transporter signature motif; other site 1104325007518 Walker B; other site 1104325007519 D-loop; other site 1104325007520 H-loop/switch region; other site 1104325007521 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1104325007522 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 1104325007523 catalytic residues [active] 1104325007524 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104325007525 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104325007526 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104325007527 Coenzyme A binding pocket [chemical binding]; other site 1104325007528 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1104325007529 active site 1104325007530 Fic/DOC family; Region: Fic; cl00960 1104325007531 putative addiction module antidote; Region: doc_partner; TIGR02609 1104325007532 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1104325007533 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1104325007534 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 1104325007535 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1104325007536 Coenzyme A transferase; Region: CoA_trans; cl17247 1104325007537 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1104325007538 citrate lyase subunit gamma; Provisional; Region: PRK13253 1104325007539 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 1104325007540 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104325007541 active site 1104325007542 nucleotide binding site [chemical binding]; other site 1104325007543 HIGH motif; other site 1104325007544 KMSKS motif; other site 1104325007545 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 1104325007546 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1104325007547 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1104325007548 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1104325007549 putative NAD(P) binding site [chemical binding]; other site 1104325007550 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1104325007551 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1104325007552 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 1104325007553 Ligand Binding Site [chemical binding]; other site 1104325007554 manganese transport protein MntH; Reviewed; Region: PRK00701 1104325007555 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1104325007556 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104325007557 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104325007558 Class II bacteriocin; Region: Bacteriocin_II; pfam01721 1104325007559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325007560 Walker A/P-loop; other site 1104325007561 ATP binding site [chemical binding]; other site 1104325007562 Q-loop/lid; other site 1104325007563 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325007564 ABC transporter signature motif; other site 1104325007565 Walker B; other site 1104325007566 D-loop; other site 1104325007567 H-loop/switch region; other site 1104325007568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104325007569 AAA domain; Region: AAA_21; pfam13304 1104325007570 Walker A/P-loop; other site 1104325007571 ATP binding site [chemical binding]; other site 1104325007572 Q-loop/lid; other site 1104325007573 ABC transporter signature motif; other site 1104325007574 Walker B; other site 1104325007575 D-loop; other site 1104325007576 H-loop/switch region; other site 1104325007577 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1104325007578 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1104325007579 proposed catalytic triad [active] 1104325007580 conserved cys residue [active] 1104325007581 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1104325007582 Integrase core domain; Region: rve; pfam00665 1104325007583 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 1104325007584 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1104325007585 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 1104325007586 putative substrate translocation pore; other site 1104325007587 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1104325007588 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 1104325007589 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104325007590 active site 1104325007591 catalytic tetrad [active] 1104325007592 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1104325007593 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104325007594 Integrase core domain; Region: rve; pfam00665 1104325007595 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1104325007596 putative active site [active] 1104325007597 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104325007598 Integrase core domain; Region: rve; pfam00665 1104325007599 DAK2 domain; Region: Dak2; cl03685 1104325007600 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1104325007601 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104325007602 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104325007603 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1104325007604 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1104325007605 Predicted membrane protein [Function unknown]; Region: COG2261 1104325007606 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1104325007607 dimanganese center [ion binding]; other site 1104325007608 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 1104325007609 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104325007610 active site 1104325007611 catalytic tetrad [active] 1104325007612 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104325007613 hypothetical protein; Provisional; Region: PRK02947 1104325007614 putative active site [active] 1104325007615 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1104325007616 active site 1104325007617 P-loop; other site 1104325007618 phosphorylation site [posttranslational modification] 1104325007619 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 1104325007620 active site 1104325007621 phosphorylation site [posttranslational modification] 1104325007622 Predicted metalloprotease [General function prediction only]; Region: COG2321 1104325007623 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1104325007624 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 1104325007625 oligomer interface [polypeptide binding]; other site 1104325007626 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1104325007627 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1104325007628 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1104325007629 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1104325007630 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1104325007631 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1104325007632 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1104325007633 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1104325007634 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1104325007635 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1104325007636 active site 1104325007637 P-loop; other site 1104325007638 phosphorylation site [posttranslational modification] 1104325007639 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 1104325007640 active site 1104325007641 phosphorylation site [posttranslational modification] 1104325007642 serine/threonine transporter SstT; Provisional; Region: PRK13628 1104325007643 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1104325007644 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 1104325007645 Part of AAA domain; Region: AAA_19; pfam13245 1104325007646 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 1104325007647 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1104325007648 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1104325007649 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 1104325007650 ATP binding site [chemical binding]; other site 1104325007651 putative Mg++ binding site [ion binding]; other site 1104325007652 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1104325007653 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1104325007654 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1104325007655 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1104325007656 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1104325007657 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1104325007658 SinI restriction endonuclease; Region: RE_SinI; pfam09570 1104325007659 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1104325007660 Helix-turn-helix domain; Region: HTH_38; pfam13936 1104325007661 Integrase core domain; Region: rve; pfam00665 1104325007662 Integrase core domain; Region: rve_3; cl15866 1104325007663 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1104325007664 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1104325007665 catalytic residues [active] 1104325007666 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1104325007667 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 1104325007668 P-loop; other site 1104325007669 Magnesium ion binding site [ion binding]; other site 1104325007670 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 1104325007671 Magnesium ion binding site [ion binding]; other site