-- dump date 20140619_124327 -- class Genbank::misc_feature -- table misc_feature_note -- id note 557436000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 557436000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 557436000003 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 557436000004 Walker A motif; other site 557436000005 ATP binding site [chemical binding]; other site 557436000006 Walker B motif; other site 557436000007 arginine finger; other site 557436000008 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 557436000009 DnaA box-binding interface [nucleotide binding]; other site 557436000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 557436000011 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 557436000012 putative DNA binding surface [nucleotide binding]; other site 557436000013 dimer interface [polypeptide binding]; other site 557436000014 beta-clamp/clamp loader binding surface; other site 557436000015 beta-clamp/translesion DNA polymerase binding surface; other site 557436000016 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 557436000017 recombination protein F; Reviewed; Region: recF; PRK00064 557436000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 557436000019 Walker A/P-loop; other site 557436000020 ATP binding site [chemical binding]; other site 557436000021 Q-loop/lid; other site 557436000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436000023 ABC transporter signature motif; other site 557436000024 Walker B; other site 557436000025 D-loop; other site 557436000026 H-loop/switch region; other site 557436000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 557436000028 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 557436000029 Mg2+ binding site [ion binding]; other site 557436000030 G-X-G motif; other site 557436000031 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 557436000032 anchoring element; other site 557436000033 dimer interface [polypeptide binding]; other site 557436000034 ATP binding site [chemical binding]; other site 557436000035 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 557436000036 active site 557436000037 putative metal-binding site [ion binding]; other site 557436000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557436000039 DNA gyrase subunit A; Validated; Region: PRK05560 557436000040 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 557436000041 CAP-like domain; other site 557436000042 active site 557436000043 primary dimer interface [polypeptide binding]; other site 557436000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557436000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557436000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557436000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557436000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557436000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557436000050 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 557436000051 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 557436000052 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 557436000053 dimer interface [polypeptide binding]; other site 557436000054 ssDNA binding site [nucleotide binding]; other site 557436000055 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557436000056 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 557436000057 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 557436000058 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 557436000059 DHH family; Region: DHH; pfam01368 557436000060 DHHA1 domain; Region: DHHA1; pfam02272 557436000061 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 557436000062 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 557436000063 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 557436000064 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 557436000065 replicative DNA helicase; Provisional; Region: PRK05748 557436000066 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 557436000067 Walker A motif; other site 557436000068 ATP binding site [chemical binding]; other site 557436000069 Walker B motif; other site 557436000070 DNA binding loops [nucleotide binding] 557436000071 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 557436000072 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436000073 putative substrate translocation pore; other site 557436000074 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 557436000075 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 557436000076 non-specific DNA binding site [nucleotide binding]; other site 557436000077 salt bridge; other site 557436000078 sequence-specific DNA binding site [nucleotide binding]; other site 557436000079 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557436000080 MarR family; Region: MarR_2; pfam12802 557436000081 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557436000082 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557436000083 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436000084 Walker A/P-loop; other site 557436000085 ATP binding site [chemical binding]; other site 557436000086 Q-loop/lid; other site 557436000087 ABC transporter signature motif; other site 557436000088 Walker B; other site 557436000089 D-loop; other site 557436000090 H-loop/switch region; other site 557436000091 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557436000092 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 557436000093 active site 557436000094 phosphorylation site [posttranslational modification] 557436000095 intermolecular recognition site; other site 557436000096 dimerization interface [polypeptide binding]; other site 557436000097 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 557436000098 DNA binding site [nucleotide binding] 557436000099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 557436000100 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 557436000101 dimerization interface [polypeptide binding]; other site 557436000102 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 557436000103 putative active site [active] 557436000104 heme pocket [chemical binding]; other site 557436000105 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 557436000106 dimer interface [polypeptide binding]; other site 557436000107 phosphorylation site [posttranslational modification] 557436000108 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 557436000109 ATP binding site [chemical binding]; other site 557436000110 Mg2+ binding site [ion binding]; other site 557436000111 G-X-G motif; other site 557436000112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 557436000113 YycH protein; Region: YycH; pfam07435 557436000114 YycH protein; Region: YycI; pfam09648 557436000115 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 557436000116 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557436000117 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 557436000118 protein binding site [polypeptide binding]; other site 557436000119 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 557436000120 tetramer interfaces [polypeptide binding]; other site 557436000121 binuclear metal-binding site [ion binding]; other site 557436000122 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 557436000123 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 557436000124 zinc binding site [ion binding]; other site 557436000125 putative ligand binding site [chemical binding]; other site 557436000126 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 557436000127 Predicted flavoprotein [General function prediction only]; Region: COG0431 557436000128 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557436000129 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 557436000130 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557436000131 dimer interface [polypeptide binding]; other site 557436000132 active site 557436000133 metal binding site [ion binding]; metal-binding site 557436000134 Sugar transport protein; Region: Sugar_transport; pfam06800 557436000135 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 557436000136 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 557436000137 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 557436000138 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 557436000139 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 557436000140 NAD(P) binding site [chemical binding]; other site 557436000141 catalytic residues [active] 557436000142 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557436000143 HlyD family secretion protein; Region: HlyD_3; pfam13437 557436000144 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557436000145 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557436000146 Walker A/P-loop; other site 557436000147 ATP binding site [chemical binding]; other site 557436000148 Q-loop/lid; other site 557436000149 ABC transporter signature motif; other site 557436000150 Walker B; other site 557436000151 D-loop; other site 557436000152 H-loop/switch region; other site 557436000153 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557436000154 FtsX-like permease family; Region: FtsX; pfam02687 557436000155 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 557436000156 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 557436000157 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557436000158 OsmC-like protein; Region: OsmC; pfam02566 557436000159 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 557436000160 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557436000161 homodimer interface [polypeptide binding]; other site 557436000162 ligand binding site [chemical binding]; other site 557436000163 NAD binding site [chemical binding]; other site 557436000164 catalytic site [active] 557436000165 aromatic amino acid aminotransferase; Validated; Region: PRK07309 557436000166 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 557436000167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436000168 homodimer interface [polypeptide binding]; other site 557436000169 catalytic residue [active] 557436000170 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 557436000171 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557436000172 Walker A motif; other site 557436000173 ATP binding site [chemical binding]; other site 557436000174 Walker B motif; other site 557436000175 arginine finger; other site 557436000176 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 557436000177 Walker A motif; other site 557436000178 ATP binding site [chemical binding]; other site 557436000179 Walker B motif; other site 557436000180 arginine finger; other site 557436000181 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557436000182 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 557436000183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436000184 Coenzyme A binding pocket [chemical binding]; other site 557436000185 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 557436000186 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 557436000187 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 557436000188 putative active site [active] 557436000189 catalytic site [active] 557436000190 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 557436000191 putative active site [active] 557436000192 catalytic site [active] 557436000193 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 557436000194 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 557436000195 Part of AAA domain; Region: AAA_19; pfam13245 557436000196 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 557436000197 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 557436000198 Family description; Region: UvrD_C_2; pfam13538 557436000199 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 557436000200 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557436000201 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557436000202 DNA binding site [nucleotide binding] 557436000203 domain linker motif; other site 557436000204 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 557436000205 putative dimerization interface [polypeptide binding]; other site 557436000206 putative ligand binding site [chemical binding]; other site 557436000207 putative acyltransferase; Provisional; Region: PRK05790 557436000208 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 557436000209 dimer interface [polypeptide binding]; other site 557436000210 active site 557436000211 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 557436000212 putative substrate translocation pore; other site 557436000213 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436000214 maltose phosphorylase; Provisional; Region: PRK13807 557436000215 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 557436000216 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 557436000217 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 557436000218 beta-phosphoglucomutase; Region: bPGM; TIGR01990 557436000219 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 557436000220 motif II; other site 557436000221 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557436000222 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 557436000223 active site 557436000224 phosphorylation site [posttranslational modification] 557436000225 intermolecular recognition site; other site 557436000226 dimerization interface [polypeptide binding]; other site 557436000227 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 557436000228 DNA binding site [nucleotide binding] 557436000229 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557436000230 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 557436000231 dimer interface [polypeptide binding]; other site 557436000232 phosphorylation site [posttranslational modification] 557436000233 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 557436000234 ATP binding site [chemical binding]; other site 557436000235 Mg2+ binding site [ion binding]; other site 557436000236 G-X-G motif; other site 557436000237 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 557436000238 Cl- selectivity filter; other site 557436000239 Cl- binding residues [ion binding]; other site 557436000240 pore gating glutamate residue; other site 557436000241 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 557436000242 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 557436000243 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436000244 Peptidase C26; Region: Peptidase_C26; pfam07722 557436000245 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 557436000246 catalytic triad [active] 557436000247 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 557436000248 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557436000249 active site 557436000250 catalytic tetrad [active] 557436000251 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 557436000252 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 557436000253 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 557436000254 putative active site [active] 557436000255 catalytic site [active] 557436000256 putative metal binding site [ion binding]; other site 557436000257 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 557436000258 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 557436000259 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 557436000260 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557436000261 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557436000262 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 557436000263 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 557436000264 active site 557436000265 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 557436000266 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 557436000267 GDP-binding site [chemical binding]; other site 557436000268 ACT binding site; other site 557436000269 IMP binding site; other site 557436000270 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 557436000271 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 557436000272 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436000273 active site 557436000274 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 557436000275 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557436000276 Probable transposase; Region: OrfB_IS605; pfam01385 557436000277 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557436000278 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436000279 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 557436000280 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 557436000281 catalytic triad [active] 557436000282 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557436000283 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 557436000284 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 557436000285 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 557436000286 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557436000287 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 557436000288 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 557436000289 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557436000290 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 557436000291 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 557436000292 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 557436000293 Ca binding site [ion binding]; other site 557436000294 active site 557436000295 catalytic site [active] 557436000296 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 557436000297 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 557436000298 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436000299 putative substrate translocation pore; other site 557436000300 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 557436000301 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557436000302 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557436000303 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 557436000304 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557436000305 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557436000306 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 557436000307 substrate binding site [chemical binding]; other site 557436000308 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 557436000309 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 557436000310 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 557436000311 catalytic site [active] 557436000312 subunit interface [polypeptide binding]; other site 557436000313 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 557436000314 putative substrate translocation pore; other site 557436000315 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436000316 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557436000317 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557436000318 DNA binding site [nucleotide binding] 557436000319 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 557436000320 dimerization interface [polypeptide binding]; other site 557436000321 ligand binding site [chemical binding]; other site 557436000322 TRAM domain; Region: TRAM; pfam01938 557436000323 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 557436000324 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 557436000325 S-adenosylmethionine binding site [chemical binding]; other site 557436000326 Predicted flavoprotein [General function prediction only]; Region: COG0431 557436000327 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557436000328 Predicted flavoprotein [General function prediction only]; Region: COG0431 557436000329 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557436000330 PAS domain; Region: PAS_10; pfam13596 557436000331 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 557436000332 ApbE family; Region: ApbE; pfam02424 557436000333 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 557436000334 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436000335 putative active site [active] 557436000336 putative NTP binding site [chemical binding]; other site 557436000337 putative nucleic acid binding site [nucleotide binding]; other site 557436000338 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436000339 seryl-tRNA synthetase; Provisional; Region: PRK05431 557436000340 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 557436000341 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 557436000342 dimer interface [polypeptide binding]; other site 557436000343 active site 557436000344 motif 1; other site 557436000345 motif 2; other site 557436000346 motif 3; other site 557436000347 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 557436000348 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557436000349 substrate binding pocket [chemical binding]; other site 557436000350 membrane-bound complex binding site; other site 557436000351 hinge residues; other site 557436000352 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 557436000353 dimer interface [polypeptide binding]; other site 557436000354 conserved gate region; other site 557436000355 putative PBP binding loops; other site 557436000356 ABC-ATPase subunit interface; other site 557436000357 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557436000358 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557436000359 Walker A/P-loop; other site 557436000360 ATP binding site [chemical binding]; other site 557436000361 Q-loop/lid; other site 557436000362 ABC transporter signature motif; other site 557436000363 Walker B; other site 557436000364 D-loop; other site 557436000365 H-loop/switch region; other site 557436000366 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557436000367 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 557436000368 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 557436000369 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 557436000370 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 557436000371 active site 557436000372 tetramer interface [polypeptide binding]; other site 557436000373 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 557436000374 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557436000375 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557436000376 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 557436000377 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 557436000378 S-adenosylmethionine binding site [chemical binding]; other site 557436000379 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 557436000380 ParB-like nuclease domain; Region: ParBc; pfam02195 557436000381 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557436000382 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 557436000383 P-loop; other site 557436000384 Magnesium ion binding site [ion binding]; other site 557436000385 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 557436000386 ParB-like nuclease domain; Region: ParB; smart00470 557436000387 KorB domain; Region: KorB; pfam08535 557436000388 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 557436000389 GTP-binding protein YchF; Reviewed; Region: PRK09601 557436000390 YchF GTPase; Region: YchF; cd01900 557436000391 G1 box; other site 557436000392 GTP/Mg2+ binding site [chemical binding]; other site 557436000393 Switch I region; other site 557436000394 G2 box; other site 557436000395 Switch II region; other site 557436000396 G3 box; other site 557436000397 G4 box; other site 557436000398 G5 box; other site 557436000399 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 557436000400 hypothetical protein; Validated; Region: PRK07668 557436000401 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 557436000402 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 557436000403 intersubunit interface [polypeptide binding]; other site 557436000404 active site 557436000405 catalytic residue [active] 557436000406 phosphopentomutase; Provisional; Region: PRK05362 557436000407 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 557436000408 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 557436000409 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 557436000410 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 557436000411 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 557436000412 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 557436000413 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 557436000414 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 557436000415 DNA binding residues [nucleotide binding] 557436000416 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 557436000417 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 557436000418 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 557436000419 active site 557436000420 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557436000421 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 557436000422 active site 557436000423 phosphorylation site [posttranslational modification] 557436000424 intermolecular recognition site; other site 557436000425 dimerization interface [polypeptide binding]; other site 557436000426 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 557436000427 DNA binding site [nucleotide binding] 557436000428 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557436000429 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 557436000430 dimer interface [polypeptide binding]; other site 557436000431 phosphorylation site [posttranslational modification] 557436000432 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 557436000433 ATP binding site [chemical binding]; other site 557436000434 Mg2+ binding site [ion binding]; other site 557436000435 G-X-G motif; other site 557436000436 AzlC protein; Region: AzlC; pfam03591 557436000437 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 557436000438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557436000439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557436000440 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 557436000441 dimerization interface [polypeptide binding]; other site 557436000442 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 557436000443 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557436000444 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557436000445 dihydroorotase; Validated; Region: pyrC; PRK09357 557436000446 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 557436000447 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 557436000448 active site 557436000449 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 557436000450 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 557436000451 heterodimer interface [polypeptide binding]; other site 557436000452 active site 557436000453 FMN binding site [chemical binding]; other site 557436000454 homodimer interface [polypeptide binding]; other site 557436000455 substrate binding site [chemical binding]; other site 557436000456 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 557436000457 active site 557436000458 dimer interface [polypeptide binding]; other site 557436000459 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436000460 active site 557436000461 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 557436000462 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 557436000463 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 557436000464 S-adenosylmethionine binding site [chemical binding]; other site 557436000465 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557436000466 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557436000467 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 557436000468 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 557436000469 Potassium binding sites [ion binding]; other site 557436000470 Cesium cation binding sites [ion binding]; other site 557436000471 acetolactate synthase; Reviewed; Region: PRK08617 557436000472 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557436000473 PYR/PP interface [polypeptide binding]; other site 557436000474 dimer interface [polypeptide binding]; other site 557436000475 TPP binding site [chemical binding]; other site 557436000476 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557436000477 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 557436000478 TPP-binding site [chemical binding]; other site 557436000479 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 557436000480 AIR carboxylase; Region: AIRC; pfam00731 557436000481 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 557436000482 ATP-grasp domain; Region: ATP-grasp; pfam02222 557436000483 adenylosuccinate lyase; Provisional; Region: PRK07492 557436000484 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 557436000485 tetramer interface [polypeptide binding]; other site 557436000486 active site 557436000487 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 557436000488 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 557436000489 ATP binding site [chemical binding]; other site 557436000490 active site 557436000491 substrate binding site [chemical binding]; other site 557436000492 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 557436000493 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 557436000494 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 557436000495 putative active site [active] 557436000496 catalytic triad [active] 557436000497 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 557436000498 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 557436000499 dimerization interface [polypeptide binding]; other site 557436000500 ATP binding site [chemical binding]; other site 557436000501 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 557436000502 dimerization interface [polypeptide binding]; other site 557436000503 ATP binding site [chemical binding]; other site 557436000504 amidophosphoribosyltransferase; Provisional; Region: PRK07272 557436000505 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 557436000506 active site 557436000507 tetramer interface [polypeptide binding]; other site 557436000508 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436000509 active site 557436000510 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 557436000511 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 557436000512 dimerization interface [polypeptide binding]; other site 557436000513 putative ATP binding site [chemical binding]; other site 557436000514 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 557436000515 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 557436000516 active site 557436000517 substrate binding site [chemical binding]; other site 557436000518 cosubstrate binding site; other site 557436000519 catalytic site [active] 557436000520 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 557436000521 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 557436000522 purine monophosphate binding site [chemical binding]; other site 557436000523 dimer interface [polypeptide binding]; other site 557436000524 putative catalytic residues [active] 557436000525 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 557436000526 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 557436000527 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 557436000528 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 557436000529 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 557436000530 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 557436000531 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 557436000532 catalytic core [active] 557436000533 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 557436000534 Protein of unknown function (DUF975); Region: DUF975; cl10504 557436000535 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 557436000536 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 557436000537 active site 557436000538 HIGH motif; other site 557436000539 dimer interface [polypeptide binding]; other site 557436000540 KMSKS motif; other site 557436000541 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 557436000542 RNA binding surface [nucleotide binding]; other site 557436000543 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557436000544 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557436000545 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557436000546 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557436000547 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557436000548 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557436000549 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 557436000550 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 557436000551 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557436000552 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436000553 Integrase core domain; Region: rve; pfam00665 557436000554 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 557436000555 nudix motif; other site 557436000556 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 557436000557 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 557436000558 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 557436000559 active site 557436000560 Isochorismatase family; Region: Isochorismatase; pfam00857 557436000561 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 557436000562 catalytic triad [active] 557436000563 conserved cis-peptide bond; other site 557436000564 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 557436000565 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 557436000566 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557436000567 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 557436000568 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557436000569 substrate binding site [chemical binding]; other site 557436000570 ATP binding site [chemical binding]; other site 557436000571 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557436000572 Predicted transcriptional regulators [Transcription]; Region: COG1733 557436000573 metabolite-proton symporter; Region: 2A0106; TIGR00883 557436000574 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 557436000575 putative substrate translocation pore; other site 557436000576 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557436000577 classical (c) SDRs; Region: SDR_c; cd05233 557436000578 NAD(P) binding site [chemical binding]; other site 557436000579 active site 557436000580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557436000581 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557436000582 NAD(P) binding site [chemical binding]; other site 557436000583 active site 557436000584 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557436000585 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 557436000586 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 557436000587 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557436000588 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 557436000589 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 557436000590 triosephosphate isomerase; Provisional; Region: PRK14565 557436000591 substrate binding site [chemical binding]; other site 557436000592 dimer interface [polypeptide binding]; other site 557436000593 catalytic triad [active] 557436000594 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 557436000595 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557436000596 active site 557436000597 catalytic tetrad [active] 557436000598 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 557436000599 active site 557436000600 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 557436000601 PLD-like domain; Region: PLDc_2; pfam13091 557436000602 putative homodimer interface [polypeptide binding]; other site 557436000603 putative active site [active] 557436000604 catalytic site [active] 557436000605 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557436000606 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 557436000607 ATP binding site [chemical binding]; other site 557436000608 putative Mg++ binding site [ion binding]; other site 557436000609 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 557436000610 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 557436000611 nucleotide binding region [chemical binding]; other site 557436000612 ATP-binding site [chemical binding]; other site 557436000613 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 557436000614 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 557436000615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557436000616 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557436000617 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 557436000618 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 557436000619 active site 557436000620 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 557436000621 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557436000622 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557436000623 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 557436000624 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 557436000625 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 557436000626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557436000627 NAD(P) binding site [chemical binding]; other site 557436000628 active site 557436000629 Predicted transcriptional regulator [Transcription]; Region: COG1959 557436000630 Transcriptional regulator; Region: Rrf2; cl17282 557436000631 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 557436000632 TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes:...; Region: TBP_TLF; cl08263 557436000633 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 557436000634 dimer interface [polypeptide binding]; other site 557436000635 conserved gate region; other site 557436000636 ABC-ATPase subunit interface; other site 557436000637 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557436000638 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 557436000639 Walker A/P-loop; other site 557436000640 ATP binding site [chemical binding]; other site 557436000641 Q-loop/lid; other site 557436000642 ABC transporter signature motif; other site 557436000643 Walker B; other site 557436000644 D-loop; other site 557436000645 H-loop/switch region; other site 557436000646 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 557436000647 dimer interface [polypeptide binding]; other site 557436000648 conserved gate region; other site 557436000649 ABC-ATPase subunit interface; other site 557436000650 methionine sulfoxide reductase B; Provisional; Region: PRK00222 557436000651 SelR domain; Region: SelR; pfam01641 557436000652 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 557436000653 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 557436000654 Cl- selectivity filter; other site 557436000655 Cl- binding residues [ion binding]; other site 557436000656 pore gating glutamate residue; other site 557436000657 dimer interface [polypeptide binding]; other site 557436000658 H+/Cl- coupling transport residue; other site 557436000659 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 557436000660 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 557436000661 metal binding site [ion binding]; metal-binding site 557436000662 dimer interface [polypeptide binding]; other site 557436000663 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 557436000664 ABC-ATPase subunit interface; other site 557436000665 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 557436000666 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 557436000667 Walker A/P-loop; other site 557436000668 ATP binding site [chemical binding]; other site 557436000669 Q-loop/lid; other site 557436000670 ABC transporter signature motif; other site 557436000671 Walker B; other site 557436000672 D-loop; other site 557436000673 H-loop/switch region; other site 557436000674 NIL domain; Region: NIL; pfam09383 557436000675 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 557436000676 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557436000677 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557436000678 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557436000679 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 557436000680 NAD binding site [chemical binding]; other site 557436000681 dimer interface [polypeptide binding]; other site 557436000682 substrate binding site [chemical binding]; other site 557436000683 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 557436000684 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436000685 putative substrate translocation pore; other site 557436000686 FMN-binding domain; Region: FMN_bind; cl01081 557436000687 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 557436000688 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557436000689 minor groove reading motif; other site 557436000690 helix-hairpin-helix signature motif; other site 557436000691 substrate binding pocket [chemical binding]; other site 557436000692 active site 557436000693 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 557436000694 amino acid transporter; Region: 2A0306; TIGR00909 557436000695 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 557436000696 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 557436000697 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 557436000698 inhibitor-cofactor binding pocket; inhibition site 557436000699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436000700 catalytic residue [active] 557436000701 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 557436000702 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 557436000703 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 557436000704 Part of AAA domain; Region: AAA_19; pfam13245 557436000705 Family description; Region: UvrD_C_2; pfam13538 557436000706 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 557436000707 active site 557436000708 multimer interface [polypeptide binding]; other site 557436000709 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557436000710 DNA methylase; Region: N6_N4_Mtase; cl17433 557436000711 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 557436000712 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 557436000713 active site 557436000714 HIGH motif; other site 557436000715 dimer interface [polypeptide binding]; other site 557436000716 KMSKS motif; other site 557436000717 exopolyphosphatase; Region: exo_poly_only; TIGR03706 557436000718 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 557436000719 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 557436000720 homodimer interface [polypeptide binding]; other site 557436000721 catalytic residues [active] 557436000722 NAD binding site [chemical binding]; other site 557436000723 substrate binding pocket [chemical binding]; other site 557436000724 flexible flap; other site 557436000725 NAD-dependent deacetylase; Provisional; Region: PRK00481 557436000726 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 557436000727 Protein of unknown function DUF72; Region: DUF72; pfam01904 557436000728 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 557436000729 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 557436000730 HIGH motif; other site 557436000731 active site 557436000732 KMSKS motif; other site 557436000733 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 557436000734 tRNA binding surface [nucleotide binding]; other site 557436000735 anticodon binding site; other site 557436000736 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 557436000737 dimer interface [polypeptide binding]; other site 557436000738 putative tRNA-binding site [nucleotide binding]; other site 557436000739 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557436000740 active site 557436000741 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 557436000742 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 557436000743 putative active site [active] 557436000744 putative metal binding site [ion binding]; other site 557436000745 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 557436000746 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 557436000747 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 557436000748 S-adenosylmethionine binding site [chemical binding]; other site 557436000749 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 557436000750 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 557436000751 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557436000752 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 557436000753 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 557436000754 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 557436000755 metal binding site [ion binding]; metal-binding site 557436000756 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 557436000757 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 557436000758 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557436000759 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 557436000760 pur operon repressor; Provisional; Region: PRK09213 557436000761 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 557436000762 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436000763 active site 557436000764 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 557436000765 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 557436000766 Substrate binding site; other site 557436000767 Mg++ binding site; other site 557436000768 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 557436000769 active site 557436000770 substrate binding site [chemical binding]; other site 557436000771 CoA binding site [chemical binding]; other site 557436000772 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 557436000773 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 557436000774 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436000775 active site 557436000776 sugar phosphate phosphatase; Provisional; Region: PRK10513 557436000777 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 557436000778 active site 557436000779 motif I; other site 557436000780 motif II; other site 557436000781 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557436000782 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 557436000783 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557436000784 Zn2+ binding site [ion binding]; other site 557436000785 Mg2+ binding site [ion binding]; other site 557436000786 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 557436000787 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436000788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557436000789 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 557436000790 Probable transposase; Region: OrfB_IS605; pfam01385 557436000791 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557436000792 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 557436000793 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 557436000794 CTP synthetase; Validated; Region: pyrG; PRK05380 557436000795 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 557436000796 Catalytic site [active] 557436000797 active site 557436000798 UTP binding site [chemical binding]; other site 557436000799 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 557436000800 active site 557436000801 putative oxyanion hole; other site 557436000802 catalytic triad [active] 557436000803 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 557436000804 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436000805 putative active site [active] 557436000806 putative NTP binding site [chemical binding]; other site 557436000807 putative nucleic acid binding site [nucleotide binding]; other site 557436000808 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436000809 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 557436000810 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 557436000811 hinge; other site 557436000812 active site 557436000813 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 557436000814 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 557436000815 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557436000816 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 557436000817 active site 557436000818 catalytic site [active] 557436000819 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 557436000820 triosephosphate isomerase; Provisional; Region: PRK14565 557436000821 substrate binding site [chemical binding]; other site 557436000822 dimer interface [polypeptide binding]; other site 557436000823 catalytic triad [active] 557436000824 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 557436000825 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 557436000826 intersubunit interface [polypeptide binding]; other site 557436000827 active site 557436000828 zinc binding site [ion binding]; other site 557436000829 Na+ binding site [ion binding]; other site 557436000830 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 557436000831 catalytic core [active] 557436000832 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 557436000833 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 557436000834 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557436000835 active site 557436000836 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 557436000837 heat shock protein HtpX; Provisional; Region: PRK04897 557436000838 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 557436000839 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557436000840 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557436000841 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557436000842 helicase 45; Provisional; Region: PTZ00424 557436000843 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 557436000844 ATP binding site [chemical binding]; other site 557436000845 Mg++ binding site [ion binding]; other site 557436000846 motif III; other site 557436000847 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 557436000848 nucleotide binding region [chemical binding]; other site 557436000849 ATP-binding site [chemical binding]; other site 557436000850 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436000851 Helix-turn-helix domain; Region: HTH_38; pfam13936 557436000852 Integrase core domain; Region: rve; pfam00665 557436000853 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 557436000854 Glutaminase; Region: Glutaminase; cl00907 557436000855 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436000856 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 557436000857 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436000858 putative active site [active] 557436000859 putative NTP binding site [chemical binding]; other site 557436000860 putative nucleic acid binding site [nucleotide binding]; other site 557436000861 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436000862 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 557436000863 DltD N-terminal region; Region: DltD_N; pfam04915 557436000864 DltD central region; Region: DltD_M; pfam04918 557436000865 DltD C-terminal region; Region: DltD_C; pfam04914 557436000866 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 557436000867 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 557436000868 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 557436000869 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 557436000870 acyl-activating enzyme (AAE) consensus motif; other site 557436000871 AMP binding site [chemical binding]; other site 557436000872 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 557436000873 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 557436000874 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 557436000875 alanine racemase; Reviewed; Region: alr; PRK00053 557436000876 active site 557436000877 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557436000878 dimer interface [polypeptide binding]; other site 557436000879 substrate binding site [chemical binding]; other site 557436000880 catalytic residues [active] 557436000881 PemK-like protein; Region: PemK; pfam02452 557436000882 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557436000883 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 557436000884 Na binding site [ion binding]; other site 557436000885 cytosine deaminase; Provisional; Region: PRK09230 557436000886 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 557436000887 active site 557436000888 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557436000889 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 557436000890 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 557436000891 putative active site [active] 557436000892 catalytic residue [active] 557436000893 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 557436000894 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 557436000895 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 557436000896 ATP binding site [chemical binding]; other site 557436000897 putative Mg++ binding site [ion binding]; other site 557436000898 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 557436000899 nucleotide binding region [chemical binding]; other site 557436000900 ATP-binding site [chemical binding]; other site 557436000901 TRCF domain; Region: TRCF; pfam03461 557436000902 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 557436000903 RNA binding surface [nucleotide binding]; other site 557436000904 Septum formation initiator; Region: DivIC; cl17659 557436000905 hypothetical protein; Provisional; Region: PRK08582 557436000906 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 557436000907 RNA binding site [nucleotide binding]; other site 557436000908 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 557436000909 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 557436000910 Ligand Binding Site [chemical binding]; other site 557436000911 TilS substrate C-terminal domain; Region: TilS_C; smart00977 557436000912 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436000913 active site 557436000914 FtsH Extracellular; Region: FtsH_ext; pfam06480 557436000915 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 557436000916 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 557436000917 Walker A motif; other site 557436000918 ATP binding site [chemical binding]; other site 557436000919 Walker B motif; other site 557436000920 arginine finger; other site 557436000921 Peptidase family M41; Region: Peptidase_M41; pfam01434 557436000922 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 557436000923 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 557436000924 dimerization interface [polypeptide binding]; other site 557436000925 domain crossover interface; other site 557436000926 redox-dependent activation switch; other site 557436000927 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 557436000928 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 557436000929 FMN binding site [chemical binding]; other site 557436000930 active site 557436000931 catalytic residues [active] 557436000932 substrate binding site [chemical binding]; other site 557436000933 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 557436000934 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 557436000935 dimer interface [polypeptide binding]; other site 557436000936 putative anticodon binding site; other site 557436000937 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 557436000938 motif 1; other site 557436000939 active site 557436000940 motif 2; other site 557436000941 motif 3; other site 557436000942 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557436000943 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557436000944 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557436000945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557436000946 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557436000947 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557436000948 Bacterial lipoprotein; Region: DUF3642; pfam12182 557436000949 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 557436000950 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 557436000951 POT family; Region: PTR2; cl17359 557436000952 putative phosphoesterase; Region: acc_ester; TIGR03729 557436000953 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557436000954 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436000955 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 557436000956 putative substrate translocation pore; other site 557436000957 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 557436000958 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 557436000959 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 557436000960 TrkA-C domain; Region: TrkA_C; pfam02080 557436000961 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 557436000962 aspartate racemase; Region: asp_race; TIGR00035 557436000963 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 557436000964 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557436000965 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557436000966 DNA-binding site [nucleotide binding]; DNA binding site 557436000967 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 557436000968 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 557436000969 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 557436000970 active site 557436000971 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 557436000972 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 557436000973 homodimer interface [polypeptide binding]; other site 557436000974 NAD binding pocket [chemical binding]; other site 557436000975 ATP binding pocket [chemical binding]; other site 557436000976 Mg binding site [ion binding]; other site 557436000977 active-site loop [active] 557436000978 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 557436000979 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 557436000980 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 557436000981 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 557436000982 RNA binding site [nucleotide binding]; other site 557436000983 hypothetical protein; Provisional; Region: PRK04351 557436000984 SprT homologues; Region: SprT; cl01182 557436000985 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 557436000986 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 557436000987 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 557436000988 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 557436000989 Predicted integral membrane protein [Function unknown]; Region: COG5617 557436000990 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 557436000991 catalytic core [active] 557436000992 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557436000993 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557436000994 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 557436000995 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 557436000996 homodimer interface [polypeptide binding]; other site 557436000997 substrate-cofactor binding pocket; other site 557436000998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436000999 catalytic residue [active] 557436001000 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557436001001 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 557436001002 dimer interface [polypeptide binding]; other site 557436001003 conserved gate region; other site 557436001004 putative PBP binding loops; other site 557436001005 ABC-ATPase subunit interface; other site 557436001006 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557436001007 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436001008 Walker A/P-loop; other site 557436001009 ATP binding site [chemical binding]; other site 557436001010 Q-loop/lid; other site 557436001011 ABC transporter signature motif; other site 557436001012 Walker B; other site 557436001013 D-loop; other site 557436001014 H-loop/switch region; other site 557436001015 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 557436001016 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 557436001017 substrate binding pocket [chemical binding]; other site 557436001018 membrane-bound complex binding site; other site 557436001019 hinge residues; other site 557436001020 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 557436001021 trimer interface [polypeptide binding]; other site 557436001022 active site 557436001023 G bulge; other site 557436001024 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 557436001025 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557436001026 active site 557436001027 dimer interface [polypeptide binding]; other site 557436001028 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436001029 Coenzyme A binding pocket [chemical binding]; other site 557436001030 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 557436001031 trimer interface [polypeptide binding]; other site 557436001032 active site 557436001033 DNA repair protein RadA; Provisional; Region: PRK11823 557436001034 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 557436001035 Walker A motif/ATP binding site; other site 557436001036 ATP binding site [chemical binding]; other site 557436001037 Walker B motif; other site 557436001038 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 557436001039 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 557436001040 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 557436001041 putative active site [active] 557436001042 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 557436001043 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557436001044 active site 557436001045 HIGH motif; other site 557436001046 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557436001047 KMSKS motif; other site 557436001048 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 557436001049 tRNA binding surface [nucleotide binding]; other site 557436001050 anticodon binding site; other site 557436001051 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 557436001052 active site 557436001053 metal binding site [ion binding]; metal-binding site 557436001054 dimerization interface [polypeptide binding]; other site 557436001055 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 557436001056 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 557436001057 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 557436001058 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 557436001059 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 557436001060 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 557436001061 putative homodimer interface [polypeptide binding]; other site 557436001062 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 557436001063 heterodimer interface [polypeptide binding]; other site 557436001064 homodimer interface [polypeptide binding]; other site 557436001065 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 557436001066 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 557436001067 23S rRNA interface [nucleotide binding]; other site 557436001068 L7/L12 interface [polypeptide binding]; other site 557436001069 putative thiostrepton binding site; other site 557436001070 L25 interface [polypeptide binding]; other site 557436001071 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 557436001072 mRNA/rRNA interface [nucleotide binding]; other site 557436001073 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 557436001074 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 557436001075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436001076 homodimer interface [polypeptide binding]; other site 557436001077 catalytic residue [active] 557436001078 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557436001079 N-acetyl-glucosamine transferase is involved in the synthesis of Poly-beta-1,6-N-acetyl-D-glucosamine; Region: GlcNAc-1-P_transferase; cd06436 557436001080 DXD motif; other site 557436001081 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 557436001082 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 557436001083 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 557436001084 active site 557436001085 homodimer interface [polypeptide binding]; other site 557436001086 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 557436001087 23S rRNA interface [nucleotide binding]; other site 557436001088 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 557436001089 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 557436001090 peripheral dimer interface [polypeptide binding]; other site 557436001091 core dimer interface [polypeptide binding]; other site 557436001092 L10 interface [polypeptide binding]; other site 557436001093 L11 interface [polypeptide binding]; other site 557436001094 putative EF-Tu interaction site [polypeptide binding]; other site 557436001095 putative EF-G interaction site [polypeptide binding]; other site 557436001096 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 557436001097 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 557436001098 Predicted transcriptional regulators [Transcription]; Region: COG1695 557436001099 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 557436001100 Predicted membrane protein [Function unknown]; Region: COG4709 557436001101 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 557436001102 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 557436001103 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 557436001104 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 557436001105 putative catalytic cysteine [active] 557436001106 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 557436001107 putative active site [active] 557436001108 metal binding site [ion binding]; metal-binding site 557436001109 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 557436001110 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 557436001111 dimer interface [polypeptide binding]; other site 557436001112 putative radical transfer pathway; other site 557436001113 diiron center [ion binding]; other site 557436001114 tyrosyl radical; other site 557436001115 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 557436001116 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 557436001117 Class I ribonucleotide reductase; Region: RNR_I; cd01679 557436001118 active site 557436001119 dimer interface [polypeptide binding]; other site 557436001120 catalytic residues [active] 557436001121 effector binding site; other site 557436001122 R2 peptide binding site; other site 557436001123 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 557436001124 catalytic residues [active] 557436001125 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 557436001126 nucleoside/Zn binding site; other site 557436001127 dimer interface [polypeptide binding]; other site 557436001128 catalytic motif [active] 557436001129 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 557436001130 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 557436001131 Walker A motif; other site 557436001132 ATP binding site [chemical binding]; other site 557436001133 Walker B motif; other site 557436001134 arginine finger; other site 557436001135 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 557436001136 hypothetical protein; Validated; Region: PRK00153 557436001137 recombination protein RecR; Reviewed; Region: recR; PRK00076 557436001138 RecR protein; Region: RecR; pfam02132 557436001139 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 557436001140 putative active site [active] 557436001141 putative metal-binding site [ion binding]; other site 557436001142 tetramer interface [polypeptide binding]; other site 557436001143 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 557436001144 thymidylate kinase; Validated; Region: tmk; PRK00698 557436001145 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 557436001146 TMP-binding site; other site 557436001147 ATP-binding site [chemical binding]; other site 557436001148 Protein of unknown function (DUF970); Region: DUF970; pfam06153 557436001149 DNA polymerase III subunit delta'; Validated; Region: PRK08058 557436001150 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 557436001151 Walker A motif; other site 557436001152 ATP binding site [chemical binding]; other site 557436001153 Walker B motif; other site 557436001154 arginine finger; other site 557436001155 Protein of unknown function (DUF972); Region: DUF972; pfam06156 557436001156 Predicted methyltransferases [General function prediction only]; Region: COG0313 557436001157 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 557436001158 putative SAM binding site [chemical binding]; other site 557436001159 putative homodimer interface [polypeptide binding]; other site 557436001160 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 557436001161 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 557436001162 active site 557436001163 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 557436001164 active site 2 [active] 557436001165 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 557436001166 polyphosphate kinase; Provisional; Region: PRK05443 557436001167 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 557436001168 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 557436001169 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 557436001170 putative domain interface [polypeptide binding]; other site 557436001171 putative active site [active] 557436001172 catalytic site [active] 557436001173 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 557436001174 putative domain interface [polypeptide binding]; other site 557436001175 putative active site [active] 557436001176 catalytic site [active] 557436001177 exopolyphosphatase; Region: exo_poly_only; TIGR03706 557436001178 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 557436001179 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 557436001180 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 557436001181 NAD binding site [chemical binding]; other site 557436001182 homodimer interface [polypeptide binding]; other site 557436001183 active site 557436001184 substrate binding site [chemical binding]; other site 557436001185 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557436001186 Glycoprotease family; Region: Peptidase_M22; pfam00814 557436001187 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 557436001188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436001189 Coenzyme A binding pocket [chemical binding]; other site 557436001190 UGMP family protein; Validated; Region: PRK09604 557436001191 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557436001192 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 557436001193 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 557436001194 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 557436001195 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 557436001196 putative catalytic cysteine [active] 557436001197 gamma-glutamyl kinase; Provisional; Region: PRK05429 557436001198 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 557436001199 nucleotide binding site [chemical binding]; other site 557436001200 homotetrameric interface [polypeptide binding]; other site 557436001201 putative phosphate binding site [ion binding]; other site 557436001202 putative allosteric binding site; other site 557436001203 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557436001204 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 557436001205 putative active site [active] 557436001206 catalytic triad [active] 557436001207 putative dimer interface [polypeptide binding]; other site 557436001208 transaminase; Reviewed; Region: PRK08068 557436001209 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 557436001210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436001211 homodimer interface [polypeptide binding]; other site 557436001212 catalytic residue [active] 557436001213 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 557436001214 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 557436001215 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 557436001216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557436001217 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557436001218 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 557436001219 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 557436001220 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436001221 Walker A/P-loop; other site 557436001222 ATP binding site [chemical binding]; other site 557436001223 Q-loop/lid; other site 557436001224 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557436001225 ABC transporter signature motif; other site 557436001226 Walker B; other site 557436001227 D-loop; other site 557436001228 ABC transporter; Region: ABC_tran_2; pfam12848 557436001229 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557436001230 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 557436001231 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 557436001232 CoA binding domain; Region: CoA_binding; pfam02629 557436001233 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 557436001234 oligomerisation interface [polypeptide binding]; other site 557436001235 mobile loop; other site 557436001236 roof hairpin; other site 557436001237 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 557436001238 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 557436001239 ring oligomerisation interface [polypeptide binding]; other site 557436001240 ATP/Mg binding site [chemical binding]; other site 557436001241 stacking interactions; other site 557436001242 hinge regions; other site 557436001243 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 557436001244 putative deacylase active site [active] 557436001245 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557436001246 Amino acid permease; Region: AA_permease_2; pfam13520 557436001247 K+ potassium transporter; Region: K_trans; cl15781 557436001248 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557436001249 MarR family; Region: MarR_2; pfam12802 557436001250 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 557436001251 putative substrate translocation pore; other site 557436001252 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436001253 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 557436001254 Uncharacterized conserved protein [Function unknown]; Region: COG1739 557436001255 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 557436001256 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 557436001257 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 557436001258 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 557436001259 ATP binding site [chemical binding]; other site 557436001260 putative Mg++ binding site [ion binding]; other site 557436001261 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 557436001262 nucleotide binding region [chemical binding]; other site 557436001263 ATP-binding site [chemical binding]; other site 557436001264 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 557436001265 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436001266 active site 557436001267 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 557436001268 30S subunit binding site; other site 557436001269 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 557436001270 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 557436001271 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 557436001272 nucleotide binding region [chemical binding]; other site 557436001273 ATP-binding site [chemical binding]; other site 557436001274 peptide chain release factor 2; Provisional; Region: PRK05589 557436001275 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557436001276 RF-1 domain; Region: RF-1; pfam00472 557436001277 PspC domain; Region: PspC; pfam04024 557436001278 Membrane protein of unknown function; Region: DUF360; pfam04020 557436001279 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 557436001280 HPr kinase/phosphorylase; Provisional; Region: PRK05428 557436001281 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 557436001282 Hpr binding site; other site 557436001283 active site 557436001284 homohexamer subunit interaction site [polypeptide binding]; other site 557436001285 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 557436001286 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 557436001287 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 557436001288 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 557436001289 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 557436001290 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 557436001291 active site 557436001292 tetramer interface; other site 557436001293 Uncharacterized conserved protein [Function unknown]; Region: COG1556 557436001294 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 557436001295 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 557436001296 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 557436001297 Cysteine-rich domain; Region: CCG; pfam02754 557436001298 Cysteine-rich domain; Region: CCG; pfam02754 557436001299 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 557436001300 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557436001301 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557436001302 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 557436001303 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 557436001304 metal binding site [ion binding]; metal-binding site 557436001305 dimer interface [polypeptide binding]; other site 557436001306 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557436001307 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 557436001308 substrate binding pocket [chemical binding]; other site 557436001309 membrane-bound complex binding site; other site 557436001310 hinge residues; other site 557436001311 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 557436001312 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 557436001313 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 557436001314 active site 557436001315 substrate binding site [chemical binding]; other site 557436001316 metal binding site [ion binding]; metal-binding site 557436001317 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557436001318 Zn2+ binding site [ion binding]; other site 557436001319 Mg2+ binding site [ion binding]; other site 557436001320 excinuclease ABC subunit B; Provisional; Region: PRK05298 557436001321 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 557436001322 ATP binding site [chemical binding]; other site 557436001323 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 557436001324 nucleotide binding region [chemical binding]; other site 557436001325 ATP-binding site [chemical binding]; other site 557436001326 Ultra-violet resistance protein B; Region: UvrB; pfam12344 557436001327 UvrB/uvrC motif; Region: UVR; pfam02151 557436001328 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 557436001329 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557436001330 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557436001331 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 557436001332 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 557436001333 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 557436001334 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 557436001335 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 557436001336 phosphate binding site [ion binding]; other site 557436001337 putative substrate binding pocket [chemical binding]; other site 557436001338 dimer interface [polypeptide binding]; other site 557436001339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 557436001340 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 557436001341 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 557436001342 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 557436001343 oligomer interface [polypeptide binding]; other site 557436001344 active site residues [active] 557436001345 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557436001346 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 557436001347 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 557436001348 Cl- selectivity filter; other site 557436001349 Cl- binding residues [ion binding]; other site 557436001350 pore gating glutamate residue; other site 557436001351 dimer interface [polypeptide binding]; other site 557436001352 H+/Cl- coupling transport residue; other site 557436001353 TrkA-C domain; Region: TrkA_C; pfam02080 557436001354 Preprotein translocase SecG subunit; Region: SecG; pfam03840 557436001355 Esterase/lipase [General function prediction only]; Region: COG1647 557436001356 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557436001357 ribonuclease R; Region: RNase_R; TIGR02063 557436001358 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 557436001359 RNB domain; Region: RNB; pfam00773 557436001360 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 557436001361 RNA binding site [nucleotide binding]; other site 557436001362 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 557436001363 SmpB-tmRNA interface; other site 557436001364 Tubby C 2; Region: Tub_2; cl02043 557436001365 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 557436001366 ligand binding site [chemical binding]; other site 557436001367 active site 557436001368 UGI interface [polypeptide binding]; other site 557436001369 catalytic site [active] 557436001370 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 557436001371 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 557436001372 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557436001373 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436001374 Coenzyme A binding pocket [chemical binding]; other site 557436001375 PAS domain; Region: PAS_10; pfam13596 557436001376 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 557436001377 active site 557436001378 catalytic site [active] 557436001379 substrate binding site [chemical binding]; other site 557436001380 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 557436001381 FAD binding domain; Region: FAD_binding_4; pfam01565 557436001382 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 557436001383 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557436001384 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 557436001385 substrate binding site [chemical binding]; other site 557436001386 dimer interface [polypeptide binding]; other site 557436001387 ATP binding site [chemical binding]; other site 557436001388 D-ribose pyranase; Provisional; Region: PRK11797 557436001389 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 557436001390 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 557436001391 putative substrate translocation pore; other site 557436001392 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 557436001393 Uncharacterized conserved protein [Function unknown]; Region: COG1624 557436001394 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 557436001395 YbbR-like protein; Region: YbbR; pfam07949 557436001396 YbbR-like protein; Region: YbbR; pfam07949 557436001397 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 557436001398 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 557436001399 active site 557436001400 substrate binding site [chemical binding]; other site 557436001401 metal binding site [ion binding]; metal-binding site 557436001402 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 557436001403 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 557436001404 glutaminase active site [active] 557436001405 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 557436001406 dimer interface [polypeptide binding]; other site 557436001407 active site 557436001408 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 557436001409 dimer interface [polypeptide binding]; other site 557436001410 active site 557436001411 Acyltransferase family; Region: Acyl_transf_3; pfam01757 557436001412 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 557436001413 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 557436001414 catalytic triad [active] 557436001415 catalytic triad [active] 557436001416 oxyanion hole [active] 557436001417 MarR family; Region: MarR_2; pfam12802 557436001418 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 557436001419 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 557436001420 active site 557436001421 motif I; other site 557436001422 motif II; other site 557436001423 cell division suppressor protein YneA; Provisional; Region: PRK14125 557436001424 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436001425 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557436001426 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 557436001427 active site 557436001428 phosphorylation site [posttranslational modification] 557436001429 intermolecular recognition site; other site 557436001430 dimerization interface [polypeptide binding]; other site 557436001431 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 557436001432 DNA binding site [nucleotide binding] 557436001433 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557436001434 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 557436001435 dimerization interface [polypeptide binding]; other site 557436001436 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 557436001437 dimer interface [polypeptide binding]; other site 557436001438 phosphorylation site [posttranslational modification] 557436001439 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 557436001440 ATP binding site [chemical binding]; other site 557436001441 Mg2+ binding site [ion binding]; other site 557436001442 G-X-G motif; other site 557436001443 Sugar transport protein; Region: Sugar_transport; pfam06800 557436001444 maltose O-acetyltransferase; Provisional; Region: PRK10092 557436001445 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 557436001446 active site 557436001447 substrate binding site [chemical binding]; other site 557436001448 trimer interface [polypeptide binding]; other site 557436001449 CoA binding site [chemical binding]; other site 557436001450 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 557436001451 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 557436001452 active site 557436001453 dimer interface [polypeptide binding]; other site 557436001454 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 557436001455 dimer interface [polypeptide binding]; other site 557436001456 active site 557436001457 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557436001458 nucleotide binding site [chemical binding]; other site 557436001459 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436001460 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 557436001461 Response regulator receiver domain; Region: Response_reg; pfam00072 557436001462 active site 557436001463 phosphorylation site [posttranslational modification] 557436001464 intermolecular recognition site; other site 557436001465 dimerization interface [polypeptide binding]; other site 557436001466 YcbB domain; Region: YcbB; pfam08664 557436001467 ornithine carbamoyltransferase; Provisional; Region: PRK04284 557436001468 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557436001469 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557436001470 carbamate kinase; Reviewed; Region: PRK12686 557436001471 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 557436001472 putative substrate binding site [chemical binding]; other site 557436001473 nucleotide binding site [chemical binding]; other site 557436001474 nucleotide binding site [chemical binding]; other site 557436001475 homodimer interface [polypeptide binding]; other site 557436001476 EamA-like transporter family; Region: EamA; pfam00892 557436001477 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557436001478 EamA-like transporter family; Region: EamA; pfam00892 557436001479 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 557436001480 active site 557436001481 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 557436001482 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 557436001483 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 557436001484 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557436001485 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557436001486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 557436001487 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557436001488 RFX DNA-binding domain; Region: RFX_DNA_binding; pfam02257 557436001489 HTH-like domain; Region: HTH_21; pfam13276 557436001490 Integrase core domain; Region: rve; pfam00665 557436001491 Helix-turn-helix domain; Region: HTH_28; pfam13518 557436001492 Beta-lactamase; Region: Beta-lactamase; pfam00144 557436001493 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557436001494 arginine deiminase; Provisional; Region: PRK01388 557436001495 Arginine repressor [Transcription]; Region: ArgR; COG1438 557436001496 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 557436001497 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 557436001498 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 557436001499 histidine-histamine antiporter; Region: his_histam_anti; TIGR04298 557436001500 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 557436001501 catalytic triad [active] 557436001502 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 557436001503 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557436001504 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 557436001505 thymidine kinase; Provisional; Region: PRK04296 557436001506 peptide chain release factor 1; Validated; Region: prfA; PRK00591 557436001507 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557436001508 RF-1 domain; Region: RF-1; pfam00472 557436001509 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 557436001510 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 557436001511 S-adenosylmethionine binding site [chemical binding]; other site 557436001512 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 557436001513 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 557436001514 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 557436001515 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 557436001516 dimer interface [polypeptide binding]; other site 557436001517 active site 557436001518 glycine-pyridoxal phosphate binding site [chemical binding]; other site 557436001519 folate binding site [chemical binding]; other site 557436001520 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436001521 active site 557436001522 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 557436001523 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557436001524 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557436001525 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557436001526 YibE/F-like protein; Region: YibE_F; pfam07907 557436001527 YibE/F-like protein; Region: YibE_F; pfam07907 557436001528 uracil transporter; Provisional; Region: PRK10720 557436001529 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 557436001530 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 557436001531 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 557436001532 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 557436001533 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 557436001534 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 557436001535 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 557436001536 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 557436001537 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557436001538 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 557436001539 beta subunit interaction interface [polypeptide binding]; other site 557436001540 Walker A motif; other site 557436001541 ATP binding site [chemical binding]; other site 557436001542 Walker B motif; other site 557436001543 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557436001544 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 557436001545 core domain interface [polypeptide binding]; other site 557436001546 delta subunit interface [polypeptide binding]; other site 557436001547 epsilon subunit interface [polypeptide binding]; other site 557436001548 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 557436001549 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557436001550 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 557436001551 alpha subunit interaction interface [polypeptide binding]; other site 557436001552 Walker A motif; other site 557436001553 ATP binding site [chemical binding]; other site 557436001554 Walker B motif; other site 557436001555 inhibitor binding site; inhibition site 557436001556 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557436001557 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 557436001558 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 557436001559 gamma subunit interface [polypeptide binding]; other site 557436001560 epsilon subunit interface [polypeptide binding]; other site 557436001561 LBP interface [polypeptide binding]; other site 557436001562 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 557436001563 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 557436001564 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 557436001565 hinge; other site 557436001566 active site 557436001567 rod shape-determining protein MreB; Provisional; Region: PRK13930 557436001568 MreB and similar proteins; Region: MreB_like; cd10225 557436001569 nucleotide binding site [chemical binding]; other site 557436001570 Mg binding site [ion binding]; other site 557436001571 putative protofilament interaction site [polypeptide binding]; other site 557436001572 RodZ interaction site [polypeptide binding]; other site 557436001573 Haemolytic domain; Region: Haemolytic; pfam01809 557436001574 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 557436001575 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 557436001576 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 557436001577 lipoyl attachment site [posttranslational modification]; other site 557436001578 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 557436001579 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 557436001580 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 557436001581 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 557436001582 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557436001583 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 557436001584 non-specific DNA binding site [nucleotide binding]; other site 557436001585 salt bridge; other site 557436001586 sequence-specific DNA binding site [nucleotide binding]; other site 557436001587 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 557436001588 binding surface 557436001589 TPR motif; other site 557436001590 Tetratricopeptide repeat; Region: TPR_12; pfam13424 557436001591 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 557436001592 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 557436001593 putative substrate translocation pore; other site 557436001594 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 557436001595 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 557436001596 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 557436001597 putative N- and C-terminal domain interface [polypeptide binding]; other site 557436001598 putative active site [active] 557436001599 MgATP binding site [chemical binding]; other site 557436001600 catalytic site [active] 557436001601 metal binding site [ion binding]; metal-binding site 557436001602 putative carbohydrate binding site [chemical binding]; other site 557436001603 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 557436001604 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 557436001605 intersubunit interface [polypeptide binding]; other site 557436001606 active site 557436001607 Zn2+ binding site [ion binding]; other site 557436001608 L-arabinose isomerase; Provisional; Region: PRK02929 557436001609 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 557436001610 hexamer (dimer of trimers) interface [polypeptide binding]; other site 557436001611 substrate binding site [chemical binding]; other site 557436001612 trimer interface [polypeptide binding]; other site 557436001613 Mn binding site [ion binding]; other site 557436001614 maltose O-acetyltransferase; Provisional; Region: PRK10092 557436001615 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 557436001616 active site 557436001617 substrate binding site [chemical binding]; other site 557436001618 trimer interface [polypeptide binding]; other site 557436001619 CoA binding site [chemical binding]; other site 557436001620 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 557436001621 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557436001622 active site 557436001623 catalytic tetrad [active] 557436001624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557436001625 DNA-binding site [nucleotide binding]; DNA binding site 557436001626 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557436001627 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 557436001628 putative dimerization interface [polypeptide binding]; other site 557436001629 putative ligand binding site [chemical binding]; other site 557436001630 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 557436001631 Ligand Binding Site [chemical binding]; other site 557436001632 recombination factor protein RarA; Reviewed; Region: PRK13342 557436001633 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 557436001634 Walker A motif; other site 557436001635 ATP binding site [chemical binding]; other site 557436001636 Walker B motif; other site 557436001637 arginine finger; other site 557436001638 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 557436001639 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 557436001640 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; cd06587 557436001641 active site 557436001642 metal binding site [ion binding]; metal-binding site 557436001643 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557436001644 Predicted membrane protein [Function unknown]; Region: COG2364 557436001645 hypothetical protein; Validated; Region: PRK02101 557436001646 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 557436001647 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557436001648 PYR/PP interface [polypeptide binding]; other site 557436001649 dimer interface [polypeptide binding]; other site 557436001650 TPP binding site [chemical binding]; other site 557436001651 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557436001652 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 557436001653 TPP-binding site; other site 557436001654 dimer interface [polypeptide binding]; other site 557436001655 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557436001656 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436001657 formyl-coenzyme A transferase; Provisional; Region: PRK05398 557436001658 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 557436001659 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436001660 putative active site [active] 557436001661 putative NTP binding site [chemical binding]; other site 557436001662 putative nucleic acid binding site [nucleotide binding]; other site 557436001663 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436001664 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 557436001665 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 557436001666 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 557436001667 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 557436001668 RNA binding surface [nucleotide binding]; other site 557436001669 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 557436001670 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 557436001671 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 557436001672 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557436001673 catalytic residue [active] 557436001674 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 557436001675 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 557436001676 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 557436001677 Ligand Binding Site [chemical binding]; other site 557436001678 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 557436001679 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557436001680 active site 557436001681 HIGH motif; other site 557436001682 nucleotide binding site [chemical binding]; other site 557436001683 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557436001684 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 557436001685 active site 557436001686 KMSKS motif; other site 557436001687 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 557436001688 tRNA binding surface [nucleotide binding]; other site 557436001689 anticodon binding site; other site 557436001690 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 557436001691 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 557436001692 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 557436001693 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 557436001694 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 557436001695 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 557436001696 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557436001697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436001698 Walker A/P-loop; other site 557436001699 ATP binding site [chemical binding]; other site 557436001700 Q-loop/lid; other site 557436001701 ABC transporter signature motif; other site 557436001702 Walker B; other site 557436001703 D-loop; other site 557436001704 H-loop/switch region; other site 557436001705 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 557436001706 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557436001707 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 557436001708 Walker A/P-loop; other site 557436001709 ATP binding site [chemical binding]; other site 557436001710 Q-loop/lid; other site 557436001711 ABC transporter signature motif; other site 557436001712 Walker B; other site 557436001713 D-loop; other site 557436001714 H-loop/switch region; other site 557436001715 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 557436001716 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557436001717 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 557436001718 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557436001719 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 557436001720 MPN+ (JAMM) motif; other site 557436001721 Zinc-binding site [ion binding]; other site 557436001722 rod shape-determining protein MreB; Provisional; Region: PRK13927 557436001723 MreB and similar proteins; Region: MreB_like; cd10225 557436001724 nucleotide binding site [chemical binding]; other site 557436001725 Mg binding site [ion binding]; other site 557436001726 putative protofilament interaction site [polypeptide binding]; other site 557436001727 RodZ interaction site [polypeptide binding]; other site 557436001728 rod shape-determining protein MreC; Provisional; Region: PRK13922 557436001729 rod shape-determining protein MreC; Region: MreC; pfam04085 557436001730 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 557436001731 dimer interface [polypeptide binding]; other site 557436001732 conserved gate region; other site 557436001733 putative PBP binding loops; other site 557436001734 ABC-ATPase subunit interface; other site 557436001735 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557436001736 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436001737 Walker A/P-loop; other site 557436001738 ATP binding site [chemical binding]; other site 557436001739 Q-loop/lid; other site 557436001740 ABC transporter signature motif; other site 557436001741 Walker B; other site 557436001742 D-loop; other site 557436001743 H-loop/switch region; other site 557436001744 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557436001745 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 557436001746 substrate binding pocket [chemical binding]; other site 557436001747 membrane-bound complex binding site; other site 557436001748 hinge residues; other site 557436001749 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557436001750 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557436001751 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557436001752 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557436001753 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557436001754 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 557436001755 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 557436001756 non-specific DNA binding site [nucleotide binding]; other site 557436001757 salt bridge; other site 557436001758 sequence-specific DNA binding site [nucleotide binding]; other site 557436001759 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 557436001760 competence damage-inducible protein A; Provisional; Region: PRK00549 557436001761 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 557436001762 putative MPT binding site; other site 557436001763 Competence-damaged protein; Region: CinA; pfam02464 557436001764 recombinase A; Provisional; Region: recA; PRK09354 557436001765 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 557436001766 hexamer interface [polypeptide binding]; other site 557436001767 Walker A motif; other site 557436001768 ATP binding site [chemical binding]; other site 557436001769 Walker B motif; other site 557436001770 phosphodiesterase; Provisional; Region: PRK12704 557436001771 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557436001772 Zn2+ binding site [ion binding]; other site 557436001773 Mg2+ binding site [ion binding]; other site 557436001774 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 557436001775 MutS domain I; Region: MutS_I; pfam01624 557436001776 MutS domain II; Region: MutS_II; pfam05188 557436001777 MutS domain III; Region: MutS_III; pfam05192 557436001778 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 557436001779 Walker A/P-loop; other site 557436001780 ATP binding site [chemical binding]; other site 557436001781 Q-loop/lid; other site 557436001782 ABC transporter signature motif; other site 557436001783 Walker B; other site 557436001784 D-loop; other site 557436001785 H-loop/switch region; other site 557436001786 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 557436001787 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 557436001788 ATP binding site [chemical binding]; other site 557436001789 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 557436001790 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 557436001791 RuvA N terminal domain; Region: RuvA_N; pfam01330 557436001792 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 557436001793 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 557436001794 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 557436001795 Walker A motif; other site 557436001796 ATP binding site [chemical binding]; other site 557436001797 Walker B motif; other site 557436001798 arginine finger; other site 557436001799 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 557436001800 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 557436001801 Queuine tRNA-ribosyltransferase; Region: TGT; pfam01702 557436001802 Preprotein translocase subunit; Region: YajC; pfam02699 557436001803 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 557436001804 DHH family; Region: DHH; pfam01368 557436001805 DHHA1 domain; Region: DHHA1; pfam02272 557436001806 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 557436001807 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557436001808 ATP binding site [chemical binding]; other site 557436001809 Mg++ binding site [ion binding]; other site 557436001810 motif III; other site 557436001811 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 557436001812 nucleotide binding region [chemical binding]; other site 557436001813 ATP-binding site [chemical binding]; other site 557436001814 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 557436001815 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 557436001816 motif 1; other site 557436001817 active site 557436001818 motif 2; other site 557436001819 motif 3; other site 557436001820 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 557436001821 hypothetical protein; Provisional; Region: PRK05473 557436001822 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 557436001823 hypothetical protein; Provisional; Region: PRK13678 557436001824 Colicin V production protein; Region: Colicin_V; pfam02674 557436001825 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 557436001826 MutS domain III; Region: MutS_III; pfam05192 557436001827 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436001828 Walker A/P-loop; other site 557436001829 ATP binding site [chemical binding]; other site 557436001830 Q-loop/lid; other site 557436001831 ABC transporter signature motif; other site 557436001832 Walker B; other site 557436001833 D-loop; other site 557436001834 H-loop/switch region; other site 557436001835 Smr domain; Region: Smr; pfam01713 557436001836 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 557436001837 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557436001838 catalytic residues [active] 557436001839 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 557436001840 glutamate racemase; Provisional; Region: PRK00865 557436001841 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 557436001842 active site 557436001843 dimerization interface [polypeptide binding]; other site 557436001844 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 557436001845 active site 557436001846 metal binding site [ion binding]; metal-binding site 557436001847 homotetramer interface [polypeptide binding]; other site 557436001848 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 557436001849 FOG: CBS domain [General function prediction only]; Region: COG0517 557436001850 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 557436001851 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 557436001852 active site 557436001853 motif I; other site 557436001854 motif II; other site 557436001855 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557436001856 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 557436001857 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557436001858 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 557436001859 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557436001860 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 557436001861 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 557436001862 active site 557436001863 catabolite control protein A; Region: ccpA; TIGR01481 557436001864 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557436001865 DNA binding site [nucleotide binding] 557436001866 domain linker motif; other site 557436001867 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 557436001868 dimerization interface [polypeptide binding]; other site 557436001869 effector binding site; other site 557436001870 hypothetical protein; Validated; Region: PRK00110 557436001871 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 557436001872 Walker A motif; other site 557436001873 ATP binding site [chemical binding]; other site 557436001874 Walker B motif; other site 557436001875 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 557436001876 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557436001877 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 557436001878 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 557436001879 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 557436001880 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 557436001881 propionate/acetate kinase; Provisional; Region: PRK12379 557436001882 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 557436001883 putative active site [active] 557436001884 putative metal binding site [ion binding]; other site 557436001885 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 557436001886 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 557436001887 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 557436001888 active site 557436001889 motif I; other site 557436001890 motif II; other site 557436001891 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 557436001892 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 557436001893 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557436001894 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557436001895 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 557436001896 ArsC family; Region: ArsC; pfam03960 557436001897 putative catalytic residues [active] 557436001898 thiol/disulfide switch; other site 557436001899 adaptor protein; Provisional; Region: PRK02315 557436001900 Competence protein CoiA-like family; Region: CoiA; cl11541 557436001901 Peptidase family C69; Region: Peptidase_C69; pfam03577 557436001902 Thioredoxin; Region: Thioredoxin_5; pfam13743 557436001903 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557436001904 synthetase active site [active] 557436001905 NTP binding site [chemical binding]; other site 557436001906 metal binding site [ion binding]; metal-binding site 557436001907 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 557436001908 ATP-NAD kinase; Region: NAD_kinase; pfam01513 557436001909 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557436001910 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557436001911 active site 557436001912 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557436001913 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557436001914 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 557436001915 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 557436001916 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 557436001917 S-adenosylmethionine binding site [chemical binding]; other site 557436001918 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 557436001919 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 557436001920 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 557436001921 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 557436001922 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 557436001923 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 557436001924 cell division protein MraZ; Reviewed; Region: PRK00326 557436001925 MraZ protein; Region: MraZ; pfam02381 557436001926 MraZ protein; Region: MraZ; pfam02381 557436001927 MraW methylase family; Region: Methyltransf_5; pfam01795 557436001928 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 557436001929 Cell division protein FtsL; Region: FtsL; cl11433 557436001930 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 557436001931 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557436001932 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557436001933 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 557436001934 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 557436001935 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 557436001936 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 557436001937 Mg++ binding site [ion binding]; other site 557436001938 putative catalytic motif [active] 557436001939 putative substrate binding site [chemical binding]; other site 557436001940 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 557436001941 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 557436001942 S-adenosylmethionine binding site [chemical binding]; other site 557436001943 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557436001944 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557436001945 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 557436001946 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 557436001947 active site 557436001948 homodimer interface [polypeptide binding]; other site 557436001949 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 557436001950 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 557436001951 Cell division protein FtsQ; Region: FtsQ; pfam03799 557436001952 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 557436001953 Cell division protein FtsA; Region: FtsA; smart00842 557436001954 Cell division protein FtsA; Region: FtsA; pfam14450 557436001955 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 557436001956 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 557436001957 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 557436001958 nucleotide binding site [chemical binding]; other site 557436001959 SulA interaction site; other site 557436001960 Protein of unknown function (DUF552); Region: DUF552; pfam04472 557436001961 YGGT family; Region: YGGT; pfam02325 557436001962 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 557436001963 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 557436001964 RNA binding surface [nucleotide binding]; other site 557436001965 DivIVA protein; Region: DivIVA; pfam05103 557436001966 DivIVA domain; Region: DivI1A_domain; TIGR03544 557436001967 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 557436001968 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557436001969 active site 557436001970 HIGH motif; other site 557436001971 nucleotide binding site [chemical binding]; other site 557436001972 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557436001973 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 557436001974 active site 557436001975 KMSKS motif; other site 557436001976 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 557436001977 tRNA binding surface [nucleotide binding]; other site 557436001978 anticodon binding site; other site 557436001979 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557436001980 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 557436001981 DNA-binding site [nucleotide binding]; DNA binding site 557436001982 RNA-binding motif; other site 557436001983 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 557436001984 dimer interface [polypeptide binding]; other site 557436001985 ADP-ribose binding site [chemical binding]; other site 557436001986 active site 557436001987 nudix motif; other site 557436001988 metal binding site [ion binding]; metal-binding site 557436001989 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 557436001990 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 557436001991 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 557436001992 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 557436001993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557436001994 catalytic residue [active] 557436001995 Putative amino acid metabolism; Region: DUF1831; pfam08866 557436001996 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 557436001997 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 557436001998 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 557436001999 catalytic core [active] 557436002000 Tetratricopeptide repeat; Region: TPR_12; pfam13424 557436002001 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 557436002002 binding surface 557436002003 TPR motif; other site 557436002004 TPR repeat; Region: TPR_11; pfam13414 557436002005 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 557436002006 binding surface 557436002007 TPR motif; other site 557436002008 Tetratricopeptide repeat; Region: TPR_16; pfam13432 557436002009 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 557436002010 AAA domain; Region: AAA_30; pfam13604 557436002011 Family description; Region: UvrD_C_2; pfam13538 557436002012 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 557436002013 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 557436002014 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436002015 active site 557436002016 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 557436002017 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557436002018 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557436002019 aspartate kinase; Reviewed; Region: PRK09034 557436002020 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 557436002021 putative catalytic residues [active] 557436002022 putative nucleotide binding site [chemical binding]; other site 557436002023 putative aspartate binding site [chemical binding]; other site 557436002024 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 557436002025 allosteric regulatory residue; other site 557436002026 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 557436002027 diaminopimelate decarboxylase; Region: lysA; TIGR01048 557436002028 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 557436002029 active site 557436002030 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557436002031 substrate binding site [chemical binding]; other site 557436002032 catalytic residues [active] 557436002033 dimer interface [polypeptide binding]; other site 557436002034 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 557436002035 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 557436002036 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 557436002037 active site 557436002038 trimer interface [polypeptide binding]; other site 557436002039 substrate binding site [chemical binding]; other site 557436002040 CoA binding site [chemical binding]; other site 557436002041 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 557436002042 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 557436002043 metal binding site [ion binding]; metal-binding site 557436002044 putative dimer interface [polypeptide binding]; other site 557436002045 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 557436002046 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557436002047 dimer interface [polypeptide binding]; other site 557436002048 active site 557436002049 catalytic residue [active] 557436002050 dihydrodipicolinate reductase; Provisional; Region: PRK00048 557436002051 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 557436002052 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 557436002053 aromatic amino acid aminotransferase; Validated; Region: PRK07309 557436002054 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 557436002055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436002056 homodimer interface [polypeptide binding]; other site 557436002057 catalytic residue [active] 557436002058 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 557436002059 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 557436002060 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 557436002061 fructuronate transporter; Provisional; Region: PRK10034; cl15264 557436002062 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 557436002063 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436002064 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436002065 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557436002066 NlpC/P60 family; Region: NLPC_P60; pfam00877 557436002067 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 557436002068 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 557436002069 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 557436002070 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 557436002071 active site 557436002072 catalytic residues [active] 557436002073 metal binding site [ion binding]; metal-binding site 557436002074 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 557436002075 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 557436002076 TPP-binding site [chemical binding]; other site 557436002077 heterodimer interface [polypeptide binding]; other site 557436002078 tetramer interface [polypeptide binding]; other site 557436002079 phosphorylation loop region [posttranslational modification] 557436002080 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 557436002081 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 557436002082 alpha subunit interface [polypeptide binding]; other site 557436002083 TPP binding site [chemical binding]; other site 557436002084 heterodimer interface [polypeptide binding]; other site 557436002085 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557436002086 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 557436002087 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 557436002088 E3 interaction surface; other site 557436002089 lipoyl attachment site [posttranslational modification]; other site 557436002090 e3 binding domain; Region: E3_binding; pfam02817 557436002091 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557436002092 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 557436002093 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557436002094 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557436002095 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557436002096 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 557436002097 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 557436002098 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557436002099 active site 557436002100 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 557436002101 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 557436002102 G1 box; other site 557436002103 putative GEF interaction site [polypeptide binding]; other site 557436002104 GTP/Mg2+ binding site [chemical binding]; other site 557436002105 Switch I region; other site 557436002106 G2 box; other site 557436002107 G3 box; other site 557436002108 Switch II region; other site 557436002109 G4 box; other site 557436002110 G5 box; other site 557436002111 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 557436002112 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 557436002113 cell division protein FtsW; Region: ftsW; TIGR02614 557436002114 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 557436002115 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 557436002116 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 557436002117 S-adenosylmethionine binding site [chemical binding]; other site 557436002118 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 557436002119 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 557436002120 active site 557436002121 (T/H)XGH motif; other site 557436002122 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 557436002123 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 557436002124 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 557436002125 SLBB domain; Region: SLBB; pfam10531 557436002126 comEA protein; Region: comE; TIGR01259 557436002127 Helix-hairpin-helix motif; Region: HHH; pfam00633 557436002128 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 557436002129 catalytic motif [active] 557436002130 Zn binding site [ion binding]; other site 557436002131 Competence protein; Region: Competence; pfam03772 557436002132 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 557436002133 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557436002134 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 557436002135 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 557436002136 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 557436002137 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 557436002138 16S/18S rRNA binding site [nucleotide binding]; other site 557436002139 S13e-L30e interaction site [polypeptide binding]; other site 557436002140 25S rRNA binding site [nucleotide binding]; other site 557436002141 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 557436002142 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557436002143 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 557436002144 elongation factor Tu; Reviewed; Region: PRK00049 557436002145 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557436002146 G1 box; other site 557436002147 GEF interaction site [polypeptide binding]; other site 557436002148 GTP/Mg2+ binding site [chemical binding]; other site 557436002149 Switch I region; other site 557436002150 G2 box; other site 557436002151 G3 box; other site 557436002152 Switch II region; other site 557436002153 G4 box; other site 557436002154 G5 box; other site 557436002155 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 557436002156 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 557436002157 Antibiotic Binding Site [chemical binding]; other site 557436002158 trigger factor; Provisional; Region: tig; PRK01490 557436002159 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557436002160 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 557436002161 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 557436002162 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 557436002163 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 557436002164 Walker A motif; other site 557436002165 ATP binding site [chemical binding]; other site 557436002166 Walker B motif; other site 557436002167 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557436002168 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 557436002169 G1 box; other site 557436002170 GTP/Mg2+ binding site [chemical binding]; other site 557436002171 Switch I region; other site 557436002172 G2 box; other site 557436002173 G3 box; other site 557436002174 Switch II region; other site 557436002175 G4 box; other site 557436002176 G5 box; other site 557436002177 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 557436002178 putative metal binding site [ion binding]; other site 557436002179 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 557436002180 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 557436002181 GIY-YIG motif/motif A; other site 557436002182 active site 557436002183 catalytic site [active] 557436002184 putative DNA binding site [nucleotide binding]; other site 557436002185 metal binding site [ion binding]; metal-binding site 557436002186 UvrB/uvrC motif; Region: UVR; pfam02151 557436002187 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 557436002188 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 557436002189 DNA binding site [nucleotide binding] 557436002190 GTPase CgtA; Reviewed; Region: obgE; PRK12297 557436002191 GTP1/OBG; Region: GTP1_OBG; pfam01018 557436002192 Obg GTPase; Region: Obg; cd01898 557436002193 G1 box; other site 557436002194 GTP/Mg2+ binding site [chemical binding]; other site 557436002195 Switch I region; other site 557436002196 G2 box; other site 557436002197 G3 box; other site 557436002198 Switch II region; other site 557436002199 G4 box; other site 557436002200 G5 box; other site 557436002201 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 557436002202 ribonuclease Z; Region: RNase_Z; TIGR02651 557436002203 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 557436002204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557436002205 NAD(P) binding site [chemical binding]; other site 557436002206 active site 557436002207 DHH family; Region: DHH; pfam01368 557436002208 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 557436002209 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 557436002210 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 557436002211 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 557436002212 active site 557436002213 Phage terminase, small subunit; Region: Terminase_4; pfam05119 557436002214 Phage Terminase; Region: Terminase_1; pfam03354 557436002215 Phage portal protein; Region: Phage_portal; pfam04860 557436002216 Phage-related protein [Function unknown]; Region: COG4695; cl01923 557436002217 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 557436002218 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 557436002219 Phage capsid family; Region: Phage_capsid; pfam05065 557436002220 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 557436002221 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 557436002222 oligomerization interface [polypeptide binding]; other site 557436002223 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 557436002224 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 557436002225 RNA/DNA hybrid binding site [nucleotide binding]; other site 557436002226 active site 557436002227 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 557436002228 "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 557436002229 dimer interface [polypeptide binding]; other site 557436002230 active site 557436002231 LexA repressor; Validated; Region: PRK00215 557436002232 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 557436002233 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 557436002234 Catalytic site [active] 557436002235 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 557436002236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 557436002237 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557436002238 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 557436002239 putative acyl-acceptor binding pocket; other site 557436002240 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 557436002241 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 557436002242 S-adenosylmethionine binding site [chemical binding]; other site 557436002243 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 557436002244 GIY-YIG motif/motif A; other site 557436002245 putative active site [active] 557436002246 putative metal binding site [ion binding]; other site 557436002247 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 557436002248 D-lactate dehydrogenase; Validated; Region: PRK08605 557436002249 homodimer interface [polypeptide binding]; other site 557436002250 ligand binding site [chemical binding]; other site 557436002251 NAD binding site [chemical binding]; other site 557436002252 catalytic site [active] 557436002253 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 557436002254 rRNA interaction site [nucleotide binding]; other site 557436002255 S8 interaction site; other site 557436002256 putative laminin-1 binding site; other site 557436002257 elongation factor Ts; Provisional; Region: tsf; PRK09377 557436002258 UBA/TS-N domain; Region: UBA; pfam00627 557436002259 Elongation factor TS; Region: EF_TS; pfam00889 557436002260 Elongation factor TS; Region: EF_TS; pfam00889 557436002261 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 557436002262 putative nucleotide binding site [chemical binding]; other site 557436002263 uridine monophosphate binding site [chemical binding]; other site 557436002264 homohexameric interface [polypeptide binding]; other site 557436002265 ribosome recycling factor; Reviewed; Region: frr; PRK00083 557436002266 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 557436002267 hinge region; other site 557436002268 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 557436002269 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436002270 putative active site [active] 557436002271 putative NTP binding site [chemical binding]; other site 557436002272 putative nucleic acid binding site [nucleotide binding]; other site 557436002273 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436002274 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436002275 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 557436002276 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 557436002277 catalytic residue [active] 557436002278 putative FPP diphosphate binding site; other site 557436002279 putative FPP binding hydrophobic cleft; other site 557436002280 dimer interface [polypeptide binding]; other site 557436002281 putative IPP diphosphate binding site; other site 557436002282 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 557436002283 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 557436002284 RIP metalloprotease RseP; Region: TIGR00054 557436002285 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 557436002286 active site 557436002287 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 557436002288 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 557436002289 protein binding site [polypeptide binding]; other site 557436002290 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 557436002291 putative substrate binding region [chemical binding]; other site 557436002292 prolyl-tRNA synthetase; Provisional; Region: PRK09194 557436002293 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 557436002294 dimer interface [polypeptide binding]; other site 557436002295 motif 1; other site 557436002296 active site 557436002297 motif 2; other site 557436002298 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 557436002299 putative deacylase active site [active] 557436002300 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 557436002301 active site 557436002302 motif 3; other site 557436002303 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 557436002304 anticodon binding site; other site 557436002305 DNA polymerase III PolC; Validated; Region: polC; PRK00448 557436002306 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 557436002307 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 557436002308 generic binding surface II; other site 557436002309 generic binding surface I; other site 557436002310 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 557436002311 active site 557436002312 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 557436002313 active site 557436002314 catalytic site [active] 557436002315 substrate binding site [chemical binding]; other site 557436002316 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 557436002317 ribosome maturation protein RimP; Reviewed; Region: PRK00092 557436002318 Sm and related proteins; Region: Sm_like; cl00259 557436002319 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 557436002320 putative oligomer interface [polypeptide binding]; other site 557436002321 putative RNA binding site [nucleotide binding]; other site 557436002322 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 557436002323 NusA N-terminal domain; Region: NusA_N; pfam08529 557436002324 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 557436002325 RNA binding site [nucleotide binding]; other site 557436002326 homodimer interface [polypeptide binding]; other site 557436002327 NusA-like KH domain; Region: KH_5; pfam13184 557436002328 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 557436002329 G-X-X-G motif; other site 557436002330 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 557436002331 putative RNA binding cleft [nucleotide binding]; other site 557436002332 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 557436002333 translation initiation factor IF-2; Validated; Region: infB; PRK05306 557436002334 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 557436002335 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 557436002336 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 557436002337 G1 box; other site 557436002338 putative GEF interaction site [polypeptide binding]; other site 557436002339 GTP/Mg2+ binding site [chemical binding]; other site 557436002340 Switch I region; other site 557436002341 G2 box; other site 557436002342 G3 box; other site 557436002343 Switch II region; other site 557436002344 G4 box; other site 557436002345 G5 box; other site 557436002346 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 557436002347 Translation-initiation factor 2; Region: IF-2; pfam11987 557436002348 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 557436002349 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 557436002350 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 557436002351 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 557436002352 RNA binding site [nucleotide binding]; other site 557436002353 active site 557436002354 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 557436002355 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 557436002356 active site 557436002357 Riboflavin kinase; Region: Flavokinase; smart00904 557436002358 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 557436002359 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 557436002360 GrpE; Region: GrpE; pfam01025 557436002361 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 557436002362 dimer interface [polypeptide binding]; other site 557436002363 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 557436002364 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 557436002365 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 557436002366 nucleotide binding site [chemical binding]; other site 557436002367 NEF interaction site [polypeptide binding]; other site 557436002368 SBD interface [polypeptide binding]; other site 557436002369 chaperone protein DnaJ; Provisional; Region: PRK14276 557436002370 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 557436002371 HSP70 interaction site [polypeptide binding]; other site 557436002372 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 557436002373 substrate binding site [polypeptide binding]; other site 557436002374 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 557436002375 Zn binding sites [ion binding]; other site 557436002376 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 557436002377 dimer interface [polypeptide binding]; other site 557436002378 GTP-binding protein LepA; Provisional; Region: PRK05433 557436002379 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 557436002380 G1 box; other site 557436002381 putative GEF interaction site [polypeptide binding]; other site 557436002382 GTP/Mg2+ binding site [chemical binding]; other site 557436002383 Switch I region; other site 557436002384 G2 box; other site 557436002385 G3 box; other site 557436002386 Switch II region; other site 557436002387 G4 box; other site 557436002388 G5 box; other site 557436002389 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 557436002390 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 557436002391 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 557436002392 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 557436002393 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 557436002394 Int/Topo IB signature motif; other site 557436002395 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557436002396 Peptidase family C69; Region: Peptidase_C69; pfam03577 557436002397 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 557436002398 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 557436002399 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557436002400 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557436002401 NAD binding site [chemical binding]; other site 557436002402 dimer interface [polypeptide binding]; other site 557436002403 substrate binding site [chemical binding]; other site 557436002404 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 557436002405 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 557436002406 S-adenosylmethionine binding site [chemical binding]; other site 557436002407 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 557436002408 RNA methyltransferase, RsmE family; Region: TIGR00046 557436002409 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 557436002410 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557436002411 Zn2+ binding site [ion binding]; other site 557436002412 Mg2+ binding site [ion binding]; other site 557436002413 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557436002414 synthetase active site [active] 557436002415 NTP binding site [chemical binding]; other site 557436002416 metal binding site [ion binding]; metal-binding site 557436002417 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 557436002418 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 557436002419 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 557436002420 putative active site [active] 557436002421 dimerization interface [polypeptide binding]; other site 557436002422 putative tRNAtyr binding site [nucleotide binding]; other site 557436002423 Phosphotransferase enzyme family; Region: APH; pfam01636 557436002424 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 557436002425 active site 557436002426 substrate binding site [chemical binding]; other site 557436002427 ATP binding site [chemical binding]; other site 557436002428 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 557436002429 substrate binding site [chemical binding]; other site 557436002430 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 557436002431 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 557436002432 dimer interface [polypeptide binding]; other site 557436002433 anticodon binding site; other site 557436002434 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 557436002435 homodimer interface [polypeptide binding]; other site 557436002436 motif 1; other site 557436002437 active site 557436002438 motif 2; other site 557436002439 GAD domain; Region: GAD; pfam02938 557436002440 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 557436002441 active site 557436002442 motif 3; other site 557436002443 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436002444 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557436002445 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557436002446 Walker A/P-loop; other site 557436002447 ATP binding site [chemical binding]; other site 557436002448 Q-loop/lid; other site 557436002449 ABC transporter signature motif; other site 557436002450 Walker B; other site 557436002451 D-loop; other site 557436002452 H-loop/switch region; other site 557436002453 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557436002454 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 557436002455 substrate binding pocket [chemical binding]; other site 557436002456 membrane-bound complex binding site; other site 557436002457 hinge residues; other site 557436002458 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557436002459 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 557436002460 dimer interface [polypeptide binding]; other site 557436002461 conserved gate region; other site 557436002462 putative PBP binding loops; other site 557436002463 ABC-ATPase subunit interface; other site 557436002464 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 557436002465 Yqey-like protein; Region: YqeY; pfam09424 557436002466 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 557436002467 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 557436002468 active site 557436002469 argininosuccinate synthase; Provisional; Region: PRK13820 557436002470 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 557436002471 ANP binding site [chemical binding]; other site 557436002472 Substrate Binding Site II [chemical binding]; other site 557436002473 Substrate Binding Site I [chemical binding]; other site 557436002474 argininosuccinate lyase; Provisional; Region: PRK00855 557436002475 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 557436002476 active sites [active] 557436002477 tetramer interface [polypeptide binding]; other site 557436002478 BioY family; Region: BioY; pfam02632 557436002479 Biotin operon repressor [Transcription]; Region: BirA; COG1654 557436002480 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 557436002481 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 557436002482 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 557436002483 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 557436002484 PhoH-like protein; Region: PhoH; pfam02562 557436002485 metal-binding heat shock protein; Provisional; Region: PRK00016 557436002486 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 557436002487 GTPase Era; Reviewed; Region: era; PRK00089 557436002488 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 557436002489 G1 box; other site 557436002490 GTP/Mg2+ binding site [chemical binding]; other site 557436002491 Switch I region; other site 557436002492 G2 box; other site 557436002493 Switch II region; other site 557436002494 G3 box; other site 557436002495 G4 box; other site 557436002496 G5 box; other site 557436002497 Recombination protein O N terminal; Region: RecO_N; pfam11967 557436002498 DNA repair protein RecO; Region: reco; TIGR00613 557436002499 Recombination protein O C terminal; Region: RecO_C; pfam02565 557436002500 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 557436002501 dimer interface [polypeptide binding]; other site 557436002502 motif 1; other site 557436002503 active site 557436002504 motif 2; other site 557436002505 motif 3; other site 557436002506 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 557436002507 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 557436002508 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 557436002509 DNA primase; Validated; Region: dnaG; PRK05667 557436002510 CHC2 zinc finger; Region: zf-CHC2; pfam01807 557436002511 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 557436002512 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 557436002513 active site 557436002514 metal binding site [ion binding]; metal-binding site 557436002515 interdomain interaction site; other site 557436002516 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 557436002517 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 557436002518 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 557436002519 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557436002520 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557436002521 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557436002522 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 557436002523 DNA binding residues [nucleotide binding] 557436002524 aromatic amino acid aminotransferase; Validated; Region: PRK07309 557436002525 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 557436002526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436002527 homodimer interface [polypeptide binding]; other site 557436002528 catalytic residue [active] 557436002529 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 557436002530 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 557436002531 Family of unknown function (DUF633); Region: DUF633; pfam04816 557436002532 Uncharacterized conserved protein [Function unknown]; Region: COG0327 557436002533 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 557436002534 peptidase T; Region: peptidase-T; TIGR01882 557436002535 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 557436002536 metal binding site [ion binding]; metal-binding site 557436002537 dimer interface [polypeptide binding]; other site 557436002538 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 557436002539 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 557436002540 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 557436002541 active site 557436002542 PHP Thumb interface [polypeptide binding]; other site 557436002543 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 557436002544 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 557436002545 generic binding surface II; other site 557436002546 generic binding surface I; other site 557436002547 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 557436002548 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 557436002549 domain interfaces; other site 557436002550 active site 557436002551 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 557436002552 S1 domain; Region: S1_2; pfam13509 557436002553 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 557436002554 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 557436002555 active site 557436002556 DNA binding site [nucleotide binding] 557436002557 Int/Topo IB signature motif; other site 557436002558 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 557436002559 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 557436002560 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 557436002561 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 557436002562 RNA binding surface [nucleotide binding]; other site 557436002563 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 557436002564 active site 557436002565 Predicted membrane protein [Function unknown]; Region: COG3601 557436002566 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 557436002567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 557436002568 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 557436002569 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 557436002570 ATP binding site [chemical binding]; other site 557436002571 putative Mg++ binding site [ion binding]; other site 557436002572 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 557436002573 nucleotide binding region [chemical binding]; other site 557436002574 ATP-binding site [chemical binding]; other site 557436002575 cytidylate kinase; Provisional; Region: cmk; PRK00023 557436002576 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 557436002577 CMP-binding site; other site 557436002578 The sites determining sugar specificity; other site 557436002579 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 557436002580 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 557436002581 RNA binding site [nucleotide binding]; other site 557436002582 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 557436002583 RNA binding site [nucleotide binding]; other site 557436002584 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 557436002585 RNA binding site [nucleotide binding]; other site 557436002586 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 557436002587 RNA binding site [nucleotide binding]; other site 557436002588 GTP-binding protein Der; Reviewed; Region: PRK00093 557436002589 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 557436002590 G1 box; other site 557436002591 GTP/Mg2+ binding site [chemical binding]; other site 557436002592 Switch I region; other site 557436002593 G2 box; other site 557436002594 Switch II region; other site 557436002595 G3 box; other site 557436002596 G4 box; other site 557436002597 G5 box; other site 557436002598 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 557436002599 G1 box; other site 557436002600 GTP/Mg2+ binding site [chemical binding]; other site 557436002601 Switch I region; other site 557436002602 G2 box; other site 557436002603 G3 box; other site 557436002604 Switch II region; other site 557436002605 G4 box; other site 557436002606 G5 box; other site 557436002607 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 557436002608 IHF dimer interface [polypeptide binding]; other site 557436002609 IHF - DNA interface [nucleotide binding]; other site 557436002610 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 557436002611 binding surface 557436002612 TPR motif; other site 557436002613 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 557436002614 TPR motif; other site 557436002615 binding surface 557436002616 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 557436002617 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 557436002618 TPR motif; other site 557436002619 binding surface 557436002620 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 557436002621 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 557436002622 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 557436002623 active site 557436002624 NTP binding site [chemical binding]; other site 557436002625 metal binding triad [ion binding]; metal-binding site 557436002626 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557436002627 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 557436002628 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 557436002629 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436002630 Walker A/P-loop; other site 557436002631 ATP binding site [chemical binding]; other site 557436002632 Q-loop/lid; other site 557436002633 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557436002634 ABC transporter signature motif; other site 557436002635 Walker B; other site 557436002636 D-loop; other site 557436002637 ABC transporter; Region: ABC_tran_2; pfam12848 557436002638 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557436002639 thymidylate synthase; Region: thym_sym; TIGR03284 557436002640 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 557436002641 dimerization interface [polypeptide binding]; other site 557436002642 active site 557436002643 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 557436002644 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 557436002645 folate binding site [chemical binding]; other site 557436002646 NADP+ binding site [chemical binding]; other site 557436002647 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 557436002648 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 557436002649 EDD domain protein, DegV family; Region: DegV; TIGR00762 557436002650 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 557436002651 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 557436002652 active site 557436002653 catalytic triad [active] 557436002654 oxyanion hole [active] 557436002655 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 557436002656 hypothetical protein; Provisional; Region: PRK13672 557436002657 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 557436002658 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 557436002659 GTP/Mg2+ binding site [chemical binding]; other site 557436002660 G4 box; other site 557436002661 G5 box; other site 557436002662 G1 box; other site 557436002663 Switch I region; other site 557436002664 G2 box; other site 557436002665 G3 box; other site 557436002666 Switch II region; other site 557436002667 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 557436002668 RNA/DNA hybrid binding site [nucleotide binding]; other site 557436002669 active site 557436002670 DNA protecting protein DprA; Region: dprA; TIGR00732 557436002671 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 557436002672 DNA topoisomerase I; Validated; Region: PRK05582 557436002673 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 557436002674 active site 557436002675 interdomain interaction site; other site 557436002676 putative metal-binding site [ion binding]; other site 557436002677 nucleotide binding site [chemical binding]; other site 557436002678 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 557436002679 domain I; other site 557436002680 DNA binding groove [nucleotide binding] 557436002681 phosphate binding site [ion binding]; other site 557436002682 domain II; other site 557436002683 domain III; other site 557436002684 nucleotide binding site [chemical binding]; other site 557436002685 catalytic site [active] 557436002686 domain IV; other site 557436002687 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557436002688 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557436002689 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 557436002690 active site 557436002691 catalytic residues [active] 557436002692 membrane protein; Provisional; Region: PRK14392 557436002693 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 557436002694 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 557436002695 ATP binding site [chemical binding]; other site 557436002696 Mg2+ binding site [ion binding]; other site 557436002697 G-X-G motif; other site 557436002698 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 557436002699 anchoring element; other site 557436002700 dimer interface [polypeptide binding]; other site 557436002701 ATP binding site [chemical binding]; other site 557436002702 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 557436002703 active site 557436002704 putative metal-binding site [ion binding]; other site 557436002705 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557436002706 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 557436002707 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 557436002708 CAP-like domain; other site 557436002709 active site 557436002710 primary dimer interface [polypeptide binding]; other site 557436002711 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557436002712 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_18; cd04677 557436002713 nudix motif; other site 557436002714 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 557436002715 DHH family; Region: DHH; pfam01368 557436002716 DHHA2 domain; Region: DHHA2; pfam02833 557436002717 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436002718 Integrase core domain; Region: rve; pfam00665 557436002719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 557436002720 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 557436002721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436002722 Coenzyme A binding pocket [chemical binding]; other site 557436002723 Asp23 family; Region: Asp23; pfam03780 557436002724 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 557436002725 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 557436002726 N- and C-terminal domain interface [polypeptide binding]; other site 557436002727 active site 557436002728 catalytic site [active] 557436002729 metal binding site [ion binding]; metal-binding site 557436002730 carbohydrate binding site [chemical binding]; other site 557436002731 ATP binding site [chemical binding]; other site 557436002732 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557436002733 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557436002734 DNA binding site [nucleotide binding] 557436002735 domain linker motif; other site 557436002736 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 557436002737 putative dimerization interface [polypeptide binding]; other site 557436002738 putative ligand binding site [chemical binding]; other site 557436002739 GntP family permease; Region: GntP_permease; pfam02447 557436002740 fructuronate transporter; Provisional; Region: PRK10034; cl15264 557436002741 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 557436002742 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 557436002743 Presynaptic Site I dimer interface [polypeptide binding]; other site 557436002744 catalytic residues [active] 557436002745 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 557436002746 Synaptic Flat tetramer interface [polypeptide binding]; other site 557436002747 Synaptic Site I dimer interface [polypeptide binding]; other site 557436002748 DNA binding site [nucleotide binding] 557436002749 Recombinase; Region: Recombinase; pfam07508 557436002750 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 557436002751 Domain of unknown function (DUF955); Region: DUF955; pfam06114 557436002752 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557436002753 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 557436002754 non-specific DNA binding site [nucleotide binding]; other site 557436002755 salt bridge; other site 557436002756 sequence-specific DNA binding site [nucleotide binding]; other site 557436002757 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557436002758 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 557436002759 non-specific DNA binding site [nucleotide binding]; other site 557436002760 salt bridge; other site 557436002761 sequence-specific DNA binding site [nucleotide binding]; other site 557436002762 Prophage antirepressor [Transcription]; Region: COG3617 557436002763 BRO family, N-terminal domain; Region: Bro-N; smart01040 557436002764 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 557436002765 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 557436002766 non-specific DNA binding site [nucleotide binding]; other site 557436002767 salt bridge; other site 557436002768 sequence-specific DNA binding site [nucleotide binding]; other site 557436002769 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 557436002770 non-specific DNA binding site [nucleotide binding]; other site 557436002771 salt bridge; other site 557436002772 sequence-specific DNA binding site [nucleotide binding]; other site 557436002773 RecT family; Region: RecT; pfam03837 557436002774 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 557436002775 Helix-turn-helix domain; Region: HTH_36; pfam13730 557436002776 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 557436002777 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 557436002778 Ligand Binding Site [chemical binding]; other site 557436002779 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 557436002780 ParB-like nuclease domain; Region: ParB; smart00470 557436002781 Phage terminase large subunit; Region: Terminase_3; cl12054 557436002782 Terminase-like family; Region: Terminase_6; pfam03237 557436002783 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 557436002784 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 557436002785 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 557436002786 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 557436002787 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 557436002788 Phage protein; Region: DUF3647; pfam12363 557436002789 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557436002790 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 557436002791 Phage-related protein [Function unknown]; Region: COG5412 557436002792 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 557436002793 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557436002794 catalytic residue [active] 557436002795 Phage tail protein; Region: Sipho_tail; pfam05709 557436002796 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 557436002797 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 557436002798 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557436002799 catalytic residue [active] 557436002800 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557436002801 Peptidase family M23; Region: Peptidase_M23; pfam01551 557436002802 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 557436002803 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 557436002804 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 557436002805 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 557436002806 linker region; other site 557436002807 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 557436002808 active site 557436002809 catalytic triad [active] 557436002810 oxyanion hole [active] 557436002811 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 557436002812 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cl01843 557436002813 Holin family; Region: Phage_holin_4; pfam05105 557436002814 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 557436002815 amidase catalytic site [active] 557436002816 Zn binding residues [ion binding]; other site 557436002817 substrate binding site [chemical binding]; other site 557436002818 fructuronate transporter; Provisional; Region: PRK10034; cl15264 557436002819 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 557436002820 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 557436002821 N- and C-terminal domain interface [polypeptide binding]; other site 557436002822 active site 557436002823 catalytic site [active] 557436002824 metal binding site [ion binding]; metal-binding site 557436002825 carbohydrate binding site [chemical binding]; other site 557436002826 ATP binding site [chemical binding]; other site 557436002827 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 557436002828 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436002829 Coenzyme A binding pocket [chemical binding]; other site 557436002830 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 557436002831 amidase; Provisional; Region: PRK06529 557436002832 Amidase; Region: Amidase; cl11426 557436002833 Protein of unknown function (DUF805); Region: DUF805; pfam05656 557436002834 HsdM N-terminal domain; Region: HsdM_N; pfam12161 557436002835 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 557436002836 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557436002837 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557436002838 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557436002839 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557436002840 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 557436002841 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 557436002842 active site 557436002843 Int/Topo IB signature motif; other site 557436002844 DNA binding site [nucleotide binding] 557436002845 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557436002846 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557436002847 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 557436002848 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 557436002849 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 557436002850 ATP binding site [chemical binding]; other site 557436002851 putative Mg++ binding site [ion binding]; other site 557436002852 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 557436002853 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 557436002854 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 557436002855 homodimer interface [polypeptide binding]; other site 557436002856 putative active site [active] 557436002857 catalytic site [active] 557436002858 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 557436002859 active site 557436002860 tetramer interface [polypeptide binding]; other site 557436002861 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 557436002862 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 557436002863 catalytic motif [active] 557436002864 Zn binding site [ion binding]; other site 557436002865 RibD C-terminal domain; Region: RibD_C; cl17279 557436002866 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 557436002867 Lumazine binding domain; Region: Lum_binding; pfam00677 557436002868 Lumazine binding domain; Region: Lum_binding; pfam00677 557436002869 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 557436002870 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 557436002871 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 557436002872 dimerization interface [polypeptide binding]; other site 557436002873 active site 557436002874 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 557436002875 homopentamer interface [polypeptide binding]; other site 557436002876 active site 557436002877 Ion transport protein; Region: Ion_trans; pfam00520 557436002878 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 557436002879 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 557436002880 D-galactonate transporter; Region: 2A0114; TIGR00893 557436002881 putative substrate translocation pore; other site 557436002882 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 557436002883 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; cl17315 557436002884 DNA binding residues [nucleotide binding] 557436002885 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557436002886 CoenzymeA binding site [chemical binding]; other site 557436002887 subunit interaction site [polypeptide binding]; other site 557436002888 PHB binding site; other site 557436002889 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557436002890 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 557436002891 substrate binding site [chemical binding]; other site 557436002892 oxyanion hole (OAH) forming residues; other site 557436002893 trimer interface [polypeptide binding]; other site 557436002894 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 557436002895 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 557436002896 acyl-activating enzyme (AAE) consensus motif; other site 557436002897 putative AMP binding site [chemical binding]; other site 557436002898 putative active site [active] 557436002899 putative CoA binding site [chemical binding]; other site 557436002900 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 557436002901 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 557436002902 G1 box; other site 557436002903 GTP/Mg2+ binding site [chemical binding]; other site 557436002904 Switch I region; other site 557436002905 G2 box; other site 557436002906 G3 box; other site 557436002907 Switch II region; other site 557436002908 G4 box; other site 557436002909 G5 box; other site 557436002910 Nucleoside recognition; Region: Gate; pfam07670 557436002911 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 557436002912 Nucleoside recognition; Region: Gate; pfam07670 557436002913 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 557436002914 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 557436002915 Walker A/P-loop; other site 557436002916 ATP binding site [chemical binding]; other site 557436002917 Q-loop/lid; other site 557436002918 ABC transporter signature motif; other site 557436002919 Walker B; other site 557436002920 D-loop; other site 557436002921 H-loop/switch region; other site 557436002922 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 557436002923 FeS assembly protein SufD; Region: sufD; TIGR01981 557436002924 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557436002925 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 557436002926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557436002927 catalytic residue [active] 557436002928 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 557436002929 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 557436002930 trimerization site [polypeptide binding]; other site 557436002931 active site 557436002932 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 557436002933 FeS assembly protein SufB; Region: sufB; TIGR01980 557436002934 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 557436002935 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 557436002936 non-specific DNA binding site [nucleotide binding]; other site 557436002937 salt bridge; other site 557436002938 sequence-specific DNA binding site [nucleotide binding]; other site 557436002939 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557436002940 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 557436002941 active site 557436002942 phosphorylation site [posttranslational modification] 557436002943 intermolecular recognition site; other site 557436002944 dimerization interface [polypeptide binding]; other site 557436002945 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 557436002946 DNA binding residues [nucleotide binding] 557436002947 dimerization interface [polypeptide binding]; other site 557436002948 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557436002949 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 557436002950 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 557436002951 active site 557436002952 motif I; other site 557436002953 motif II; other site 557436002954 Cytochrome C biogenesis protein; Region: CcmH; cl01179 557436002955 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 557436002956 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 557436002957 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 557436002958 S-adenosylmethionine binding site [chemical binding]; other site 557436002959 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 557436002960 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 557436002961 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 557436002962 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 557436002963 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 557436002964 GAF domain; Region: GAF_3; pfam13492 557436002965 Histidine kinase; Region: His_kinase; pfam06580 557436002966 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 557436002967 ATP binding site [chemical binding]; other site 557436002968 Mg2+ binding site [ion binding]; other site 557436002969 G-X-G motif; other site 557436002970 two-component response regulator; Provisional; Region: PRK14084 557436002971 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 557436002972 active site 557436002973 phosphorylation site [posttranslational modification] 557436002974 intermolecular recognition site; other site 557436002975 dimerization interface [polypeptide binding]; other site 557436002976 LytTr DNA-binding domain; Region: LytTR; smart00850 557436002977 LrgA family; Region: LrgA; cl00608 557436002978 LrgB-like family; Region: LrgB; cl00596 557436002979 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 557436002980 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557436002981 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557436002982 NAD binding site [chemical binding]; other site 557436002983 dimer interface [polypeptide binding]; other site 557436002984 substrate binding site [chemical binding]; other site 557436002985 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557436002986 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557436002987 DNA binding site [nucleotide binding] 557436002988 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 557436002989 putative dimerization interface [polypeptide binding]; other site 557436002990 putative ligand binding site [chemical binding]; other site 557436002991 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 557436002992 Melibiase; Region: Melibiase; pfam02065 557436002993 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 557436002994 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 557436002995 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 557436002996 homotetramer interface [polypeptide binding]; other site 557436002997 FMN binding site [chemical binding]; other site 557436002998 homodimer contacts [polypeptide binding]; other site 557436002999 putative active site [active] 557436003000 putative substrate binding site [chemical binding]; other site 557436003001 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 557436003002 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557436003003 diphosphomevalonate decarboxylase; Region: PLN02407 557436003004 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 557436003005 diphosphomevalonate decarboxylase; Region: PLN02407 557436003006 mevalonate kinase; Region: mevalon_kin; TIGR00549 557436003007 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557436003008 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 557436003009 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 557436003010 active site 557436003011 catalytic site [active] 557436003012 substrate binding site [chemical binding]; other site 557436003013 DEAD/DEAH box helicase; Region: DEAD; pfam00270 557436003014 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 557436003015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 557436003016 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 557436003017 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 557436003018 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557436003019 EamA-like transporter family; Region: EamA; pfam00892 557436003020 EamA-like transporter family; Region: EamA; pfam00892 557436003021 Transglycosylase; Region: Transgly; pfam00912 557436003022 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 557436003023 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557436003024 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 557436003025 hypothetical protein; Provisional; Region: PRK13660 557436003026 cell division protein GpsB; Provisional; Region: PRK14127 557436003027 DivIVA domain; Region: DivI1A_domain; TIGR03544 557436003028 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 557436003029 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 557436003030 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 557436003031 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 557436003032 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 557436003033 RNA/DNA hybrid binding site [nucleotide binding]; other site 557436003034 active site 557436003035 lipoprotein signal peptidase; Provisional; Region: PRK14797 557436003036 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557436003037 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 557436003038 RNA binding surface [nucleotide binding]; other site 557436003039 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557436003040 active site 557436003041 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 557436003042 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 557436003043 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 557436003044 catalytic site [active] 557436003045 subunit interface [polypeptide binding]; other site 557436003046 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557436003047 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 557436003048 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557436003049 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 557436003050 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 557436003051 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 557436003052 Domain of unknown function (DUF814); Region: DUF814; pfam05670 557436003053 EDD domain protein, DegV family; Region: DegV; TIGR00762 557436003054 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 557436003055 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 557436003056 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 557436003057 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 557436003058 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 557436003059 Ligand binding site; other site 557436003060 metal-binding site 557436003061 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557436003062 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557436003063 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436003064 Coenzyme A binding pocket [chemical binding]; other site 557436003065 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 557436003066 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436003067 putative active site [active] 557436003068 putative NTP binding site [chemical binding]; other site 557436003069 putative nucleic acid binding site [nucleotide binding]; other site 557436003070 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436003071 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 557436003072 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 557436003073 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 557436003074 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557436003075 active site 557436003076 catalytic tetrad [active] 557436003077 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557436003078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557436003079 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 557436003080 dimerization interface [polypeptide binding]; other site 557436003081 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557436003082 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 557436003083 Protein of unknown function (DUF441); Region: DUF441; pfam04284 557436003084 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557436003085 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 557436003086 putative substrate translocation pore; other site 557436003087 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 557436003088 Penicillinase repressor; Region: Pencillinase_R; pfam03965 557436003089 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 557436003090 Domain of unknown function DUF21; Region: DUF21; pfam01595 557436003091 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 557436003092 Transporter associated domain; Region: CorC_HlyC; smart01091 557436003093 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 557436003094 ABC1 family; Region: ABC1; cl17513 557436003095 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 557436003096 Uncharacterized conserved protein [Function unknown]; Region: COG1434 557436003097 putative active site [active] 557436003098 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 557436003099 dimer interface [polypeptide binding]; other site 557436003100 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557436003101 metal binding site [ion binding]; metal-binding site 557436003102 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 557436003103 CrcB-like protein; Region: CRCB; pfam02537 557436003104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436003105 Walker A/P-loop; other site 557436003106 ATP binding site [chemical binding]; other site 557436003107 Q-loop/lid; other site 557436003108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436003109 ABC transporter signature motif; other site 557436003110 Walker B; other site 557436003111 D-loop; other site 557436003112 H-loop/switch region; other site 557436003113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436003114 AAA domain; Region: AAA_21; pfam13304 557436003115 Walker A/P-loop; other site 557436003116 ATP binding site [chemical binding]; other site 557436003117 Q-loop/lid; other site 557436003118 ABC transporter signature motif; other site 557436003119 Walker B; other site 557436003120 D-loop; other site 557436003121 H-loop/switch region; other site 557436003122 Uncharacterized conserved protein [Function unknown]; Region: COG0398 557436003123 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 557436003124 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 557436003125 Uncharacterized conserved protein [Function unknown]; Region: COG3410 557436003126 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 557436003127 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 557436003128 TPP-binding site; other site 557436003129 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 557436003130 PYR/PP interface [polypeptide binding]; other site 557436003131 dimer interface [polypeptide binding]; other site 557436003132 TPP binding site [chemical binding]; other site 557436003133 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557436003134 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 557436003135 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557436003136 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 557436003137 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 557436003138 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557436003139 putative active site [active] 557436003140 catalytic site [active] 557436003141 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 557436003142 Walker A motif; other site 557436003143 ATP binding site [chemical binding]; other site 557436003144 Walker B motif; other site 557436003145 arginine finger; other site 557436003146 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 557436003147 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436003148 putative active site [active] 557436003149 putative NTP binding site [chemical binding]; other site 557436003150 putative nucleic acid binding site [nucleotide binding]; other site 557436003151 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436003152 Protein of unknown function (DUF454); Region: DUF454; cl01063 557436003153 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 557436003154 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 557436003155 Predicted membrane protein [Function unknown]; Region: COG2323 557436003156 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557436003157 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 557436003158 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 557436003159 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 557436003160 active site 557436003161 motif I; other site 557436003162 motif II; other site 557436003163 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557436003164 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 557436003165 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 557436003166 DNA binding site [nucleotide binding] 557436003167 active site 557436003168 Int/Topo IB signature motif; other site 557436003169 diaminopimelate decarboxylase; Region: lysA; TIGR01048 557436003170 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436003171 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557436003172 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557436003173 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 557436003174 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 557436003175 catalytic residues [active] 557436003176 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 557436003177 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 557436003178 NAD binding site [chemical binding]; other site 557436003179 homotetramer interface [polypeptide binding]; other site 557436003180 homodimer interface [polypeptide binding]; other site 557436003181 substrate binding site [chemical binding]; other site 557436003182 active site 557436003183 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 557436003184 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 557436003185 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 557436003186 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557436003187 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557436003188 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557436003189 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 557436003190 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 557436003191 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 557436003192 carboxyltransferase (CT) interaction site; other site 557436003193 biotinylation site [posttranslational modification]; other site 557436003194 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 557436003195 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 557436003196 dimer interface [polypeptide binding]; other site 557436003197 active site 557436003198 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557436003199 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 557436003200 NAD(P) binding site [chemical binding]; other site 557436003201 homotetramer interface [polypeptide binding]; other site 557436003202 homodimer interface [polypeptide binding]; other site 557436003203 active site 557436003204 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 557436003205 acyl carrier protein; Provisional; Region: acpP; PRK00982 557436003206 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 557436003207 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 557436003208 dimer interface [polypeptide binding]; other site 557436003209 active site 557436003210 CoA binding pocket [chemical binding]; other site 557436003211 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557436003212 MarR family; Region: MarR_2; pfam12802 557436003213 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 557436003214 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 557436003215 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 557436003216 active site 557436003217 DNA binding site [nucleotide binding] 557436003218 Int/Topo IB signature motif; other site 557436003219 Integrase core domain; Region: rve; pfam00665 557436003220 Integrase core domain; Region: rve_3; pfam13683 557436003221 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557436003222 Helix-turn-helix domain; Region: HTH_28; pfam13518 557436003223 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 557436003224 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 557436003225 active site 557436003226 nucleophile elbow; other site 557436003227 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 557436003228 DNA binding site [nucleotide binding] 557436003229 Int/Topo IB signature motif; other site 557436003230 active site 557436003231 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557436003232 EamA-like transporter family; Region: EamA; pfam00892 557436003233 EamA-like transporter family; Region: EamA; pfam00892 557436003234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557436003235 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557436003236 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 557436003237 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436003238 Integrase core domain; Region: rve; pfam00665 557436003239 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 557436003240 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436003241 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557436003242 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 557436003243 ligand binding site [chemical binding]; other site 557436003244 flexible hinge region; other site 557436003245 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 557436003246 putative switch regulator; other site 557436003247 non-specific DNA interactions [nucleotide binding]; other site 557436003248 DNA binding site [nucleotide binding] 557436003249 sequence specific DNA binding site [nucleotide binding]; other site 557436003250 putative cAMP binding site [chemical binding]; other site 557436003251 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557436003252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557436003253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557436003254 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557436003255 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557436003256 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 557436003257 substrate binding site [chemical binding]; other site 557436003258 multimerization interface [polypeptide binding]; other site 557436003259 ATP binding site [chemical binding]; other site 557436003260 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 557436003261 dimer interface [polypeptide binding]; other site 557436003262 substrate binding site [chemical binding]; other site 557436003263 ATP binding site [chemical binding]; other site 557436003264 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 557436003265 thiamine phosphate binding site [chemical binding]; other site 557436003266 active site 557436003267 pyrophosphate binding site [ion binding]; other site 557436003268 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 557436003269 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 557436003270 putative ion selectivity filter; other site 557436003271 putative pore gating glutamate residue; other site 557436003272 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 557436003273 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 557436003274 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 557436003275 trimer interface [polypeptide binding]; other site 557436003276 active site 557436003277 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 557436003278 catalytic site [active] 557436003279 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 557436003280 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557436003281 active site 557436003282 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557436003283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557436003284 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557436003285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557436003286 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557436003287 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557436003288 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 557436003289 Bacterial lipoprotein; Region: DUF3642; pfam12182 557436003290 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 557436003291 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 557436003292 catalytic core [active] 557436003293 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 557436003294 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 557436003295 active site 557436003296 trimer interface [polypeptide binding]; other site 557436003297 allosteric site; other site 557436003298 active site lid [active] 557436003299 hexamer (dimer of trimers) interface [polypeptide binding]; other site 557436003300 Fic/DOC family; Region: Fic; pfam02661 557436003301 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 557436003302 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 557436003303 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 557436003304 putative active site [active] 557436003305 putative metal binding site [ion binding]; other site 557436003306 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 557436003307 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 557436003308 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 557436003309 Walker A/P-loop; other site 557436003310 ATP binding site [chemical binding]; other site 557436003311 Q-loop/lid; other site 557436003312 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436003313 ABC transporter signature motif; other site 557436003314 Walker B; other site 557436003315 D-loop; other site 557436003316 H-loop/switch region; other site 557436003317 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 557436003318 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557436003319 active site 557436003320 metal binding site [ion binding]; metal-binding site 557436003321 DNA binding site [nucleotide binding] 557436003322 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 557436003323 Bacterial SH3 domain; Region: SH3_5; pfam08460 557436003324 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 557436003325 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 557436003326 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 557436003327 nucleotide binding region [chemical binding]; other site 557436003328 ATP-binding site [chemical binding]; other site 557436003329 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 557436003330 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 557436003331 ATP binding site [chemical binding]; other site 557436003332 putative Mg++ binding site [ion binding]; other site 557436003333 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 557436003334 Rib/alpha-like repeat; Region: Rib; cl07159 557436003335 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 557436003336 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 557436003337 non-specific DNA binding site [nucleotide binding]; other site 557436003338 salt bridge; other site 557436003339 sequence-specific DNA binding site [nucleotide binding]; other site 557436003340 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557436003341 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 557436003342 non-specific DNA binding site [nucleotide binding]; other site 557436003343 salt bridge; other site 557436003344 sequence-specific DNA binding site [nucleotide binding]; other site 557436003345 S-methylmethionine transporter; Provisional; Region: PRK11387 557436003346 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 557436003347 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 557436003348 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436003349 Integrase core domain; Region: rve; pfam00665 557436003350 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557436003351 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 557436003352 Walker A motif; other site 557436003353 ATP binding site [chemical binding]; other site 557436003354 Walker B motif; other site 557436003355 arginine finger; other site 557436003356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 557436003357 Integrase core domain; Region: rve; pfam00665 557436003358 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557436003359 Part of AAA domain; Region: AAA_19; pfam13245 557436003360 AAA ATPase domain; Region: AAA_15; pfam13175 557436003361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436003362 Walker A/P-loop; other site 557436003363 ATP binding site [chemical binding]; other site 557436003364 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436003365 ABC transporter signature motif; other site 557436003366 Walker B; other site 557436003367 D-loop; other site 557436003368 H-loop/switch region; other site 557436003369 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 557436003370 putative active site [active] 557436003371 putative metal-binding site [ion binding]; other site 557436003372 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 557436003373 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 557436003374 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 557436003375 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 557436003376 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 557436003377 NADP binding site [chemical binding]; other site 557436003378 active site 557436003379 putative substrate binding site [chemical binding]; other site 557436003380 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 557436003381 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 557436003382 NAD binding site [chemical binding]; other site 557436003383 substrate binding site [chemical binding]; other site 557436003384 homodimer interface [polypeptide binding]; other site 557436003385 active site 557436003386 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 557436003387 Predicted transcriptional regulators [Transcription]; Region: COG1733 557436003388 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557436003389 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436003390 Homeodomain-like domain; Region: HTH_23; pfam13384 557436003391 glycerol kinase; Provisional; Region: glpK; PRK00047 557436003392 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 557436003393 N- and C-terminal domain interface [polypeptide binding]; other site 557436003394 active site 557436003395 MgATP binding site [chemical binding]; other site 557436003396 catalytic site [active] 557436003397 metal binding site [ion binding]; metal-binding site 557436003398 glycerol binding site [chemical binding]; other site 557436003399 homotetramer interface [polypeptide binding]; other site 557436003400 homodimer interface [polypeptide binding]; other site 557436003401 FBP binding site [chemical binding]; other site 557436003402 protein IIAGlc interface [polypeptide binding]; other site 557436003403 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 557436003404 active site 1 [active] 557436003405 dimer interface [polypeptide binding]; other site 557436003406 hexamer interface [polypeptide binding]; other site 557436003407 active site 2 [active] 557436003408 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 557436003409 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 557436003410 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 557436003411 TrkA-N domain; Region: TrkA_N; pfam02254 557436003412 TrkA-C domain; Region: TrkA_C; pfam02080 557436003413 Peptidase family C69; Region: Peptidase_C69; pfam03577 557436003414 Transposase; Region: HTH_Tnp_1; cl17663 557436003415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557436003416 Helix-turn-helix domain; Region: HTH_28; pfam13518 557436003417 Helix-turn-helix domain; Region: HTH_28; pfam13518 557436003418 HTH-like domain; Region: HTH_21; pfam13276 557436003419 Integrase core domain; Region: rve; pfam00665 557436003420 Integrase core domain; Region: rve_3; cl15866 557436003421 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 557436003422 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557436003423 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557436003424 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 557436003425 catalytic residue [active] 557436003426 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 557436003427 catalytic residues [active] 557436003428 peroxiredoxin; Region: AhpC; TIGR03137 557436003429 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 557436003430 dimer interface [polypeptide binding]; other site 557436003431 decamer (pentamer of dimers) interface [polypeptide binding]; other site 557436003432 catalytic triad [active] 557436003433 peroxidatic and resolving cysteines [active] 557436003434 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 557436003435 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 557436003436 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 557436003437 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 557436003438 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 557436003439 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557436003440 active site 557436003441 metal binding site [ion binding]; metal-binding site 557436003442 drug efflux system protein MdtG; Provisional; Region: PRK09874 557436003443 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 557436003444 putative substrate translocation pore; other site 557436003445 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 557436003446 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 557436003447 S-adenosylmethionine binding site [chemical binding]; other site 557436003448 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 557436003449 substrate binding site [chemical binding]; other site 557436003450 THF binding site; other site 557436003451 zinc-binding site [ion binding]; other site 557436003452 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 557436003453 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 557436003454 UbiA prenyltransferase family; Region: UbiA; pfam01040 557436003455 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557436003456 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557436003457 substrate binding pocket [chemical binding]; other site 557436003458 chain length determination region; other site 557436003459 substrate-Mg2+ binding site; other site 557436003460 catalytic residues [active] 557436003461 aspartate-rich region 1; other site 557436003462 active site lid residues [active] 557436003463 aspartate-rich region 2; other site 557436003464 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 557436003465 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 557436003466 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 557436003467 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 557436003468 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 557436003469 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 557436003470 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 557436003471 HPr interaction site; other site 557436003472 glycerol kinase (GK) interaction site [polypeptide binding]; other site 557436003473 active site 557436003474 phosphorylation site [posttranslational modification] 557436003475 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557436003476 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557436003477 DNA binding site [nucleotide binding] 557436003478 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 557436003479 putative dimerization interface [polypeptide binding]; other site 557436003480 putative ligand binding site [chemical binding]; other site 557436003481 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 557436003482 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436003483 putative active site [active] 557436003484 putative NTP binding site [chemical binding]; other site 557436003485 putative nucleic acid binding site [nucleotide binding]; other site 557436003486 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436003487 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 557436003488 active site 557436003489 putative catalytic site [active] 557436003490 DNA binding site [nucleotide binding] 557436003491 putative phosphate binding site [ion binding]; other site 557436003492 metal binding site A [ion binding]; metal-binding site 557436003493 AP binding site [nucleotide binding]; other site 557436003494 metal binding site B [ion binding]; metal-binding site 557436003495 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 557436003496 putative metal binding site [ion binding]; other site 557436003497 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436003498 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 557436003499 amidase catalytic site [active] 557436003500 Zn binding residues [ion binding]; other site 557436003501 substrate binding site [chemical binding]; other site 557436003502 Bacteriophage holin; Region: Phage_holin_1; cl02344 557436003503 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 557436003504 active site 557436003505 catalytic triad [active] 557436003506 oxyanion hole [active] 557436003507 Kinesin-related; Region: Kinesin-related; pfam06548 557436003508 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 557436003509 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 557436003510 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 557436003511 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557436003512 NlpC/P60 family; Region: NLPC_P60; cl17555 557436003513 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 557436003514 Phage tail protein; Region: Sipho_tail; pfam05709 557436003515 tape measure domain; Region: tape_meas_nterm; TIGR02675 557436003516 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 557436003517 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557436003518 catalytic residue [active] 557436003519 Phage major tail protein; Region: Phage_tail; pfam04630 557436003520 Protein of unknown function (DUF806); Region: DUF806; pfam05657 557436003521 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 557436003522 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 557436003523 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 557436003524 oligomerization interface [polypeptide binding]; other site 557436003525 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 557436003526 Phage capsid family; Region: Phage_capsid; pfam05065 557436003527 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 557436003528 oligomer interface [polypeptide binding]; other site 557436003529 Clp protease; Region: CLP_protease; pfam00574 557436003530 active site residues [active] 557436003531 Phage portal protein; Region: Phage_portal; pfam04860 557436003532 Phage-related protein [Function unknown]; Region: COG4695 557436003533 Phage Terminase; Region: Terminase_1; pfam03354 557436003534 Phage terminase, small subunit; Region: Terminase_4; cl01525 557436003535 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 557436003536 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 557436003537 active site 557436003538 Protein of unknown function (DUF563); Region: DUF563; cl15705 557436003539 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436003540 Helix-turn-helix domain; Region: HTH_36; pfam13730 557436003541 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 557436003542 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 557436003543 RecT family; Region: RecT; pfam03837 557436003544 Prophage antirepressor [Transcription]; Region: COG3617 557436003545 BRO family, N-terminal domain; Region: Bro-N; smart01040 557436003546 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 557436003547 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 557436003548 non-specific DNA binding site [nucleotide binding]; other site 557436003549 salt bridge; other site 557436003550 sequence-specific DNA binding site [nucleotide binding]; other site 557436003551 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 557436003552 non-specific DNA binding site [nucleotide binding]; other site 557436003553 salt bridge; other site 557436003554 sequence-specific DNA binding site [nucleotide binding]; other site 557436003555 Domain of unknown function (DUF955); Region: DUF955; pfam06114 557436003556 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 557436003557 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 557436003558 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 557436003559 active site 557436003560 DNA binding site [nucleotide binding] 557436003561 Int/Topo IB signature motif; other site 557436003562 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 557436003563 amino acid transporter; Region: 2A0306; TIGR00909 557436003564 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 557436003565 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 557436003566 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 557436003567 RimM N-terminal domain; Region: RimM; pfam01782 557436003568 PRC-barrel domain; Region: PRC; pfam05239 557436003569 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 557436003570 KH domain; Region: KH_4; pfam13083 557436003571 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 557436003572 signal recognition particle protein; Provisional; Region: PRK10867 557436003573 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 557436003574 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 557436003575 P loop; other site 557436003576 GTP binding site [chemical binding]; other site 557436003577 Signal peptide binding domain; Region: SRP_SPB; pfam02978 557436003578 putative DNA-binding protein; Validated; Region: PRK00118 557436003579 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 557436003580 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 557436003581 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 557436003582 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 557436003583 P loop; other site 557436003584 GTP binding site [chemical binding]; other site 557436003585 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 557436003586 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 557436003587 Walker A/P-loop; other site 557436003588 ATP binding site [chemical binding]; other site 557436003589 Q-loop/lid; other site 557436003590 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 557436003591 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 557436003592 ABC transporter signature motif; other site 557436003593 Walker B; other site 557436003594 D-loop; other site 557436003595 H-loop/switch region; other site 557436003596 ribonuclease III; Reviewed; Region: rnc; PRK00102 557436003597 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 557436003598 dimerization interface [polypeptide binding]; other site 557436003599 active site 557436003600 metal binding site [ion binding]; metal-binding site 557436003601 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 557436003602 dsRNA binding site [nucleotide binding]; other site 557436003603 acyl carrier protein; Provisional; Region: acpP; PRK00982 557436003604 putative phosphate acyltransferase; Provisional; Region: PRK05331 557436003605 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 557436003606 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 557436003607 generic binding surface II; other site 557436003608 ssDNA binding site; other site 557436003609 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 557436003610 ATP binding site [chemical binding]; other site 557436003611 putative Mg++ binding site [ion binding]; other site 557436003612 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 557436003613 nucleotide binding region [chemical binding]; other site 557436003614 ATP-binding site [chemical binding]; other site 557436003615 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 557436003616 DAK2 domain; Region: Dak2; pfam02734 557436003617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 557436003618 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 557436003619 Thiamine pyrophosphokinase; Region: TPK; cd07995 557436003620 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 557436003621 active site 557436003622 dimerization interface [polypeptide binding]; other site 557436003623 thiamine binding site [chemical binding]; other site 557436003624 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 557436003625 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 557436003626 substrate binding site [chemical binding]; other site 557436003627 hexamer interface [polypeptide binding]; other site 557436003628 metal binding site [ion binding]; metal-binding site 557436003629 GTPase RsgA; Reviewed; Region: PRK00098 557436003630 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 557436003631 RNA binding site [nucleotide binding]; other site 557436003632 homodimer interface [polypeptide binding]; other site 557436003633 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 557436003634 GTPase/Zn-binding domain interface [polypeptide binding]; other site 557436003635 GTP/Mg2+ binding site [chemical binding]; other site 557436003636 G4 box; other site 557436003637 G5 box; other site 557436003638 G1 box; other site 557436003639 Switch I region; other site 557436003640 G2 box; other site 557436003641 G3 box; other site 557436003642 Switch II region; other site 557436003643 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 557436003644 Catalytic domain of Protein Kinases; Region: PKc; cd00180 557436003645 active site 557436003646 ATP binding site [chemical binding]; other site 557436003647 substrate binding site [chemical binding]; other site 557436003648 activation loop (A-loop); other site 557436003649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 557436003650 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 557436003651 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 557436003652 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 557436003653 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 557436003654 active site 557436003655 16S rRNA methyltransferase B; Provisional; Region: PRK14902 557436003656 NusB family; Region: NusB; pfam01029 557436003657 putative RNA binding site [nucleotide binding]; other site 557436003658 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 557436003659 S-adenosylmethionine binding site [chemical binding]; other site 557436003660 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 557436003661 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 557436003662 putative active site [active] 557436003663 substrate binding site [chemical binding]; other site 557436003664 putative cosubstrate binding site; other site 557436003665 catalytic site [active] 557436003666 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 557436003667 substrate binding site [chemical binding]; other site 557436003668 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 557436003669 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 557436003670 ATP binding site [chemical binding]; other site 557436003671 putative Mg++ binding site [ion binding]; other site 557436003672 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 557436003673 nucleotide binding region [chemical binding]; other site 557436003674 ATP-binding site [chemical binding]; other site 557436003675 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 557436003676 Flavoprotein; Region: Flavoprotein; pfam02441 557436003677 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 557436003678 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 557436003679 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 557436003680 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 557436003681 catalytic site [active] 557436003682 G-X2-G-X-G-K; other site 557436003683 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 557436003684 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557436003685 Walker A/P-loop; other site 557436003686 ATP binding site [chemical binding]; other site 557436003687 Q-loop/lid; other site 557436003688 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557436003689 ABC transporter signature motif; other site 557436003690 Walker B; other site 557436003691 D-loop; other site 557436003692 H-loop/switch region; other site 557436003693 Arginine repressor [Transcription]; Region: ArgR; COG1438 557436003694 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 557436003695 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 557436003696 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 557436003697 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 557436003698 RNA binding surface [nucleotide binding]; other site 557436003699 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 557436003700 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557436003701 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557436003702 substrate binding pocket [chemical binding]; other site 557436003703 chain length determination region; other site 557436003704 substrate-Mg2+ binding site; other site 557436003705 catalytic residues [active] 557436003706 aspartate-rich region 1; other site 557436003707 active site lid residues [active] 557436003708 aspartate-rich region 2; other site 557436003709 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 557436003710 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 557436003711 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 557436003712 generic binding surface II; other site 557436003713 generic binding surface I; other site 557436003714 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 557436003715 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 557436003716 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 557436003717 homodimer interface [polypeptide binding]; other site 557436003718 NADP binding site [chemical binding]; other site 557436003719 substrate binding site [chemical binding]; other site 557436003720 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 557436003721 putative RNA binding site [nucleotide binding]; other site 557436003722 Asp23 family; Region: Asp23; pfam03780 557436003723 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 557436003724 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557436003725 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 557436003726 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 557436003727 active site 557436003728 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 557436003729 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557436003730 catalytic residue [active] 557436003731 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 557436003732 Protein of unknown function (DUF464); Region: DUF464; pfam04327 557436003733 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 557436003734 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557436003735 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557436003736 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 557436003737 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 557436003738 methionine sulfoxide reductase A; Provisional; Region: PRK14054 557436003739 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 557436003740 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557436003741 aromatic amino acid aminotransferase; Validated; Region: PRK07309 557436003742 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 557436003743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436003744 homodimer interface [polypeptide binding]; other site 557436003745 catalytic residue [active] 557436003746 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 557436003747 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557436003748 active site 557436003749 HIGH motif; other site 557436003750 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557436003751 active site 557436003752 KMSKS motif; other site 557436003753 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 557436003754 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557436003755 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 557436003756 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557436003757 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 557436003758 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 557436003759 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 557436003760 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 557436003761 active site residue [active] 557436003762 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 557436003763 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557436003764 nucleotide binding site [chemical binding]; other site 557436003765 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 557436003766 Rhomboid family; Region: Rhomboid; pfam01694 557436003767 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 557436003768 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 557436003769 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 557436003770 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 557436003771 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557436003772 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557436003773 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 557436003774 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 557436003775 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 557436003776 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557436003777 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557436003778 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 557436003779 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 557436003780 Sugar specificity; other site 557436003781 Pyrimidine base specificity; other site 557436003782 ATP-binding site [chemical binding]; other site 557436003783 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 557436003784 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436003785 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557436003786 NlpC/P60 family; Region: NLPC_P60; pfam00877 557436003787 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 557436003788 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 557436003789 putative tRNA-binding site [nucleotide binding]; other site 557436003790 B3/4 domain; Region: B3_4; pfam03483 557436003791 tRNA synthetase B5 domain; Region: B5; smart00874 557436003792 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 557436003793 dimer interface [polypeptide binding]; other site 557436003794 motif 1; other site 557436003795 motif 3; other site 557436003796 motif 2; other site 557436003797 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 557436003798 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 557436003799 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 557436003800 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 557436003801 dimer interface [polypeptide binding]; other site 557436003802 motif 1; other site 557436003803 active site 557436003804 motif 2; other site 557436003805 motif 3; other site 557436003806 Predicted transcriptional regulators [Transcription]; Region: COG1733 557436003807 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557436003808 HD domain; Region: HD; pfam01966 557436003809 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 557436003810 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 557436003811 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 557436003812 Acylphosphatase; Region: Acylphosphatase; pfam00708 557436003813 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 557436003814 OxaA-like protein precursor; Provisional; Region: PRK02463 557436003815 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 557436003816 active site 557436003817 catalytic residues [active] 557436003818 metal binding site [ion binding]; metal-binding site 557436003819 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 557436003820 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 557436003821 inner membrane transporter YjeM; Provisional; Region: PRK15238 557436003822 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557436003823 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 557436003824 dimerization interface [polypeptide binding]; other site 557436003825 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 557436003826 dimer interface [polypeptide binding]; other site 557436003827 phosphorylation site [posttranslational modification] 557436003828 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 557436003829 ATP binding site [chemical binding]; other site 557436003830 Mg2+ binding site [ion binding]; other site 557436003831 G-X-G motif; other site 557436003832 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557436003833 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 557436003834 active site 557436003835 phosphorylation site [posttranslational modification] 557436003836 intermolecular recognition site; other site 557436003837 dimerization interface [polypeptide binding]; other site 557436003838 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 557436003839 DNA binding site [nucleotide binding] 557436003840 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 557436003841 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 557436003842 hypothetical protein; Provisional; Region: PRK13670 557436003843 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 557436003844 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 557436003845 S-adenosylmethionine binding site [chemical binding]; other site 557436003846 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 557436003847 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557436003848 Zn2+ binding site [ion binding]; other site 557436003849 Mg2+ binding site [ion binding]; other site 557436003850 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 557436003851 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 557436003852 active site 557436003853 (T/H)XGH motif; other site 557436003854 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 557436003855 GTPase YqeH; Provisional; Region: PRK13796 557436003856 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 557436003857 GTP/Mg2+ binding site [chemical binding]; other site 557436003858 G4 box; other site 557436003859 G5 box; other site 557436003860 G1 box; other site 557436003861 Switch I region; other site 557436003862 G2 box; other site 557436003863 G3 box; other site 557436003864 Switch II region; other site 557436003865 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 557436003866 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 557436003867 active site 557436003868 motif I; other site 557436003869 motif II; other site 557436003870 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 557436003871 23S rRNA binding site [nucleotide binding]; other site 557436003872 L21 binding site [polypeptide binding]; other site 557436003873 L13 binding site [polypeptide binding]; other site 557436003874 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 557436003875 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 557436003876 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 557436003877 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 557436003878 primosomal protein DnaI; Reviewed; Region: PRK08939 557436003879 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 557436003880 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 557436003881 Walker A motif; other site 557436003882 ATP binding site [chemical binding]; other site 557436003883 Walker B motif; other site 557436003884 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 557436003885 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 557436003886 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 557436003887 ATP cone domain; Region: ATP-cone; pfam03477 557436003888 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 557436003889 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 557436003890 CoA-binding site [chemical binding]; other site 557436003891 ATP-binding [chemical binding]; other site 557436003892 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 557436003893 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 557436003894 DNA binding site [nucleotide binding] 557436003895 catalytic residue [active] 557436003896 H2TH interface [polypeptide binding]; other site 557436003897 putative catalytic residues [active] 557436003898 turnover-facilitating residue; other site 557436003899 intercalation triad [nucleotide binding]; other site 557436003900 8OG recognition residue [nucleotide binding]; other site 557436003901 putative reading head residues; other site 557436003902 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 557436003903 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557436003904 DNA polymerase I; Provisional; Region: PRK05755 557436003905 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 557436003906 active site 557436003907 metal binding site 1 [ion binding]; metal-binding site 557436003908 putative 5' ssDNA interaction site; other site 557436003909 metal binding site 3; metal-binding site 557436003910 metal binding site 2 [ion binding]; metal-binding site 557436003911 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 557436003912 putative DNA binding site [nucleotide binding]; other site 557436003913 putative metal binding site [ion binding]; other site 557436003914 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 557436003915 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 557436003916 active site 557436003917 DNA binding site [nucleotide binding] 557436003918 catalytic site [active] 557436003919 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 557436003920 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 557436003921 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 557436003922 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 557436003923 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557436003924 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557436003925 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557436003926 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 557436003927 putative tRNA-binding site [nucleotide binding]; other site 557436003928 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 557436003929 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557436003930 catalytic residues [active] 557436003931 Predicted small secreted protein [Function unknown]; Region: COG5584 557436003932 glutaminase A; Region: Gln_ase; TIGR03814 557436003933 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 557436003934 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 557436003935 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557436003936 active site 557436003937 catalytic tetrad [active] 557436003938 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 557436003939 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 557436003940 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557436003941 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 557436003942 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436003943 putative active site [active] 557436003944 putative NTP binding site [chemical binding]; other site 557436003945 putative nucleic acid binding site [nucleotide binding]; other site 557436003946 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436003947 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 557436003948 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 557436003949 S-adenosylmethionine binding site [chemical binding]; other site 557436003950 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 557436003951 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557436003952 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 557436003953 Walker A/P-loop; other site 557436003954 ATP binding site [chemical binding]; other site 557436003955 Q-loop/lid; other site 557436003956 ABC transporter signature motif; other site 557436003957 Walker B; other site 557436003958 D-loop; other site 557436003959 H-loop/switch region; other site 557436003960 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 557436003961 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 557436003962 HIT family signature motif; other site 557436003963 catalytic residue [active] 557436003964 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 557436003965 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557436003966 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436003967 AAA domain; Region: AAA_23; pfam13476 557436003968 Walker A/P-loop; other site 557436003969 ATP binding site [chemical binding]; other site 557436003970 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 557436003971 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 557436003972 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557436003973 active site 557436003974 metal binding site [ion binding]; metal-binding site 557436003975 DNA binding site [nucleotide binding] 557436003976 Protein of unknown function (DUF964); Region: DUF964; cl01483 557436003977 Transglycosylase; Region: Transgly; pfam00912 557436003978 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 557436003979 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557436003980 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 557436003981 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 557436003982 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 557436003983 active site 557436003984 HIGH motif; other site 557436003985 KMSK motif region; other site 557436003986 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 557436003987 tRNA binding surface [nucleotide binding]; other site 557436003988 anticodon binding site; other site 557436003989 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 557436003990 dimer interface [polypeptide binding]; other site 557436003991 substrate binding site [chemical binding]; other site 557436003992 ATP binding site [chemical binding]; other site 557436003993 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 557436003994 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557436003995 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557436003996 NAD binding site [chemical binding]; other site 557436003997 dimer interface [polypeptide binding]; other site 557436003998 substrate binding site [chemical binding]; other site 557436003999 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 557436004000 dihydropteroate synthase; Region: DHPS; TIGR01496 557436004001 substrate binding pocket [chemical binding]; other site 557436004002 dimer interface [polypeptide binding]; other site 557436004003 inhibitor binding site; inhibition site 557436004004 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 557436004005 active site 557436004006 dimerization interface [polypeptide binding]; other site 557436004007 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 557436004008 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557436004009 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 557436004010 GTP cyclohydrolase I; Provisional; Region: PLN03044 557436004011 active site 557436004012 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 557436004013 catalytic center binding site [active] 557436004014 ATP binding site [chemical binding]; other site 557436004015 Dihydroneopterin aldolase; Region: FolB; pfam02152 557436004016 active site 557436004017 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 557436004018 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 557436004019 CAAX protease self-immunity; Region: Abi; pfam02517 557436004020 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557436004021 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 557436004022 substrate binding site [chemical binding]; other site 557436004023 dimer interface [polypeptide binding]; other site 557436004024 ATP binding site [chemical binding]; other site 557436004025 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557436004026 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557436004027 DNA binding site [nucleotide binding] 557436004028 domain linker motif; other site 557436004029 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 557436004030 dimerization interface [polypeptide binding]; other site 557436004031 ligand binding site [chemical binding]; other site 557436004032 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 557436004033 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 557436004034 Substrate-binding site [chemical binding]; other site 557436004035 Substrate specificity [chemical binding]; other site 557436004036 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557436004037 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 557436004038 Ligand Binding Site [chemical binding]; other site 557436004039 dipeptidase PepV; Reviewed; Region: PRK07318 557436004040 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 557436004041 active site 557436004042 metal binding site [ion binding]; metal-binding site 557436004043 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 557436004044 putative substrate binding site [chemical binding]; other site 557436004045 putative ATP binding site [chemical binding]; other site 557436004046 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 557436004047 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 557436004048 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 557436004049 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 557436004050 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 557436004051 HIGH motif; other site 557436004052 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557436004053 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 557436004054 active site 557436004055 KMSKS motif; other site 557436004056 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 557436004057 tRNA binding surface [nucleotide binding]; other site 557436004058 S-adenosylmethionine synthetase; Validated; Region: PRK05250 557436004059 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 557436004060 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 557436004061 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 557436004062 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 557436004063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557436004064 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 557436004065 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436004066 putative substrate translocation pore; other site 557436004067 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557436004068 metal binding site 2 [ion binding]; metal-binding site 557436004069 putative DNA binding helix; other site 557436004070 metal binding site 1 [ion binding]; metal-binding site 557436004071 dimer interface [polypeptide binding]; other site 557436004072 structural Zn2+ binding site [ion binding]; other site 557436004073 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557436004074 VanZ like family; Region: VanZ; pfam04892 557436004075 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 557436004076 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 557436004077 DNA polymerase IV; Reviewed; Region: PRK03103 557436004078 Y-family of DNA polymerases; Region: PolY; cl12025 557436004079 active site 557436004080 DNA binding site [nucleotide binding] 557436004081 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 557436004082 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 557436004083 putative dimer interface [polypeptide binding]; other site 557436004084 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 557436004085 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557436004086 active site 557436004087 catalytic tetrad [active] 557436004088 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 557436004089 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 557436004090 homodimer interface [polypeptide binding]; other site 557436004091 active site 557436004092 FMN binding site [chemical binding]; other site 557436004093 substrate binding site [chemical binding]; other site 557436004094 4Fe-4S binding domain; Region: Fer4; pfam00037 557436004095 4Fe-4S binding domain; Region: Fer4; pfam00037 557436004096 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 557436004097 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557436004098 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557436004099 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 557436004100 active site 557436004101 putative catalytic site [active] 557436004102 DNA binding site [nucleotide binding] 557436004103 putative phosphate binding site [ion binding]; other site 557436004104 metal binding site A [ion binding]; metal-binding site 557436004105 AP binding site [nucleotide binding]; other site 557436004106 metal binding site B [ion binding]; metal-binding site 557436004107 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436004108 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 557436004109 active site 557436004110 metal-binding site [ion binding] 557436004111 nucleotide-binding site [chemical binding]; other site 557436004112 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436004113 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 557436004114 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 557436004115 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 557436004116 FeS/SAM binding site; other site 557436004117 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 557436004118 ATP cone domain; Region: ATP-cone; pfam03477 557436004119 Class III ribonucleotide reductase; Region: RNR_III; cd01675 557436004120 effector binding site; other site 557436004121 active site 557436004122 Zn binding site [ion binding]; other site 557436004123 glycine loop; other site 557436004124 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 557436004125 putative substrate translocation pore; other site 557436004126 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 557436004127 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436004128 Coenzyme A binding pocket [chemical binding]; other site 557436004129 Protein of unknown function (DUF1797); Region: DUF1797; pfam08796 557436004130 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 557436004131 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557436004132 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 557436004133 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557436004134 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 557436004135 putative ADP-binding pocket [chemical binding]; other site 557436004136 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 557436004137 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557436004138 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557436004139 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557436004140 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 557436004141 dimerization domain swap beta strand [polypeptide binding]; other site 557436004142 regulatory protein interface [polypeptide binding]; other site 557436004143 active site 557436004144 regulatory phosphorylation site [posttranslational modification]; other site 557436004145 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 557436004146 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557436004147 Walker A motif; other site 557436004148 ATP binding site [chemical binding]; other site 557436004149 Walker B motif; other site 557436004150 arginine finger; other site 557436004151 UvrB/uvrC motif; Region: UVR; pfam02151 557436004152 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 557436004153 Walker A motif; other site 557436004154 ATP binding site [chemical binding]; other site 557436004155 Walker B motif; other site 557436004156 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557436004157 Predicted membrane protein [Function unknown]; Region: COG4684 557436004158 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 557436004159 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 557436004160 Bacterial SH3 domain; Region: SH3_3; cl17532 557436004161 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557436004162 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557436004163 Walker A/P-loop; other site 557436004164 ATP binding site [chemical binding]; other site 557436004165 Q-loop/lid; other site 557436004166 ABC transporter signature motif; other site 557436004167 Walker B; other site 557436004168 D-loop; other site 557436004169 H-loop/switch region; other site 557436004170 Predicted transcriptional regulators [Transcription]; Region: COG1725 557436004171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557436004172 DNA-binding site [nucleotide binding]; DNA binding site 557436004173 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 557436004174 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 557436004175 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 557436004176 HTH-like domain; Region: HTH_21; pfam13276 557436004177 Integrase core domain; Region: rve; pfam00665 557436004178 Integrase core domain; Region: rve_3; cl15866 557436004179 HTH-like domain; Region: HTH_21; pfam13276 557436004180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557436004181 Helix-turn-helix domain; Region: HTH_28; pfam13518 557436004182 Helix-turn-helix domain; Region: HTH_28; pfam13518 557436004183 Helix-turn-helix domain; Region: HTH_38; pfam13936 557436004184 Winged helix-turn helix; Region: HTH_29; pfam13551 557436004185 Homeodomain-like domain; Region: HTH_32; pfam13565 557436004186 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 557436004187 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 557436004188 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 557436004189 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 557436004190 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 557436004191 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 557436004192 active site 557436004193 catalytic site [active] 557436004194 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 557436004195 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 557436004196 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557436004197 NlpC/P60 family; Region: NLPC_P60; pfam00877 557436004198 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 557436004199 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436004200 putative active site [active] 557436004201 putative NTP binding site [chemical binding]; other site 557436004202 putative nucleic acid binding site [nucleotide binding]; other site 557436004203 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436004204 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436004205 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 557436004206 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 557436004207 G1 box; other site 557436004208 putative GEF interaction site [polypeptide binding]; other site 557436004209 GTP/Mg2+ binding site [chemical binding]; other site 557436004210 Switch I region; other site 557436004211 G2 box; other site 557436004212 G3 box; other site 557436004213 Switch II region; other site 557436004214 G4 box; other site 557436004215 G5 box; other site 557436004216 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 557436004217 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 557436004218 Predicted integral membrane protein [Function unknown]; Region: COG5617 557436004219 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557436004220 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557436004221 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 557436004222 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 557436004223 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436004224 Helix-turn-helix domain; Region: HTH_28; pfam13518 557436004225 transposase/IS protein; Provisional; Region: PRK09183 557436004226 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 557436004227 Walker A motif; other site 557436004228 ATP binding site [chemical binding]; other site 557436004229 Walker B motif; other site 557436004230 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 557436004231 Integrase core domain; Region: rve; pfam00665 557436004232 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557436004233 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 557436004234 active site 557436004235 Cyclin-dependent kinase regulatory subunit; Region: CKS; smart01084 557436004236 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 557436004237 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557436004238 NlpC/P60 family; Region: NLPC_P60; pfam00877 557436004239 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 557436004240 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 557436004241 amidase catalytic site [active] 557436004242 Zn binding residues [ion binding]; other site 557436004243 substrate binding site [chemical binding]; other site 557436004244 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436004245 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557436004246 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 557436004247 Acyltransferase family; Region: Acyl_transf_3; pfam01757 557436004248 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 557436004249 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 557436004250 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 557436004251 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 557436004252 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 557436004253 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 557436004254 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 557436004255 Chain length determinant protein; Region: Wzz; cl15801 557436004256 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 557436004257 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557436004258 UDP-galactopyranose mutase; Region: GLF; pfam03275 557436004259 Bacterial sugar transferase; Region: Bac_transf; pfam02397 557436004260 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 557436004261 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 557436004262 Ligand binding site; other site 557436004263 Putative Catalytic site; other site 557436004264 DXD motif; other site 557436004265 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 557436004266 recombination regulator RecX; Provisional; Region: recX; PRK14135 557436004267 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 557436004268 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 557436004269 inner membrane transporter YjeM; Provisional; Region: PRK15238 557436004270 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 557436004271 transaminase; Validated; Region: PRK07324 557436004272 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 557436004273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436004274 homodimer interface [polypeptide binding]; other site 557436004275 catalytic residue [active] 557436004276 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 557436004277 active site 557436004278 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557436004279 Predicted membrane protein [Function unknown]; Region: COG2246 557436004280 GtrA-like protein; Region: GtrA; pfam04138 557436004281 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 557436004282 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 557436004283 active site 557436004284 homodimer interface [polypeptide binding]; other site 557436004285 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557436004286 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 557436004287 ATP binding site [chemical binding]; other site 557436004288 putative Mg++ binding site [ion binding]; other site 557436004289 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 557436004290 nucleotide binding region [chemical binding]; other site 557436004291 ATP-binding site [chemical binding]; other site 557436004292 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557436004293 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557436004294 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 557436004295 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 557436004296 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 557436004297 NAD(P) binding site [chemical binding]; other site 557436004298 LDH/MDH dimer interface [polypeptide binding]; other site 557436004299 substrate binding site [chemical binding]; other site 557436004300 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 557436004301 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 557436004302 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436004303 Coenzyme A binding pocket [chemical binding]; other site 557436004304 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 557436004305 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 557436004306 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557436004307 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436004308 Coenzyme A binding pocket [chemical binding]; other site 557436004309 LytTr DNA-binding domain; Region: LytTR; smart00850 557436004310 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 557436004311 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 557436004312 substrate binding site [chemical binding]; other site 557436004313 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 557436004314 Probable transposase; Region: OrfB_IS605; pfam01385 557436004315 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557436004316 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 557436004317 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 557436004318 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 557436004319 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 557436004320 DNA binding site [nucleotide binding] 557436004321 active site 557436004322 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 557436004323 putative FMN binding site [chemical binding]; other site 557436004324 glycerol-3-phosphate dehydrogenase; Provisional; Region: PTZ00345 557436004325 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557436004326 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436004327 Coenzyme A binding pocket [chemical binding]; other site 557436004328 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 557436004329 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557436004330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557436004331 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557436004332 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 557436004333 AAA ATPase domain; Region: AAA_16; pfam13191 557436004334 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 557436004335 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 557436004336 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 557436004337 ATP binding site [chemical binding]; other site 557436004338 putative Mg++ binding site [ion binding]; other site 557436004339 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 557436004340 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557436004341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436004342 Walker A/P-loop; other site 557436004343 ATP binding site [chemical binding]; other site 557436004344 Q-loop/lid; other site 557436004345 ABC transporter signature motif; other site 557436004346 Walker B; other site 557436004347 D-loop; other site 557436004348 H-loop/switch region; other site 557436004349 LytTr DNA-binding domain; Region: LytTR; smart00850 557436004350 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 557436004351 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 557436004352 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557436004353 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 557436004354 ligand binding site [chemical binding]; other site 557436004355 flexible hinge region; other site 557436004356 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 557436004357 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 557436004358 dinuclear metal binding motif [ion binding]; other site 557436004359 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 557436004360 metal-binding site [ion binding] 557436004361 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 557436004362 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557436004363 putative active site [active] 557436004364 putative NTP binding site [chemical binding]; other site 557436004365 putative nucleic acid binding site [nucleotide binding]; other site 557436004366 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557436004367 Isochorismatase family; Region: Isochorismatase; pfam00857 557436004368 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 557436004369 catalytic triad [active] 557436004370 conserved cis-peptide bond; other site 557436004371 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 557436004372 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 557436004373 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 557436004374 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 557436004375 ATP binding site [chemical binding]; other site 557436004376 putative Mg++ binding site [ion binding]; other site 557436004377 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557436004378 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557436004379 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 557436004380 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 557436004381 active site 557436004382 DNA binding site [nucleotide binding] 557436004383 Int/Topo IB signature motif; other site 557436004384 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557436004385 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557436004386 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557436004387 HsdM N-terminal domain; Region: HsdM_N; pfam12161 557436004388 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 557436004389 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557436004390 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 557436004391 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 557436004392 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 557436004393 S-adenosylmethionine binding site [chemical binding]; other site 557436004394 putative lipid kinase; Reviewed; Region: PRK13055 557436004395 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 557436004396 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 557436004397 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 557436004398 GatB domain; Region: GatB_Yqey; smart00845 557436004399 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 557436004400 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 557436004401 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 557436004402 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 557436004403 putative dimer interface [polypeptide binding]; other site 557436004404 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 557436004405 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 557436004406 putative dimer interface [polypeptide binding]; other site 557436004407 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 557436004408 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 557436004409 nucleotide binding pocket [chemical binding]; other site 557436004410 K-X-D-G motif; other site 557436004411 catalytic site [active] 557436004412 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 557436004413 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 557436004414 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 557436004415 Dimer interface [polypeptide binding]; other site 557436004416 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 557436004417 Part of AAA domain; Region: AAA_19; pfam13245 557436004418 Family description; Region: UvrD_C_2; pfam13538 557436004419 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557436004420 xanthine phosphoribosyltransferase; Validated; Region: PRK09219 557436004421 active site 557436004422 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557436004423 acetoin reductase; Validated; Region: PRK08643 557436004424 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 557436004425 NAD binding site [chemical binding]; other site 557436004426 homotetramer interface [polypeptide binding]; other site 557436004427 homodimer interface [polypeptide binding]; other site 557436004428 active site 557436004429 substrate binding site [chemical binding]; other site 557436004430 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 557436004431 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 557436004432 23S rRNA interface [nucleotide binding]; other site 557436004433 L3 interface [polypeptide binding]; other site 557436004434 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 557436004435 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 557436004436 dimerization interface 3.5A [polypeptide binding]; other site 557436004437 active site 557436004438 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 557436004439 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 557436004440 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557436004441 Walker A/P-loop; other site 557436004442 ATP binding site [chemical binding]; other site 557436004443 Q-loop/lid; other site 557436004444 ABC transporter signature motif; other site 557436004445 Walker B; other site 557436004446 D-loop; other site 557436004447 H-loop/switch region; other site 557436004448 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 557436004449 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557436004450 Walker A/P-loop; other site 557436004451 ATP binding site [chemical binding]; other site 557436004452 Q-loop/lid; other site 557436004453 ABC transporter signature motif; other site 557436004454 Walker B; other site 557436004455 D-loop; other site 557436004456 H-loop/switch region; other site 557436004457 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 557436004458 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 557436004459 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 557436004460 alphaNTD homodimer interface [polypeptide binding]; other site 557436004461 alphaNTD - beta interaction site [polypeptide binding]; other site 557436004462 alphaNTD - beta' interaction site [polypeptide binding]; other site 557436004463 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 557436004464 30S ribosomal protein S11; Validated; Region: PRK05309 557436004465 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 557436004466 30S ribosomal protein S13; Region: bact_S13; TIGR03631 557436004467 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 557436004468 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 557436004469 rRNA binding site [nucleotide binding]; other site 557436004470 predicted 30S ribosome binding site; other site 557436004471 adenylate kinase; Reviewed; Region: adk; PRK00279 557436004472 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 557436004473 AMP-binding site [chemical binding]; other site 557436004474 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 557436004475 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 557436004476 SecY translocase; Region: SecY; pfam00344 557436004477 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 557436004478 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 557436004479 23S rRNA binding site [nucleotide binding]; other site 557436004480 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 557436004481 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 557436004482 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 557436004483 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 557436004484 5S rRNA interface [nucleotide binding]; other site 557436004485 L27 interface [polypeptide binding]; other site 557436004486 23S rRNA interface [nucleotide binding]; other site 557436004487 L5 interface [polypeptide binding]; other site 557436004488 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 557436004489 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557436004490 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557436004491 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 557436004492 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 557436004493 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 557436004494 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 557436004495 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 557436004496 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 557436004497 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 557436004498 RNA binding site [nucleotide binding]; other site 557436004499 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 557436004500 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 557436004501 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 557436004502 23S rRNA interface [nucleotide binding]; other site 557436004503 putative translocon interaction site; other site 557436004504 signal recognition particle (SRP54) interaction site; other site 557436004505 L23 interface [polypeptide binding]; other site 557436004506 trigger factor interaction site; other site 557436004507 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 557436004508 23S rRNA interface [nucleotide binding]; other site 557436004509 5S rRNA interface [nucleotide binding]; other site 557436004510 putative antibiotic binding site [chemical binding]; other site 557436004511 L25 interface [polypeptide binding]; other site 557436004512 L27 interface [polypeptide binding]; other site 557436004513 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 557436004514 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 557436004515 G-X-X-G motif; other site 557436004516 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 557436004517 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 557436004518 putative translocon binding site; other site 557436004519 protein-rRNA interface [nucleotide binding]; other site 557436004520 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 557436004521 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 557436004522 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 557436004523 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 557436004524 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 557436004525 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 557436004526 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 557436004527 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 557436004528 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 557436004529 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557436004530 elongation factor G; Reviewed; Region: PRK12739 557436004531 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 557436004532 G1 box; other site 557436004533 putative GEF interaction site [polypeptide binding]; other site 557436004534 GTP/Mg2+ binding site [chemical binding]; other site 557436004535 Switch I region; other site 557436004536 G2 box; other site 557436004537 G3 box; other site 557436004538 Switch II region; other site 557436004539 G4 box; other site 557436004540 G5 box; other site 557436004541 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 557436004542 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 557436004543 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 557436004544 30S ribosomal protein S7; Validated; Region: PRK05302 557436004545 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 557436004546 S17 interaction site [polypeptide binding]; other site 557436004547 S8 interaction site; other site 557436004548 16S rRNA interaction site [nucleotide binding]; other site 557436004549 streptomycin interaction site [chemical binding]; other site 557436004550 23S rRNA interaction site [nucleotide binding]; other site 557436004551 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 557436004552 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 557436004553 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 557436004554 Predicted membrane protein [Function unknown]; Region: COG3371 557436004555 Protein of unknown function (DUF998); Region: DUF998; pfam06197 557436004556 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 557436004557 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 557436004558 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 557436004559 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 557436004560 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 557436004561 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 557436004562 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 557436004563 G-loop; other site 557436004564 DNA binding site [nucleotide binding] 557436004565 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 557436004566 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 557436004567 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 557436004568 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 557436004569 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 557436004570 RPB1 interaction site [polypeptide binding]; other site 557436004571 RPB12 interaction site [polypeptide binding]; other site 557436004572 RPB10 interaction site [polypeptide binding]; other site 557436004573 RPB11 interaction site [polypeptide binding]; other site 557436004574 RPB3 interaction site [polypeptide binding]; other site 557436004575 RPB12 interaction site [polypeptide binding]; other site 557436004576 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557436004577 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557436004578 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 557436004579 Clp amino terminal domain; Region: Clp_N; pfam02861 557436004580 Clp amino terminal domain; Region: Clp_N; pfam02861 557436004581 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 557436004582 Walker A motif; other site 557436004583 ATP binding site [chemical binding]; other site 557436004584 Walker B motif; other site 557436004585 arginine finger; other site 557436004586 UvrB/uvrC motif; Region: UVR; pfam02151 557436004587 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 557436004588 Walker A motif; other site 557436004589 ATP binding site [chemical binding]; other site 557436004590 Walker B motif; other site 557436004591 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557436004592 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 557436004593 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 557436004594 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 557436004595 NAD binding site [chemical binding]; other site 557436004596 substrate binding site [chemical binding]; other site 557436004597 catalytic Zn binding site [ion binding]; other site 557436004598 tetramer interface [polypeptide binding]; other site 557436004599 structural Zn binding site [ion binding]; other site 557436004600 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 557436004601 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 557436004602 Substrate-binding site [chemical binding]; other site 557436004603 Substrate specificity [chemical binding]; other site 557436004604 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436004605 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 557436004606 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557436004607 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557436004608 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 557436004609 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557436004610 active site 557436004611 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 557436004612 Uncharacterized conserved protein [Function unknown]; Region: COG2966 557436004613 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 557436004614 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 557436004615 DNA-binding site [nucleotide binding]; DNA binding site 557436004616 RNA-binding motif; other site 557436004617 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 557436004618 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 557436004619 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 557436004620 FeoA domain; Region: FeoA; pfam04023 557436004621 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 557436004622 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 557436004623 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 557436004624 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 557436004625 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 557436004626 Ligand Binding Site [chemical binding]; other site 557436004627 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557436004628 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557436004629 Walker A/P-loop; other site 557436004630 ATP binding site [chemical binding]; other site 557436004631 Q-loop/lid; other site 557436004632 ABC transporter signature motif; other site 557436004633 Walker B; other site 557436004634 D-loop; other site 557436004635 H-loop/switch region; other site 557436004636 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557436004637 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 557436004638 substrate binding pocket [chemical binding]; other site 557436004639 membrane-bound complex binding site; other site 557436004640 hinge residues; other site 557436004641 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557436004642 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 557436004643 dimer interface [polypeptide binding]; other site 557436004644 conserved gate region; other site 557436004645 putative PBP binding loops; other site 557436004646 ABC-ATPase subunit interface; other site 557436004647 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 557436004648 dimer interface [polypeptide binding]; other site 557436004649 conserved gate region; other site 557436004650 putative PBP binding loops; other site 557436004651 ABC-ATPase subunit interface; other site 557436004652 CAAX protease self-immunity; Region: Abi; pfam02517 557436004653 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 557436004654 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 557436004655 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 557436004656 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 557436004657 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 557436004658 DNA binding residues [nucleotide binding] 557436004659 putative dimer interface [polypeptide binding]; other site 557436004660 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557436004661 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 557436004662 putative substrate translocation pore; other site 557436004663 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 557436004664 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557436004665 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557436004666 active site 557436004667 Predicted integral membrane protein [Function unknown]; Region: COG0392 557436004668 Uncharacterized conserved protein [Function unknown]; Region: COG2898 557436004669 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 557436004670 DJ-1 family protein; Region: not_thiJ; TIGR01383 557436004671 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 557436004672 conserved cys residue [active] 557436004673 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 557436004674 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557436004675 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 557436004676 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436004677 putative substrate translocation pore; other site 557436004678 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 557436004679 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 557436004680 Fe-S cluster binding site [ion binding]; other site 557436004681 active site 557436004682 Uncharacterized conserved protein [Function unknown]; Region: COG2966 557436004683 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 557436004684 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 557436004685 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557436004686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557436004687 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 557436004688 dimerization interface [polypeptide binding]; other site 557436004689 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 557436004690 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 557436004691 transmembrane helices; other site 557436004692 L-aspartate oxidase; Provisional; Region: PRK06175 557436004693 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 557436004694 fumarate hydratase; Reviewed; Region: fumC; PRK00485 557436004695 Class II fumarases; Region: Fumarase_classII; cd01362 557436004696 active site 557436004697 tetramer interface [polypeptide binding]; other site 557436004698 malate dehydrogenase; Provisional; Region: PRK13529 557436004699 Malic enzyme, N-terminal domain; Region: malic; pfam00390 557436004700 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 557436004701 NAD(P) binding site [chemical binding]; other site 557436004702 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557436004703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557436004704 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 557436004705 dimerization interface [polypeptide binding]; other site 557436004706 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 557436004707 active site 557436004708 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 557436004709 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 557436004710 putative NAD(P) binding site [chemical binding]; other site 557436004711 putative substrate binding site [chemical binding]; other site 557436004712 catalytic Zn binding site [ion binding]; other site 557436004713 structural Zn binding site [ion binding]; other site 557436004714 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 557436004715 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 557436004716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 557436004717 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 557436004718 active site 557436004719 catalytic residues [active] 557436004720 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557436004721 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 557436004722 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557436004723 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 557436004724 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557436004725 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 557436004726 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 557436004727 active site 557436004728 homodimer interface [polypeptide binding]; other site 557436004729 catalytic site [active] 557436004730 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 557436004731 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436004732 putative substrate translocation pore; other site 557436004733 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 557436004734 hypothetical protein; Provisional; Region: PRK07205 557436004735 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 557436004736 active site 557436004737 metal binding site [ion binding]; metal-binding site 557436004738 Predicted membrane protein [Function unknown]; Region: COG1288 557436004739 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 557436004740 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 557436004741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436004742 Q-loop/lid; other site 557436004743 ABC transporter signature motif; other site 557436004744 Walker B; other site 557436004745 D-loop; other site 557436004746 ABC transporter; Region: ABC_tran_2; pfam12848 557436004747 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557436004748 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 557436004749 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557436004750 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 557436004751 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557436004752 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557436004753 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 557436004754 dimer interface [polypeptide binding]; other site 557436004755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436004756 catalytic residue [active] 557436004757 Ferrochelatase; Region: Ferrochelatase; pfam00762 557436004758 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 557436004759 C-terminal domain interface [polypeptide binding]; other site 557436004760 active site 557436004761 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 557436004762 active site 557436004763 N-terminal domain interface [polypeptide binding]; other site 557436004764 manganese transport protein MntH; Reviewed; Region: PRK00701 557436004765 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 557436004766 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 557436004767 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 557436004768 TrkA-N domain; Region: TrkA_N; pfam02254 557436004769 TrkA-C domain; Region: TrkA_C; pfam02080 557436004770 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 557436004771 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 557436004772 myosin-cross-reactive antigen; Provisional; Region: PRK13977 557436004773 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 557436004774 dimer interface [polypeptide binding]; other site 557436004775 FMN binding site [chemical binding]; other site 557436004776 NADPH bind site [chemical binding]; other site 557436004777 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 557436004778 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557436004779 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 557436004780 DXD motif; other site 557436004781 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 557436004782 PhoU domain; Region: PhoU; pfam01895 557436004783 PhoU domain; Region: PhoU; pfam01895 557436004784 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 557436004785 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 557436004786 Walker A/P-loop; other site 557436004787 ATP binding site [chemical binding]; other site 557436004788 Q-loop/lid; other site 557436004789 ABC transporter signature motif; other site 557436004790 Walker B; other site 557436004791 D-loop; other site 557436004792 H-loop/switch region; other site 557436004793 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 557436004794 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 557436004795 dimer interface [polypeptide binding]; other site 557436004796 conserved gate region; other site 557436004797 putative PBP binding loops; other site 557436004798 ABC-ATPase subunit interface; other site 557436004799 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 557436004800 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 557436004801 dimer interface [polypeptide binding]; other site 557436004802 conserved gate region; other site 557436004803 putative PBP binding loops; other site 557436004804 ABC-ATPase subunit interface; other site 557436004805 PBP superfamily domain; Region: PBP_like_2; cl17296 557436004806 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557436004807 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557436004808 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 557436004809 DNA binding site [nucleotide binding] 557436004810 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557436004811 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436004812 Coenzyme A binding pocket [chemical binding]; other site 557436004813 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 557436004814 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 557436004815 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 557436004816 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 557436004817 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557436004818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557436004819 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 557436004820 dimerization interface [polypeptide binding]; other site 557436004821 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 557436004822 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 557436004823 catalytic Zn binding site [ion binding]; other site 557436004824 NAD binding site [chemical binding]; other site 557436004825 structural Zn binding site [ion binding]; other site 557436004826 Low molecular weight phosphatase family; Region: LMWPc; cl00105 557436004827 elongation factor P; Validated; Region: PRK00529 557436004828 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 557436004829 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 557436004830 RNA binding site [nucleotide binding]; other site 557436004831 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 557436004832 RNA binding site [nucleotide binding]; other site 557436004833 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 557436004834 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 557436004835 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436004836 Integrase core domain; Region: rve; pfam00665 557436004837 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557436004838 S-ribosylhomocysteinase; Provisional; Region: PRK02260 557436004839 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 557436004840 active site 557436004841 Predicted membrane protein [Function unknown]; Region: COG2364 557436004842 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 557436004843 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557436004844 catalytic Zn binding site [ion binding]; other site 557436004845 NAD(P) binding site [chemical binding]; other site 557436004846 structural Zn binding site [ion binding]; other site 557436004847 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 557436004848 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557436004849 Helix-turn-helix domain; Region: HTH_28; pfam13518 557436004850 putative transposase OrfB; Reviewed; Region: PHA02517 557436004851 HTH-like domain; Region: HTH_21; pfam13276 557436004852 Integrase core domain; Region: rve; pfam00665 557436004853 Integrase core domain; Region: rve_3; pfam13683 557436004854 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 557436004855 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557436004856 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557436004857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 557436004858 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557436004859 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557436004860 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 557436004861 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 557436004862 Na binding site [ion binding]; other site 557436004863 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 557436004864 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436004865 Coenzyme A binding pocket [chemical binding]; other site 557436004866 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436004867 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557436004868 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 557436004869 putative substrate translocation pore; other site 557436004870 Protein of unknown function (DUF436); Region: DUF436; pfam04260 557436004871 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 557436004872 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 557436004873 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 557436004874 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 557436004875 putative substrate translocation pore; other site 557436004876 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 557436004877 Int/Topo IB signature motif; other site 557436004878 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 557436004879 Phage associated DNA primase [General function prediction only]; Region: COG3378 557436004880 Helix-turn-helix domain; Region: HTH_38; pfam13936 557436004881 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436004882 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 557436004883 homodimer interface [polypeptide binding]; other site 557436004884 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 557436004885 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 557436004886 active site 557436004887 homodimer interface [polypeptide binding]; other site 557436004888 catalytic site [active] 557436004889 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 557436004890 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436004891 putative substrate translocation pore; other site 557436004892 GMP synthase; Reviewed; Region: guaA; PRK00074 557436004893 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 557436004894 AMP/PPi binding site [chemical binding]; other site 557436004895 candidate oxyanion hole; other site 557436004896 catalytic triad [active] 557436004897 potential glutamine specificity residues [chemical binding]; other site 557436004898 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 557436004899 ATP Binding subdomain [chemical binding]; other site 557436004900 Ligand Binding sites [chemical binding]; other site 557436004901 Dimerization subdomain; other site 557436004902 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 557436004903 AAA domain; Region: AAA_14; pfam13173 557436004904 pantothenate kinase; Provisional; Region: PRK05439 557436004905 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 557436004906 ATP-binding site [chemical binding]; other site 557436004907 CoA-binding site [chemical binding]; other site 557436004908 Mg2+-binding site [ion binding]; other site 557436004909 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 557436004910 Sulfatase; Region: Sulfatase; pfam00884 557436004911 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557436004912 EamA-like transporter family; Region: EamA; pfam00892 557436004913 EamA-like transporter family; Region: EamA; pfam00892 557436004914 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557436004915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557436004916 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 557436004917 Probable transposase; Region: OrfB_IS605; pfam01385 557436004918 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557436004919 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436004920 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 557436004921 Part of AAA domain; Region: AAA_19; pfam13245 557436004922 Family description; Region: UvrD_C_2; pfam13538 557436004923 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557436004924 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557436004925 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 557436004926 catalytic core [active] 557436004927 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 557436004928 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 557436004929 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 557436004930 HflX GTPase family; Region: HflX; cd01878 557436004931 G1 box; other site 557436004932 GTP/Mg2+ binding site [chemical binding]; other site 557436004933 Switch I region; other site 557436004934 G2 box; other site 557436004935 G3 box; other site 557436004936 Switch II region; other site 557436004937 G4 box; other site 557436004938 G5 box; other site 557436004939 Predicted membrane protein [Function unknown]; Region: COG2261 557436004940 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 557436004941 D-lactate dehydrogenase; Validated; Region: PRK08605 557436004942 homodimer interface [polypeptide binding]; other site 557436004943 ligand binding site [chemical binding]; other site 557436004944 NAD binding site [chemical binding]; other site 557436004945 catalytic site [active] 557436004946 Predicted membrane protein [Function unknown]; Region: COG1511 557436004947 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 557436004948 Predicted membrane protein [Function unknown]; Region: COG1511 557436004949 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 557436004950 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557436004951 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557436004952 PspC domain; Region: PspC; pfam04024 557436004953 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557436004954 metal binding site 2 [ion binding]; metal-binding site 557436004955 putative DNA binding helix; other site 557436004956 metal binding site 1 [ion binding]; metal-binding site 557436004957 dimer interface [polypeptide binding]; other site 557436004958 structural Zn2+ binding site [ion binding]; other site 557436004959 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 557436004960 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 557436004961 active site 557436004962 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 557436004963 active site 557436004964 Ap4A binding cleft/pocket [chemical binding]; other site 557436004965 P4 phosphate binding site; other site 557436004966 nudix motif; other site 557436004967 putative P2/P3 phosphate binding site [ion binding]; other site 557436004968 amino acid transporter; Region: 2A0306; TIGR00909 557436004969 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 557436004970 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 557436004971 putative substrate translocation pore; other site 557436004972 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557436004973 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557436004974 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557436004975 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 557436004976 dimer interface [polypeptide binding]; other site 557436004977 conserved gate region; other site 557436004978 putative PBP binding loops; other site 557436004979 ABC-ATPase subunit interface; other site 557436004980 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557436004981 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 557436004982 dimer interface [polypeptide binding]; other site 557436004983 conserved gate region; other site 557436004984 putative PBP binding loops; other site 557436004985 ABC-ATPase subunit interface; other site 557436004986 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557436004987 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 557436004988 Walker A/P-loop; other site 557436004989 ATP binding site [chemical binding]; other site 557436004990 Q-loop/lid; other site 557436004991 ABC transporter signature motif; other site 557436004992 Walker B; other site 557436004993 D-loop; other site 557436004994 H-loop/switch region; other site 557436004995 TOBE domain; Region: TOBE_2; pfam08402 557436004996 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 557436004997 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 557436004998 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 557436004999 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 557436005000 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 557436005001 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 557436005002 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557436005003 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 557436005004 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 557436005005 motif II; other site 557436005006 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 557436005007 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 557436005008 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 557436005009 dimerization interface [polypeptide binding]; other site 557436005010 DPS ferroxidase diiron center [ion binding]; other site 557436005011 ion pore; other site 557436005012 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557436005013 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 557436005014 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 557436005015 motif II; other site 557436005016 Helix-turn-helix domain; Region: HTH_28; pfam13518 557436005017 Integrase core domain; Region: rve; pfam00665 557436005018 Integrase core domain; Region: rve_3; cl15866 557436005019 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 557436005020 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557436005021 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 557436005022 active site 557436005023 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 3beta-17beta-HSD_like_SDR_c; cd05341 557436005024 homotetramer interface [polypeptide binding]; other site 557436005025 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 557436005026 NAD binding site [chemical binding]; other site 557436005027 homodimer interface [polypeptide binding]; other site 557436005028 active site 557436005029 hypothetical protein; Provisional; Region: PRK10621 557436005030 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557436005031 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 557436005032 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 557436005033 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557436005034 Walker A/P-loop; other site 557436005035 ATP binding site [chemical binding]; other site 557436005036 Q-loop/lid; other site 557436005037 ABC transporter signature motif; other site 557436005038 Walker B; other site 557436005039 D-loop; other site 557436005040 H-loop/switch region; other site 557436005041 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 557436005042 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557436005043 Walker A/P-loop; other site 557436005044 ATP binding site [chemical binding]; other site 557436005045 Q-loop/lid; other site 557436005046 ABC transporter signature motif; other site 557436005047 Walker B; other site 557436005048 D-loop; other site 557436005049 H-loop/switch region; other site 557436005050 Cobalt transport protein; Region: CbiQ; cl00463 557436005051 Tic20-like protein; Region: Tic20; pfam09685 557436005052 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 557436005053 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 557436005054 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557436005055 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557436005056 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557436005057 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 557436005058 non-specific DNA binding site [nucleotide binding]; other site 557436005059 salt bridge; other site 557436005060 sequence-specific DNA binding site [nucleotide binding]; other site 557436005061 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 557436005062 active site 557436005063 metal binding site [ion binding]; metal-binding site 557436005064 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 557436005065 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 557436005066 putative NAD(P) binding site [chemical binding]; other site 557436005067 substrate binding site [chemical binding]; other site 557436005068 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 557436005069 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 557436005070 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557436005071 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 557436005072 putative substrate translocation pore; other site 557436005073 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557436005074 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 557436005075 non-specific DNA binding site [nucleotide binding]; other site 557436005076 salt bridge; other site 557436005077 sequence-specific DNA binding site [nucleotide binding]; other site 557436005078 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557436005079 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436005080 Walker A/P-loop; other site 557436005081 ATP binding site [chemical binding]; other site 557436005082 Q-loop/lid; other site 557436005083 ABC transporter signature motif; other site 557436005084 Walker B; other site 557436005085 D-loop; other site 557436005086 H-loop/switch region; other site 557436005087 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 557436005088 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 557436005089 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 557436005090 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 557436005091 Ligand Binding Site [chemical binding]; other site 557436005092 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 557436005093 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 557436005094 G1 box; other site 557436005095 putative GEF interaction site [polypeptide binding]; other site 557436005096 GTP/Mg2+ binding site [chemical binding]; other site 557436005097 Switch I region; other site 557436005098 G2 box; other site 557436005099 G3 box; other site 557436005100 Switch II region; other site 557436005101 G4 box; other site 557436005102 G5 box; other site 557436005103 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 557436005104 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 557436005105 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 557436005106 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 557436005107 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557436005108 nucleotide binding site [chemical binding]; other site 557436005109 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 557436005110 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436005111 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 557436005112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557436005113 Probable transposase; Region: OrfB_IS605; pfam01385 557436005114 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557436005115 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557436005116 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 557436005117 nucleophilic elbow; other site 557436005118 catalytic triad; other site 557436005119 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557436005120 amino acid transporter; Region: 2A0306; TIGR00909 557436005121 Spore germination protein; Region: Spore_permease; cl17796 557436005122 putative phosphoketolase; Provisional; Region: PRK05261 557436005123 XFP N-terminal domain; Region: XFP_N; pfam09364 557436005124 XFP C-terminal domain; Region: XFP_C; pfam09363 557436005125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557436005126 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557436005127 DNA-binding site [nucleotide binding]; DNA binding site 557436005128 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 557436005129 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 557436005130 putative deacylase active site [active] 557436005131 Peptidase family C69; Region: Peptidase_C69; pfam03577 557436005132 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557436005133 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557436005134 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 557436005135 Walker A/P-loop; other site 557436005136 ATP binding site [chemical binding]; other site 557436005137 Q-loop/lid; other site 557436005138 ABC transporter signature motif; other site 557436005139 Walker B; other site 557436005140 D-loop; other site 557436005141 H-loop/switch region; other site 557436005142 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557436005143 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557436005144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436005145 Walker A/P-loop; other site 557436005146 ATP binding site [chemical binding]; other site 557436005147 Q-loop/lid; other site 557436005148 ABC transporter signature motif; other site 557436005149 Walker B; other site 557436005150 D-loop; other site 557436005151 H-loop/switch region; other site 557436005152 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 557436005153 D-lactate dehydrogenase; Validated; Region: PRK08605 557436005154 homodimer interface [polypeptide binding]; other site 557436005155 ligand binding site [chemical binding]; other site 557436005156 NAD binding site [chemical binding]; other site 557436005157 catalytic site [active] 557436005158 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 557436005159 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 557436005160 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 557436005161 active site pocket [active] 557436005162 putative dimer interface [polypeptide binding]; other site 557436005163 putative cataytic base [active] 557436005164 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 557436005165 active site 557436005166 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 557436005167 catalytic core [active] 557436005168 Cobalamin-5-phosphate synthase [Coenzyme metabolism]; Region: CobS; COG0368 557436005169 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 557436005170 homotrimer interface [polypeptide binding]; other site 557436005171 Walker A motif; other site 557436005172 GTP binding site [chemical binding]; other site 557436005173 Walker B motif; other site 557436005174 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 557436005175 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 557436005176 inhibitor-cofactor binding pocket; inhibition site 557436005177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436005178 catalytic residue [active] 557436005179 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 557436005180 dimer interface [polypeptide binding]; other site 557436005181 active site 557436005182 Schiff base residues; other site 557436005183 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 557436005184 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 557436005185 domain interfaces; other site 557436005186 active site 557436005187 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 557436005188 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 557436005189 tRNA; other site 557436005190 putative tRNA binding site [nucleotide binding]; other site 557436005191 putative NADP binding site [chemical binding]; other site 557436005192 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 557436005193 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 557436005194 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 557436005195 cobyric acid synthase; Provisional; Region: PRK00784 557436005196 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 557436005197 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 557436005198 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 557436005199 catalytic triad [active] 557436005200 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 557436005201 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557436005202 Walker A/P-loop; other site 557436005203 ATP binding site [chemical binding]; other site 557436005204 Q-loop/lid; other site 557436005205 ABC transporter signature motif; other site 557436005206 Walker B; other site 557436005207 D-loop; other site 557436005208 H-loop/switch region; other site 557436005209 Cobalt transport protein; Region: CbiQ; cl00463 557436005210 cobalt transport protein CbiN; Provisional; Region: PRK02898 557436005211 cobalt transport protein CbiM; Validated; Region: PRK08319 557436005212 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 557436005213 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 557436005214 active site 557436005215 SAM binding site [chemical binding]; other site 557436005216 homodimer interface [polypeptide binding]; other site 557436005217 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 557436005218 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 557436005219 active site 557436005220 C-terminal domain interface [polypeptide binding]; other site 557436005221 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 557436005222 active site 557436005223 N-terminal domain interface [polypeptide binding]; other site 557436005224 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed; Region: PRK07168 557436005225 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 557436005226 active site 557436005227 SAM binding site [chemical binding]; other site 557436005228 homodimer interface [polypeptide binding]; other site 557436005229 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 557436005230 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 557436005231 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 557436005232 active site 557436005233 SAM binding site [chemical binding]; other site 557436005234 homodimer interface [polypeptide binding]; other site 557436005235 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 557436005236 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 557436005237 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 557436005238 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 557436005239 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 557436005240 active site 557436005241 SAM binding site [chemical binding]; other site 557436005242 homodimer interface [polypeptide binding]; other site 557436005243 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 557436005244 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 557436005245 S-adenosylmethionine binding site [chemical binding]; other site 557436005246 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 557436005247 active site 557436005248 putative homodimer interface [polypeptide binding]; other site 557436005249 SAM binding site [chemical binding]; other site 557436005250 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 557436005251 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 557436005252 Precorrin-8X methylmutase; Region: CbiC; pfam02570 557436005253 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 557436005254 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 557436005255 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 557436005256 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 557436005257 catalytic triad [active] 557436005258 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 557436005259 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 557436005260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436005261 homodimer interface [polypeptide binding]; other site 557436005262 catalytic residue [active] 557436005263 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436005264 Integrase core domain; Region: rve; pfam00665 557436005265 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 557436005266 Predicted flavoprotein [General function prediction only]; Region: COG0431 557436005267 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557436005268 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 557436005269 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557436005270 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 557436005271 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 557436005272 G1 box; other site 557436005273 GTP/Mg2+ binding site [chemical binding]; other site 557436005274 G2 box; other site 557436005275 Switch I region; other site 557436005276 G3 box; other site 557436005277 Switch II region; other site 557436005278 G4 box; other site 557436005279 G5 box; other site 557436005280 Cadmium resistance transporter; Region: Cad; pfam03596 557436005281 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 557436005282 catalytic core [active] 557436005283 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 557436005284 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 557436005285 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 557436005286 putative hexamer interface [polypeptide binding]; other site 557436005287 putative hexagonal pore; other site 557436005288 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 557436005289 propionate/acetate kinase; Provisional; Region: PRK12379 557436005290 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557436005291 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 557436005292 putative active site [active] 557436005293 metal binding site [ion binding]; metal-binding site 557436005294 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 557436005295 putative catalytic cysteine [active] 557436005296 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 557436005297 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 557436005298 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 557436005299 Hexamer/Pentamer interface [polypeptide binding]; other site 557436005300 central pore; other site 557436005301 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 557436005302 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 557436005303 Propanediol utilisation protein PduL; Region: PduL; pfam06130 557436005304 Propanediol utilisation protein PduL; Region: PduL; pfam06130 557436005305 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 557436005306 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 557436005307 Hexamer interface [polypeptide binding]; other site 557436005308 Hexagonal pore residue; other site 557436005309 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 557436005310 1,2-propanediol utilization protein K (PduK), Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 557436005311 putative hexamer interface [polypeptide binding]; other site 557436005312 putative hexagonal pore; other site 557436005313 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 557436005314 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 557436005315 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 557436005316 propanediol dehydratase small subunit; Provisional; Region: pduE; PRK15443 557436005317 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 557436005318 propanediol dehydratase large subunit; Provisional; Region: pduC; PRK15444 557436005319 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 557436005320 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 557436005321 alpha-beta subunit interface [polypeptide binding]; other site 557436005322 alpha-gamma subunit interface [polypeptide binding]; other site 557436005323 active site 557436005324 substrate and K+ binding site; other site 557436005325 K+ binding site [ion binding]; other site 557436005326 cobalamin binding site [chemical binding]; other site 557436005327 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 557436005328 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 557436005329 Hexamer interface [polypeptide binding]; other site 557436005330 Hexagonal pore residue; other site 557436005331 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 557436005332 putative hexamer interface [polypeptide binding]; other site 557436005333 putative hexagonal pore; other site 557436005334 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 557436005335 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 557436005336 Hexamer interface [polypeptide binding]; other site 557436005337 Hexagonal pore residue; other site 557436005338 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557436005339 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557436005340 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 557436005341 Cell division protein FtsA; Region: FtsA; cl17206 557436005342 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557436005343 nucleotide binding site [chemical binding]; other site 557436005344 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 557436005345 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 557436005346 amphipathic channel; other site 557436005347 Asn-Pro-Ala signature motifs; other site 557436005348 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 557436005349 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 557436005350 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557436005351 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557436005352 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 557436005353 B3/4 domain; Region: B3_4; pfam03483 557436005354 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557436005355 MarR family; Region: MarR; pfam01047 557436005356 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 557436005357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557436005358 active site 557436005359 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557436005360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436005361 Walker A/P-loop; other site 557436005362 ATP binding site [chemical binding]; other site 557436005363 Q-loop/lid; other site 557436005364 ABC transporter signature motif; other site 557436005365 Walker B; other site 557436005366 D-loop; other site 557436005367 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 557436005368 Domain of unknown function DUF21; Region: DUF21; pfam01595 557436005369 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 557436005370 Transporter associated domain; Region: CorC_HlyC; smart01091 557436005371 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 557436005372 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 557436005373 dimer interface [polypeptide binding]; other site 557436005374 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 557436005375 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 557436005376 putative substrate translocation pore; other site 557436005377 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 557436005378 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 557436005379 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 557436005380 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557436005381 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 557436005382 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 557436005383 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 557436005384 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 557436005385 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 557436005386 HPr interaction site; other site 557436005387 glycerol kinase (GK) interaction site [polypeptide binding]; other site 557436005388 active site 557436005389 phosphorylation site [posttranslational modification] 557436005390 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 557436005391 Ligand Binding Site [chemical binding]; other site 557436005392 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557436005393 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 557436005394 putative DNA binding site [nucleotide binding]; other site 557436005395 putative Zn2+ binding site [ion binding]; other site 557436005396 AsnC family; Region: AsnC_trans_reg; pfam01037 557436005397 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557436005398 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557436005399 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557436005400 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 557436005401 Integrase core domain; Region: rve; pfam00665 557436005402 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436005403 Helix-turn-helix domain; Region: HTH_38; pfam13936 557436005404 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557436005405 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557436005406 DNA binding site [nucleotide binding] 557436005407 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 557436005408 putative ligand binding site [chemical binding]; other site 557436005409 putative dimerization interface [polypeptide binding]; other site 557436005410 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 557436005411 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 557436005412 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 557436005413 galactokinase; Provisional; Region: PRK05322 557436005414 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 557436005415 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557436005416 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 557436005417 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 557436005418 active site 557436005419 catalytic triad [active] 557436005420 oxyanion hole [active] 557436005421 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 557436005422 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 557436005423 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 557436005424 substrate binding site [chemical binding]; other site 557436005425 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 557436005426 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557436005427 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557436005428 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 557436005429 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 557436005430 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557436005431 active site 557436005432 catalytic tetrad [active] 557436005433 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557436005434 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 557436005435 active site 557436005436 phosphorylation site [posttranslational modification] 557436005437 intermolecular recognition site; other site 557436005438 dimerization interface [polypeptide binding]; other site 557436005439 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 557436005440 DNA binding site [nucleotide binding] 557436005441 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557436005442 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 557436005443 ATP binding site [chemical binding]; other site 557436005444 Mg2+ binding site [ion binding]; other site 557436005445 G-X-G motif; other site 557436005446 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557436005447 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557436005448 Walker A/P-loop; other site 557436005449 ATP binding site [chemical binding]; other site 557436005450 Q-loop/lid; other site 557436005451 ABC transporter signature motif; other site 557436005452 Walker B; other site 557436005453 D-loop; other site 557436005454 H-loop/switch region; other site 557436005455 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 557436005456 FtsX-like permease family; Region: FtsX; pfam02687 557436005457 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 557436005458 proposed active site lysine [active] 557436005459 conserved cys residue [active] 557436005460 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557436005461 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 557436005462 dimer interface [polypeptide binding]; other site 557436005463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436005464 catalytic residue [active] 557436005465 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 557436005466 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 557436005467 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 557436005468 putative active site [active] 557436005469 catalytic site [active] 557436005470 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 557436005471 putative active site [active] 557436005472 catalytic site [active] 557436005473 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557436005474 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 557436005475 putative substrate translocation pore; other site 557436005476 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 557436005477 putative ADP-ribose binding site [chemical binding]; other site 557436005478 putative active site [active] 557436005479 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557436005480 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 557436005481 non-specific DNA binding site [nucleotide binding]; other site 557436005482 salt bridge; other site 557436005483 sequence-specific DNA binding site [nucleotide binding]; other site 557436005484 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 557436005485 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 557436005486 active site 557436005487 Zn binding site [ion binding]; other site 557436005488 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 557436005489 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; cl00057 557436005490 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 557436005491 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557436005492 Walker A motif; other site 557436005493 ATP binding site [chemical binding]; other site 557436005494 Walker B motif; other site 557436005495 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 557436005496 active site 557436005497 DNA binding site [nucleotide binding] 557436005498 Uncharacterized conserved protein [Function unknown]; Region: COG3189 557436005499 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 557436005500 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557436005501 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 557436005502 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 557436005503 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 557436005504 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 557436005505 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 557436005506 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557436005507 Predicted membrane protein [Function unknown]; Region: COG4905 557436005508 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 557436005509 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 557436005510 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436005511 Walker A/P-loop; other site 557436005512 ATP binding site [chemical binding]; other site 557436005513 Q-loop/lid; other site 557436005514 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557436005515 ABC transporter signature motif; other site 557436005516 Walker B; other site 557436005517 D-loop; other site 557436005518 ABC transporter; Region: ABC_tran_2; pfam12848 557436005519 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557436005520 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 557436005521 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436005522 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557436005523 NlpC/P60 family; Region: NLPC_P60; pfam00877 557436005524 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 557436005525 zinc binding site [ion binding]; other site 557436005526 putative ligand binding site [chemical binding]; other site 557436005527 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 557436005528 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557436005529 TM-ABC transporter signature motif; other site 557436005530 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 557436005531 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436005532 Walker A/P-loop; other site 557436005533 ATP binding site [chemical binding]; other site 557436005534 Q-loop/lid; other site 557436005535 ABC transporter signature motif; other site 557436005536 Walker B; other site 557436005537 D-loop; other site 557436005538 H-loop/switch region; other site 557436005539 Cadmium resistance transporter; Region: Cad; pfam03596 557436005540 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 557436005541 dimerization interface [polypeptide binding]; other site 557436005542 putative DNA binding site [nucleotide binding]; other site 557436005543 putative Zn2+ binding site [ion binding]; other site 557436005544 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 557436005545 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 557436005546 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 557436005547 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557436005548 catalytic residues [active] 557436005549 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 557436005550 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557436005551 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557436005552 active site 557436005553 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 557436005554 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 557436005555 Cl binding site [ion binding]; other site 557436005556 oligomer interface [polypeptide binding]; other site 557436005557 Peptidase family C69; Region: Peptidase_C69; pfam03577 557436005558 xanthine permease; Region: pbuX; TIGR03173 557436005559 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 557436005560 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 557436005561 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 557436005562 dimer interface [polypeptide binding]; other site 557436005563 motif 1; other site 557436005564 active site 557436005565 motif 2; other site 557436005566 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 557436005567 anticodon binding site; other site 557436005568 Histidine carboxylase PI chain; Region: HDC; cl03540 557436005569 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 557436005570 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 557436005571 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 557436005572 Predicted membrane protein [Function unknown]; Region: COG1288 557436005573 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 557436005574 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 557436005575 catalytic core [active] 557436005576 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 557436005577 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 557436005578 Sulfatase; Region: Sulfatase; pfam00884 557436005579 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 557436005580 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 557436005581 dimer interface [polypeptide binding]; other site 557436005582 active site 557436005583 metal binding site [ion binding]; metal-binding site 557436005584 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557436005585 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557436005586 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 557436005587 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 557436005588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 557436005589 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557436005590 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 557436005591 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557436005592 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 557436005593 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 557436005594 dimer interface [polypeptide binding]; other site 557436005595 motif 1; other site 557436005596 active site 557436005597 motif 2; other site 557436005598 motif 3; other site 557436005599 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 557436005600 anticodon binding site; other site 557436005601 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 557436005602 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436005603 putative substrate translocation pore; other site 557436005604 Uncharacterized conserved protein [Function unknown]; Region: COG4095 557436005605 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557436005606 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557436005607 DNA binding site [nucleotide binding] 557436005608 domain linker motif; other site 557436005609 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 557436005610 dimerization interface [polypeptide binding]; other site 557436005611 ligand binding site [chemical binding]; other site 557436005612 sodium binding site [ion binding]; other site 557436005613 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 557436005614 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557436005615 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436005616 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436005617 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 557436005618 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436005619 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557436005620 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 557436005621 dimerization interface [polypeptide binding]; other site 557436005622 putative DNA binding site [nucleotide binding]; other site 557436005623 putative Zn2+ binding site [ion binding]; other site 557436005624 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557436005625 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557436005626 Walker A/P-loop; other site 557436005627 ATP binding site [chemical binding]; other site 557436005628 Q-loop/lid; other site 557436005629 ABC transporter signature motif; other site 557436005630 Walker B; other site 557436005631 D-loop; other site 557436005632 H-loop/switch region; other site 557436005633 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557436005634 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 557436005635 FtsX-like permease family; Region: FtsX; pfam02687 557436005636 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557436005637 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557436005638 Walker A/P-loop; other site 557436005639 ATP binding site [chemical binding]; other site 557436005640 Q-loop/lid; other site 557436005641 ABC transporter signature motif; other site 557436005642 Walker B; other site 557436005643 D-loop; other site 557436005644 H-loop/switch region; other site 557436005645 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557436005646 FtsX-like permease family; Region: FtsX; pfam02687 557436005647 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557436005648 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557436005649 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 557436005650 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557436005651 putative NAD(P) binding site [chemical binding]; other site 557436005652 catalytic Zn binding site [ion binding]; other site 557436005653 manganese transport protein MntH; Reviewed; Region: PRK00701 557436005654 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 557436005655 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 557436005656 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 557436005657 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 557436005658 active site 557436005659 dimer interface [polypeptide binding]; other site 557436005660 motif 1; other site 557436005661 motif 2; other site 557436005662 motif 3; other site 557436005663 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 557436005664 anticodon binding site; other site 557436005665 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 557436005666 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 557436005667 amino acid transporter; Region: 2A0306; TIGR00909 557436005668 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 557436005669 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 557436005670 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 557436005671 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557436005672 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 557436005673 non-specific DNA binding site [nucleotide binding]; other site 557436005674 salt bridge; other site 557436005675 sequence-specific DNA binding site [nucleotide binding]; other site 557436005676 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 557436005677 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 557436005678 substrate binding site [chemical binding]; other site 557436005679 THF binding site; other site 557436005680 zinc-binding site [ion binding]; other site 557436005681 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557436005682 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557436005683 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557436005684 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436005685 Coenzyme A binding pocket [chemical binding]; other site 557436005686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557436005687 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557436005688 NAD(P) binding site [chemical binding]; other site 557436005689 active site 557436005690 Predicted transcriptional regulators [Transcription]; Region: COG1733 557436005691 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557436005692 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 557436005693 dimer interface [polypeptide binding]; other site 557436005694 FMN binding site [chemical binding]; other site 557436005695 Predicted transcriptional regulators [Transcription]; Region: COG1733 557436005696 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 557436005697 dimerization interface [polypeptide binding]; other site 557436005698 putative DNA binding site [nucleotide binding]; other site 557436005699 putative Zn2+ binding site [ion binding]; other site 557436005700 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 557436005701 putative substrate translocation pore; other site 557436005702 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557436005703 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 557436005704 trimer interface [polypeptide binding]; other site 557436005705 active site 557436005706 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 557436005707 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557436005708 NAD(P) binding site [chemical binding]; other site 557436005709 putative active site [active] 557436005710 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 557436005711 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 557436005712 Zn binding site [ion binding]; other site 557436005713 hypothetical protein; Provisional; Region: PRK09609 557436005714 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 557436005715 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 557436005716 dimer interface [polypeptide binding]; other site 557436005717 active site 557436005718 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 557436005719 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 557436005720 putative dimer interface [polypeptide binding]; other site 557436005721 putative anticodon binding site; other site 557436005722 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 557436005723 homodimer interface [polypeptide binding]; other site 557436005724 motif 1; other site 557436005725 motif 2; other site 557436005726 active site 557436005727 motif 3; other site 557436005728 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 557436005729 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557436005730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557436005731 metal binding site [ion binding]; metal-binding site 557436005732 active site 557436005733 I-site; other site 557436005734 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 557436005735 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 557436005736 DXD motif; other site 557436005737 EAL domain; Region: EAL; pfam00563 557436005738 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557436005739 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 557436005740 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 557436005741 catalytic triad [active] 557436005742 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 557436005743 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 557436005744 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557436005745 NAD binding site [chemical binding]; other site 557436005746 substrate binding site [chemical binding]; other site 557436005747 putative active site [active] 557436005748 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 557436005749 Protein of unknown function (DUF3533); Region: DUF3533; pfam12051 557436005750 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 557436005751 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557436005752 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557436005753 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 557436005754 active site 557436005755 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557436005756 catalytic tetrad [active] 557436005757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557436005758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557436005759 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 557436005760 active site 557436005761 homodimer interface [polypeptide binding]; other site 557436005762 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 557436005763 Predicted secreted protein [Function unknown]; Region: COG4086 557436005764 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 557436005765 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 557436005766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436005767 homodimer interface [polypeptide binding]; other site 557436005768 catalytic residue [active] 557436005769 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557436005770 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557436005771 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 557436005772 NAD binding site [chemical binding]; other site 557436005773 dimer interface [polypeptide binding]; other site 557436005774 substrate binding site [chemical binding]; other site 557436005775 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557436005776 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557436005777 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 557436005778 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 557436005779 putative trimer interface [polypeptide binding]; other site 557436005780 putative CoA binding site [chemical binding]; other site 557436005781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557436005782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557436005783 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 557436005784 dimerization interface [polypeptide binding]; other site 557436005785 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557436005786 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 557436005787 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 557436005788 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 557436005789 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 557436005790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436005791 homodimer interface [polypeptide binding]; other site 557436005792 catalytic residue [active] 557436005793 Predicted permeases [General function prediction only]; Region: COG0679 557436005794 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 557436005795 RibD C-terminal domain; Region: RibD_C; cl17279 557436005796 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557436005797 Integrase core domain; Region: rve; pfam00665 557436005798 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557436005799 H-loop/switch region; other site 557436005800 RibD C-terminal domain; Region: RibD_C; cl17279 557436005801 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 557436005802 putative deacylase active site [active] 557436005803 Uncharacterized conserved protein [Function unknown]; Region: COG1359 557436005804 Beta-lactamase; Region: Beta-lactamase; pfam00144 557436005805 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557436005806 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557436005807 active site 557436005808 MgtC family; Region: MgtC; pfam02308 557436005809 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 557436005810 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 557436005811 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 557436005812 AzlC protein; Region: AzlC; cl00570 557436005813 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 557436005814 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557436005815 DNA-binding site [nucleotide binding]; DNA binding site 557436005816 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 557436005817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557436005818 homodimer interface [polypeptide binding]; other site 557436005819 catalytic residue [active] 557436005820 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 557436005821 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 557436005822 active site 557436005823 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 557436005824 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557436005825 active site 557436005826 catalytic tetrad [active] 557436005827 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 557436005828 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557436005829 Coenzyme A binding pocket [chemical binding]; other site 557436005830 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 557436005831 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 557436005832 Catalytic site [active] 557436005833 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 557436005834 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 557436005835 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 557436005836 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 557436005837 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557436005838 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557436005839 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557436005840 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 557436005841 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 557436005842 active site 557436005843 dimer interface [polypeptide binding]; other site 557436005844 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 557436005845 Ligand Binding Site [chemical binding]; other site 557436005846 Molecular Tunnel; other site 557436005847 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 557436005848 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 557436005849 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 557436005850 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 557436005851 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 557436005852 trmE is a tRNA modification GTPase; Region: trmE; cd04164 557436005853 G1 box; other site 557436005854 GTP/Mg2+ binding site [chemical binding]; other site 557436005855 Switch I region; other site 557436005856 G2 box; other site 557436005857 Switch II region; other site 557436005858 G3 box; other site 557436005859 G4 box; other site 557436005860 G5 box; other site 557436005861 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 557436005862 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 557436005863 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 557436005864 G-X-X-G motif; other site 557436005865 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 557436005866 RxxxH motif; other site 557436005867 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 557436005868 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 557436005869 ribonuclease P; Reviewed; Region: rnpA; PRK00499 557436005870 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399